BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645175|ref|NP_207345.1| transcription termination
factor Rho (rho) [Helicobacter pylori 26695]
(438 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1A63| The Nmr Structure Of The Rna Binding Domain Of ... 120 3e-28
pdb|1A62| Crystal Structure Of The Rna-Binding Domain Of ... 119 9e-28
pdb|2A8V|A Chain A, Rho Transcription Termination FactorRNA... 111 1e-25
pdb|1A8V|B Chain B, Structure Of The Rna-Binding Domain Of ... 111 1e-25
pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Fre... 54 5e-08
pdb|1E79|D Chain D, Bovine F1-Atpase Inhibited By Dccd (Dic... 52 1e-07
pdb|1MAB|B Chain B, Rat Liver F1-Atpase 52 1e-07
pdb|1NBM|D Chain D, The Structure Of Bovine F1-Atpase Coval... 52 1e-07
pdb|1NBM|E Chain E, The Structure Of Bovine F1-Atpase Coval... 52 1e-07
pdb|1H8E|D Chain D, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (... 52 1e-07
pdb|1FX0|B Chain B, Crystal Structure Of The Chloroplast F1... 44 5e-05
pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1... 40 7e-04
pdb|1SKY|B Chain B, Crystal Structure Of The Nucleotide Fre... 39 9e-04
pdb|1EFR|C Chain C, Bovine Mitochondrial F1-Atpase Complexe... 33 0.049
pdb|1MAB|A Chain A, Rat Liver F1-Atpase 33 0.049
pdb|1E79|A Chain A, Bovine F1-Atpase Inhibited By Dccd (Dic... 33 0.049
pdb|2CND| Nadh-Dependent Nitrate Reductase (Cytochrome B ... 29 1.2
pdb|1CNE| Nitrate Reductase (Cytochrome B Reductase Fragm... 29 1.2
pdb|1SCT|B Chain B, Scapharca Tetrameric Hemoglobin, Co-Sta... 28 2.0
pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive... 27 3.5
pdb|1NSF| D2 Hexamerization Domain Of N-Ethylmaleimide Se... 27 3.5
pdb|1BG3|A Chain A, Rat Brain Hexokinase Type I Complex Wit... 27 5.9
pdb|1KAM|A Chain A, Structure Of Bacillus Subtilis Nicotini... 26 7.8
pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Do... 26 7.8
pdb|1JGI|A Chain A, Crystal Structure Of The Active Site Mu... 26 7.8
pdb|1GW5|B Chain B, Ap2 Clathrin Adaptor Core 26 7.8
pdb|1G5A|A Chain A, Amylosucrase From Neisseria Polysacchar... 26 7.8
pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Do... 26 7.8
>pdb|1A63| The Nmr Structure Of The Rna Binding Domain Of E.Coli Rho Factor
Suggests Possible Rna-Protein Interactions, 10
Structures
Length = 130
Score = 120 bits (301), Expect = 3e-28
Identities = 54/129 (41%), Positives = 84/129 (64%)
Query: 24 HIEDLRTYPTEKLLEIANKLKVENPQEFKRQDLMFEILKTQVTQGGYILFTGILEIMPDG 83
++ +L+ P +L+ + + +EN ++QD++F ILK G I G+LEI+ DG
Sbjct: 2 NLTELKNTPVSELITLGENMGLENLARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQDG 61
Query: 84 YGFLRGFDGSFSDGHNDTYVSPSQIRRFALRNGDIVTGQVRSPKDQEKYYALLKIEAINY 143
+GFLR D S+ G +D YVSPSQIRRF LR GD ++G++R PK+ E+Y+ALLK+ +N+
Sbjct: 62 FGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNF 121
Query: 144 SPSDEIRNR 152
+ RN+
Sbjct: 122 DKPENARNK 130
>pdb|1A62| Crystal Structure Of The Rna-Binding Domain Of The Transcriptional
Terminator Protein Rho
Length = 130
Score = 119 bits (297), Expect = 9e-28
Identities = 54/129 (41%), Positives = 83/129 (63%)
Query: 24 HIEDLRTYPTEKLLEIANKLKVENPQEFKRQDLMFEILKTQVTQGGYILFTGILEIMPDG 83
++ +L+ P +L+ + +EN ++QD++F ILK G I G+LEI+ DG
