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|15645069|ref|NP_207239.1| VirB4 homolog [Helicobacter
pylori 26695]
(807 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|1GKI|A Chain A, Plasmid Coupling Protein Trwb In Comple... 30 1.4
pdb|1GL6|A Chain A, Plasmid Coupling Protein Trwb In Comple... 30 1.4
pdb|1SEI|A Chain A, Structure Of 30s Ribosomal Protein S8 >... 30 1.4
pdb|1E79|D Chain D, Bovine F1-Atpase Inhibited By Dccd (Dic... 28 4.0
pdb|1MAB|B Chain B, Rat Liver F1-Atpase 28 4.0
pdb|1FX0|B Chain B, Crystal Structure Of The Chloroplast F1... 28 4.0
pdb|1NBM|D Chain D, The Structure Of Bovine F1-Atpase Coval... 28 4.0
pdb|1NBM|E Chain E, The Structure Of Bovine F1-Atpase Coval... 28 4.0
pdb|1H8E|D Chain D, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (... 28 4.0
pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Fre... 28 4.0