Sbjct: 2 NLTELKNTPVSELITLGENXGLENLARXRKQDIIFAILKQHAKSGEDIFGDGVLEILQDG 61
Query: 84 YGFLRGFDGSFSDGHNDTYVSPSQIRRFALRNGDIVTGQVRSPKDQEKYYALLKIEAINY 143
+GFLR D S+ G +D YVSPSQIRRF LR GD ++G++R PK+ E+Y+ALLK+ +N+
Sbjct: 62 FGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNF 121
Query: 144 SPSDEIRNR 152
+ RN+
Sbjct: 122 DKPENARNK 130
>pdb|2A8V|A Chain A, Rho Transcription Termination FactorRNA COMPLEX
pdb|2A8V|B Chain B, Rho Transcription Termination FactorRNA COMPLEX
pdb|2A8V|C Chain C, Rho Transcription Termination FactorRNA COMPLEX
Length = 118
Score = 111 bits (278), Expect = 1e-25
Identities = 51/115 (44%), Positives = 77/115 (66%)
Query: 24 HIEDLRTYPTEKLLEIANKLKVENPQEFKRQDLMFEILKTQVTQGGYILFTGILEIMPDG 83
++ +L+ P +L+ + + +EN ++QD++F ILK G I G+LEI+ DG
Sbjct: 2 NLTELKNTPVSELITLGENMGLENLARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQDG 61
Query: 84 YGFLRGFDGSFSDGHNDTYVSPSQIRRFALRNGDIVTGQVRSPKDQEKYYALLKI 138
+GFLR D S+ G +D YVSPSQIRRF LR GD ++G++R PK+ E+Y+ALLK+
Sbjct: 62 FGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKV 116
>pdb|1A8V|B Chain B, Structure Of The Rna-Binding Domain Of The Rho
Transcription Terminator
pdb|1A8V|A Chain A, Structure Of The Rna-Binding Domain Of The Rho
Transcription Terminator
Length = 121
Score = 111 bits (278), Expect = 1e-25
Identities = 51/115 (44%), Positives = 77/115 (66%)
Query: 24 HIEDLRTYPTEKLLEIANKLKVENPQEFKRQDLMFEILKTQVTQGGYILFTGILEIMPDG 83
++ +L+ P +L+ + + +EN ++QD++F ILK G I G+LEI+ DG
Sbjct: 5 NLTELKNTPVSELITLGENMGLENLARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQDG 64
Query: 84 YGFLRGFDGSFSDGHNDTYVSPSQIRRFALRNGDIVTGQVRSPKDQEKYYALLKI 138
+GFLR D S+ G +D YVSPSQIRRF LR GD ++G++R PK+ E+Y+ALLK+
Sbjct: 65 FGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKV 119
>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 473
Score = 53.5 bits (127), Expect = 5e-08
Identities = 61/232 (26%), Positives = 95/232 (40%), Gaps = 16/232 (6%)
Query: 165 EQIKLEYEPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELI 224
E++ E E + +++DL +P KG + + GKT L++EL I H + +
Sbjct: 126 EELATEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGIS-V 184
Query: 225 ILLVDERPEEVTDMQRSVKGQ-VFSST------FDLPANNHIRIAELVLERAKR-RVEMG 276
V ER E D+ +K V S T + P +R+A L A+ R E G
Sbjct: 185 FAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQG 244
Query: 277 KDVVVLLDSITRLARAYNAVTPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIA 336
+D ++ +D+I R +A + V+ G++ S L GS+T I
Sbjct: 245 QDGLLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEMGQLQERITSTAKGSITSIQ 304
Query: 337 TALIETGSRMD---EVIFEEFKGTGNSEIVLARNIADRRIYPAFDILKSGTR 385
+ D F T N L R +A+ IYPA D L S +R
Sbjct: 305 AIYVPADDYTDPAPATTFSHLDATTN----LERKLAEMGIYPAVDPLVSTSR 352
>pdb|1E79|D Chain D, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
Length = 482
Score = 52.0 bits (123), Expect = 1e-07
Identities = 65/271 (23%), Positives = 112/271 (40%), Gaps = 21/271 (7%)
Query: 176 VTG-RMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEE 234
VTG +++DL +P KG + + GKT L+ EL + H + V ER E
Sbjct: 138 VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYS-VFAGVGERTRE 196
Query: 235 VTDMQRSV-------------KGQVFSSTFDLPANNHIRIAELVLERAKR-RVEMGKDVV 280
D+ + K + + P R+A L A+ R + G+DV+
Sbjct: 197 GNDLYHXMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVL 256
Query: 281 VLLDSITRLARAYNAVTPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATALI 340
+ +D+I R +A + V+ G++ S L + GS+T + +
Sbjct: 257 LFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIYV 316
Query: 341 ETGSRMDEVIFEEFKGTGNSEIVLARNIADRRIYPAFDILKSGTR-KDNILLGKDRLTKV 399
D F ++ VL+R IA+ IYPA D L S +R D ++G +
Sbjct: 317 PADDLTDPAPATTFAHL-DATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIVGSEHYD-- 373
Query: 400 WVLRNVMQQMDDIEALSFVYSKMQQTKDNEE 430
V R V + + D ++L + + + + +EE
Sbjct: 374 -VARGVQKILQDYKSLQDIIAILGMDELSEE 403
>pdb|1MAB|B Chain B, Rat Liver F1-Atpase
Length = 479
Score = 52.0 bits (123), Expect = 1e-07
Identities = 65/271 (23%), Positives = 112/271 (40%), Gaps = 21/271 (7%)
Query: 176 VTG-RMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEE 234
VTG +++DL +P KG + + GKT L+ EL + H + V ER E
Sbjct: 134 VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYS-VFAGVGERTRE 192
Query: 235 VTDMQRSV-------------KGQVFSSTFDLPANNHIRIAELVLERAKR-RVEMGKDVV 280
D+ + K + + P R+A L A+ R + G+DV+
Sbjct: 193 GNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVL 252
Query: 281 VLLDSITRLARAYNAVTPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATALI 340
+ +D+I R +A + V+ G++ S L + GS+T + +
Sbjct: 253 LFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIYV 312
Query: 341 ETGSRMDEVIFEEFKGTGNSEIVLARNIADRRIYPAFDILKSGTR-KDNILLGKDRLTKV 399
D F ++ VL+R IA+ IYPA D L S +R D ++G +
Sbjct: 313 PADDLTDPAPATTFAHL-DATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIVGSEHYD-- 369
Query: 400 WVLRNVMQQMDDIEALSFVYSKMQQTKDNEE 430
V R V + + D ++L + + + + +EE
Sbjct: 370 -VARGVQKILQDYKSLQDIIAILGMDELSEE 399
>pdb|1NBM|D Chain D, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
pdb|1NBM|F Chain F, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
Length = 480
Score = 52.0 bits (123), Expect = 1e-07
Identities = 65/271 (23%), Positives = 112/271 (40%), Gaps = 21/271 (7%)
Query: 176 VTG-RMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEE 234
VTG +++DL +P KG + + GKT L+ EL + H + V ER E
Sbjct: 138 VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYS-VFAGVGERTRE 196
Query: 235 VTDMQRSV-------------KGQVFSSTFDLPANNHIRIAELVLERAKR-RVEMGKDVV 280
D+ + K + + P R+A L A+ R + G+DV+
Sbjct: 197 GNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVL 256
Query: 281 VLLDSITRLARAYNAVTPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATALI 340
+ +D+I R +A + V+ G++ S L + GS+T + +
Sbjct: 257 LFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIYV 316
Query: 341 ETGSRMDEVIFEEFKGTGNSEIVLARNIADRRIYPAFDILKSGTR-KDNILLGKDRLTKV 399
D F ++ VL+R IA+ IYPA D L S +R D ++G +
Sbjct: 317 PADDLTDPAPATTFAHL-DATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIVGSEHYD-- 373
Query: 400 WVLRNVMQQMDDIEALSFVYSKMQQTKDNEE 430
V R V + + D ++L + + + + +EE
Sbjct: 374 -VARGVQKILQDYKSLQDIIAILGMDELSEE 403
>pdb|1NBM|E Chain E, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
Length = 480
Score = 52.0 bits (123), Expect = 1e-07
Identities = 65/271 (23%), Positives = 112/271 (40%), Gaps = 21/271 (7%)
Query: 176 VTG-RMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEE 234
VTG +++DL +P KG + + GKT L+ EL + H + V ER E
Sbjct: 138 VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYS-VFAGVGERTRE 196
Query: 235 VTDMQRSV-------------KGQVFSSTFDLPANNHIRIAELVLERAKR-RVEMGKDVV 280
D+ + K + + P R+A L A+ R + G+DV+
Sbjct: 197 GNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVL 256
Query: 281 VLLDSITRLARAYNAVTPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATALI 340
+ +D+I R +A + V+ G++ S L + GS+T + +
Sbjct: 257 LFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIXV 316
Query: 341 ETGSRMDEVIFEEFKGTGNSEIVLARNIADRRIYPAFDILKSGTR-KDNILLGKDRLTKV 399
D F ++ VL+R IA+ IYPA D L S +R D ++G +
Sbjct: 317 PADDLTDPAPATTFAHL-DATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIVGSEHYD-- 373
Query: 400 WVLRNVMQQMDDIEALSFVYSKMQQTKDNEE 430
V R V + + D ++L + + + + +EE
Sbjct: 374 -VARGVQKILQDYKSLQDIIAILGMDELSEE 403
>pdb|1H8E|D Chain D, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1E1R|D Chain D, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1Q|D Chain D, Bovine Mitochondrial F1-Atpase At 100k
pdb|1BMF|D Chain D, Bovine Mitochondrial F1-Atpase
pdb|1H8H|D Chain D, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1EFR|D Chain D, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1COW|D Chain D, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1H8E|F Chain F, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1E79|E Chain E, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1E79|F Chain F, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1E1R|E Chain E, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1R|F Chain F, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1Q|E Chain E, Bovine Mitochondrial F1-Atpase At 100k
pdb|1E1Q|F Chain F, Bovine Mitochondrial F1-Atpase At 100k
pdb|1BMF|E Chain E, Bovine Mitochondrial F1-Atpase
pdb|1BMF|F Chain F, Bovine Mitochondrial F1-Atpase
pdb|1H8H|E Chain E, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1H8H|F Chain F, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1EFR|E Chain E, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1EFR|F Chain F, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1COW|E Chain E, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1COW|F Chain F, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1H8E|E Chain E, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1QO1|D Chain D, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1QO1|E Chain E, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1QO1|F Chain F, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
Length = 482
Score = 52.0 bits (123), Expect = 1e-07
Identities = 65/271 (23%), Positives = 112/271 (40%), Gaps = 21/271 (7%)
Query: 176 VTG-RMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEE 234
VTG +++DL +P KG + + GKT L+ EL + H + V ER E
Sbjct: 138 VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYS-VFAGVGERTRE 196
Query: 235 VTDMQRSV-------------KGQVFSSTFDLPANNHIRIAELVLERAKR-RVEMGKDVV 280
D+ + K + + P R+A L A+ R + G+DV+
Sbjct: 197 GNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVL 256
Query: 281 VLLDSITRLARAYNAVTPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATALI 340
+ +D+I R +A + V+ G++ S L + GS+T + +
Sbjct: 257 LFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIYV 316
Query: 341 ETGSRMDEVIFEEFKGTGNSEIVLARNIADRRIYPAFDILKSGTR-KDNILLGKDRLTKV 399
D F ++ VL+R IA+ IYPA D L S +R D ++G +
Sbjct: 317 PADDLTDPAPATTFAHL-DATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIVGSEHYD-- 373
Query: 400 WVLRNVMQQMDDIEALSFVYSKMQQTKDNEE 430
V R V + + D ++L + + + + +EE
Sbjct: 374 -VARGVQKILQDYKSLQDIIAILGMDELSEE 403
>pdb|1FX0|B Chain B, Crystal Structure Of The Chloroplast F1-Atpase From
Spinach
pdb|1KMH|B Chain B, Crystal Structure Of Spinach Chloroplast F1-Atpase
Complexed With Tentoxin
Length = 498
Score = 43.5 bits (101), Expect = 5e-05
Identities = 61/288 (21%), Positives = 112/288 (38%), Gaps = 21/288 (7%)
Query: 142 NYSPSDEIRNRPLFDNLTPLFPDEQIKLEYEPTKVTGRMLDLFSPVGKGQRALIVAPPRT 201
N P D P+ + P F KL T + ++++L +P +G + +
Sbjct: 120 NLRPVDTRTTSPIHRS-APAFTQLDTKLSIFETGI--KVVNLLAPYRRGGKIGLFGGAGV 176
Query: 202 GKTELMKELAQGITSNHPEVELIILLVDERPEEVTDMQRSVKGQ--------------VF 247
GKT L+ EL I H V + V ER E D+ +K +
Sbjct: 177 GKTVLIMELINNIAKAHGGVS-VFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALV 235
Query: 248 SSTFDLPANNHIRIAELVLERAKRRVEMGK-DVVVLLDSITRLARAYNAVTPSSGKVLSG 306
+ P +R+ L A+ ++ + DV++ +D+I R +A + V+ G++ S
Sbjct: 236 YGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFVQAGSEVSALLGRMPSA 295
Query: 307 GVDANALHRPKRFFGAARNIEEGGSLTIIATALIETGSRMDEVIFEEFKGTGNSEIVLAR 366
L + GS+T I + D F ++ VL+R
Sbjct: 296 VGYQPTLSTEMGSLQERITSTKEGSITSIQAVYVPADDLTDPAPATTFAHL-DATTVLSR 354
Query: 367 NIADRRIYPAFDILKS-GTRKDNILLGKDRLTKVWVLRNVMQQMDDIE 413
+A + IYPA D L S T ++G++ ++ +Q+ +++
Sbjct: 355 GLAAKGIYPAVDPLDSTSTMLQPRIVGEEHYEIAQRVKETLQRYKELQ 402
>pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1-Atpase From
Spinach
pdb|1KMH|A Chain A, Crystal Structure Of Spinach Chloroplast F1-Atpase
Complexed With Tentoxin
Length = 507
Score = 39.7 bits (91), Expect = 7e-04
Identities = 48/228 (21%), Positives = 93/228 (40%), Gaps = 29/228 (12%)
Query: 171 YEPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDE 230
YEP + +D PVG+GQR LI+ +TGKT + + + V + + + +
Sbjct: 144 YEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTI--LNQQGQNVICVYVAIGQ 201
Query: 231 RPEEVTDMQRSVKGQ-------VFSSTFDLPANNHIRIAELVLERAKRRVEMGKDVVVLL 283
+ V + + + + V + T D PA A+ + + +++
Sbjct: 202 KASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIY 261
Query: 284 DSITRLARAYNAVT-----PSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATA 338
D +++ A+AY ++ P + G V F+ +R +E L ++
Sbjct: 262 DDLSKQAQAYRQMSLLLRRPPGREAYPGDV----------FYLHSRLLERAAKL----SS 307
Query: 339 LIETGSRMDEVIFEEFKGTGNSEI-VLARNIADRRIYPAFDILKSGTR 385
L+ GS I E G ++ I +I D +I+ + D+ +G R
Sbjct: 308 LLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIR 355
>pdb|1SKY|B Chain B, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 502
Score = 39.3 bits (90), Expect = 9e-04
Identities = 42/187 (22%), Positives = 80/187 (42%), Gaps = 23/187 (12%)
Query: 171 YEPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDE 230
+EP + + +D P+G+GQR LI+ +TGKT + + I + I + + +
Sbjct: 143 HEPLQTGIKAIDALVPIGRGQRELIIGDRQTGKTSVAIDTI--INQKDQNMICIYVAIGQ 200
Query: 231 RPEEVTDMQRSVKGQ-------VFSSTFDLPANNHIRIAELVLERAKRRVEMGKDVVVLL 283
+ V + ++ V +++ PA + + + MGK V+V++
Sbjct: 201 KESTVATVVETLAKHGAPDYTIVVTASASQPAPLLFLAPYAGVAMGEYFMIMGKHVLVVI 260
Query: 284 DSITRLARAYNAVT-----PSSGKVLSGGV---DANALHRPKRFFGAARNIEEGGSLTII 335
D +++ A AY ++ P + G + + L R + A + GGSLT
Sbjct: 261 DDLSKQAAAYRQLSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSDA----KGGGSLT-- 314
Query: 336 ATALIET 342
A +ET
Sbjct: 315 ALPFVET 321
>pdb|1EFR|C Chain C, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1COW|C Chain C, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1EFR|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1EFR|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1COW|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1COW|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
Length = 510
Score = 33.5 bits (75), Expect = 0.049
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 172 EPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTEL 206
EP + + +D P+G+GQR LI+ +TGKT +
Sbjct: 144 EPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSI 178
>pdb|1MAB|A Chain A, Rat Liver F1-Atpase
Length = 510
Score = 33.5 bits (75), Expect = 0.049
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 172 EPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTEL 206
EP + + +D P+G+GQR LI+ +TGKT +
Sbjct: 144 EPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSI 178
>pdb|1E79|A Chain A, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1E79|B Chain B, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1E79|C Chain C, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1E1R|C Chain C, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1Q|C Chain C, Bovine Mitochondrial F1-Atpase At 100k
pdb|1BMF|C Chain C, Bovine Mitochondrial F1-Atpase
pdb|1H8H|C Chain C, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1NBM|C Chain C, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
pdb|1H8E|C Chain C, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1E1R|A Chain A, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1Q|A Chain A, Bovine Mitochondrial F1-Atpase At 100k
pdb|1BMF|A Chain A, Bovine Mitochondrial F1-Atpase
pdb|1BMF|B Chain B, Bovine Mitochondrial F1-Atpase
pdb|1H8H|A Chain A, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1NBM|A Chain A, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
pdb|1NBM|B Chain B, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
pdb|1H8E|A Chain A, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1H8E|B Chain B, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1E1R|B Chain B, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1Q|B Chain B, Bovine Mitochondrial F1-Atpase At 100k
pdb|1H8H|B Chain B, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1QO1|C Chain C, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1QO1|A Chain A, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1QO1|B Chain B, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
Length = 510
Score = 33.5 bits (75), Expect = 0.049
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 172 EPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTEL 206
EP + + +D P+G+GQR LI+ +TGKT +
Sbjct: 144 EPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSI 178
>pdb|2CND| Nadh-Dependent Nitrate Reductase (Cytochrome B Reductase Fragment)
(E.C.1.6.6.1) Complexed With Fad (Synchrotron X-Ray
Diffraction)
pdb|1CNF| Nitrate Reductase (Cytochrome B Reductase Fragment) (E.C.1.6.6.1)
Complexed With Fad And Adp
Length = 270
Score = 28.9 bits (63), Expect = 1.2
Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 10/90 (11%)
Query: 155 FDNLTPLFPDEQIKLEYEPTKVTGRMLDLFSPVG----KGQRALIVAPPRTGKTELMKEL 210
F N P FP+ + +Y + G +D+ P+G G+ + ++ GK + L
Sbjct: 84 FKNEHPKFPNGGLMTQYLDSLPVGSYIDVKGPLGHVEYTGRGSFVI----NGKQRNARRL 139
Query: 211 AQ--GITSNHPEVELIILLVDERPEEVTDM 238
A G + P ++I ++ ++PE+ T+M
Sbjct: 140 AMICGGSGITPMYQIIQAVLRDQPEDHTEM 169
>pdb|1CNE| Nitrate Reductase (Cytochrome B Reductase Fragment) (E.C.1.6.6.1)
Mutant With Cys 242 Replaced By Ser (C242s) Complexed
With Fad
Length = 270
Score = 28.9 bits (63), Expect = 1.2
Identities = 22/90 (24%), Positives = 43/90 (47%), Gaps = 10/90 (11%)
Query: 155 FDNLTPLFPDEQIKLEYEPTKVTGRMLDLFSPVG----KGQRALIVAPPRTGKTELMKEL 210
F N P FP+ + +Y + G +D+ P+G G+ + ++ GK + L
Sbjct: 84 FKNEHPKFPNGGLMTQYLDSLPVGSYIDVKGPLGHVEYTGRGSFVI----NGKQRNARRL 139
Query: 211 AQ--GITSNHPEVELIILLVDERPEEVTDM 238
A G + P ++I ++ ++PE+ T+M
Sbjct: 140 AMICGGSGITPMYQIIQAVLRDQPEDHTEM 169
>pdb|1SCT|B Chain B, Scapharca Tetrameric Hemoglobin, Co-State
pdb|1SCT|D Chain D, Scapharca Tetrameric Hemoglobin, Co-State
pdb|1SCT|F Chain F, Scapharca Tetrameric Hemoglobin, Co-State
pdb|1SCT|H Chain H, Scapharca Tetrameric Hemoglobin, Co-State
Length = 151
Score = 28.1 bits (61), Expect = 2.0
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 386 KDNILLGKDRLTKVWVLRNVMQQMDDIEALSFVYSKMQQTKDNEE 430
KDN L +T ++ L+N + +DD+E L V K N +
Sbjct: 63 KDNSKLRGHSITLMYALQNFVDALDDVERLKCVVEKFAVNHINRQ 107
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 27.3 bits (59), Expect = 3.5
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 8/59 (13%)
Query: 194 LIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEEVTDMQRSVKGQVFSSTFD 252
L+ PP +GKT L ++A+ SN P +++ P+++ + K Q FD
Sbjct: 68 LLEGPPHSGKTALAAKIAE--ESNFPFIKIC------SPDKMIGFSETAKCQAMKKIFD 118
>pdb|1NSF| D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive Factor
(Nsf)
Length = 273
Score = 27.3 bits (59), Expect = 3.5
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 8/59 (13%)
Query: 194 LIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEEVTDMQRSVKGQVFSSTFD 252
L+ PP +GKT L ++A+ SN P +++ P+++ + K Q FD
Sbjct: 67 LLEGPPHSGKTALAAKIAE--ESNFPFIKIC------SPDKMIGFSETAKCQAMKKIFD 117
>pdb|1BG3|A Chain A, Rat Brain Hexokinase Type I Complex With Glucose And
Inhibitor Glucose-6-Phosphate
pdb|1BG3|B Chain B, Rat Brain Hexokinase Type I Complex With Glucose And
Inhibitor Glucose-6-Phosphate
Length = 919
Score = 26.6 bits (57), Expect = 5.9
Identities = 16/52 (30%), Positives = 26/52 (49%), Gaps = 2/52 (3%)
Query: 261 IAELVLERAKRRVEMGKDVVVLLDSI--TRLARAYNAVTPSSGKVLSGGVDA 310
+A L+ + KRR E DVV +++ T + AY T G ++ G +A
Sbjct: 634 VASLLRDAVKRREEFDLDVVAVVNDTVGTMMTCAYEEPTCEIGLIVGTGTNA 685
>pdb|1KAM|A Chain A, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAM|B Chain B, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAM|C Chain C, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAM|D Chain D, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAQ|A Chain A, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAQ|B Chain B, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAQ|C Chain C, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAQ|D Chain D, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAQ|E Chain E, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
pdb|1KAQ|F Chain F, Structure Of Bacillus Subtilis Nicotinic Acid
Mononucleotide Adenylyl Transferase
Length = 194
Score = 26.2 bits (56), Expect = 7.8
Identities = 13/29 (44%), Positives = 17/29 (57%)
Query: 241 SVKGQVFSSTFDLPANNHIRIAELVLERA 269
S K +F TFD P N H+ +A VL +A
Sbjct: 6 SKKIGIFGGTFDPPHNGHLLMANEVLYQA 34
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 26.2 bits (56), Expect = 7.8
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 165 EQIKLEYEPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTELMKELA 211
E++K E K R ++ + + KG L+V PP GKT L + +A
Sbjct: 50 EELKEIVEFLKNPSRFHEMGARIPKG--VLLVGPPGVGKTHLARAVA 94
>pdb|1JGI|A Chain A, Crystal Structure Of The Active Site Mutant Glu328gln Of
Amylosucrase From Neisseria Polysaccharea In Complex
With The Natural Substrate Sucrose
Length = 628
Score = 26.2 bits (56), Expect = 7.8
Identities = 10/22 (45%), Positives = 15/22 (67%)
Query: 153 PLFDNLTPLFPDEQIKLEYEPT 174
PLFDN +FPD ++ +Y+ T
Sbjct: 203 PLFDNFYYIFPDRRMPDQYDRT 224
>pdb|1GW5|B Chain B, Ap2 Clathrin Adaptor Core
Length = 591
Score = 26.2 bits (56), Expect = 7.8
Identities = 23/99 (23%), Positives = 39/99 (39%), Gaps = 18/99 (18%)
Query: 142 NYSPSDEIRNRPLFDNLTPLFPDEQIKLEYEPTKVTGRMLDLFSPVGKGQRALI--VAPP 199
NY+P D+ + + + +TP + KV + L+L L+ +APP
Sbjct: 228 NYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKKLAPP 287
Query: 200 RTGKTELMKELAQGITSNHPEVELII-----LLVDERPE 233
+ S PEV+ + L+V +RPE
Sbjct: 288 LV-----------TLLSGEPEVQYVALRNINLIVQKRPE 315
>pdb|1G5A|A Chain A, Amylosucrase From Neisseria Polysaccharea
pdb|1JG9|A Chain A, Crystal Structure Of Amylosucrase From Neisseria
Polysaccharea In Complex With D-Glucose
Length = 628
Score = 26.2 bits (56), Expect = 7.8
Identities = 10/22 (45%), Positives = 15/22 (67%)
Query: 153 PLFDNLTPLFPDEQIKLEYEPT 174
PLFDN +FPD ++ +Y+ T
Sbjct: 203 PLFDNFYYIFPDRRMPDQYDRT 224
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 26.2 bits (56), Expect = 7.8
Identities = 16/47 (34%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 165 EQIKLEYEPTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTELMKELA 211
E++K E K R ++ + + KG L+V PP GKT L + +A
Sbjct: 26 EELKEIVEFLKNPSRFHEMGARIPKG--VLLVGPPGVGKTHLARAVA 70
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.317 0.136 0.381
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,544,508
Number of Sequences: 13198
Number of extensions: 113693
Number of successful extensions: 310
Number of sequences better than 10.0: 28
Number of HSP's better than 10.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 284
Number of HSP's gapped (non-prelim): 28
length of query: 438
length of database: 2,899,336
effective HSP length: 91
effective length of query: 347
effective length of database: 1,698,318
effective search space: 589316346
effective search space used: 589316346
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)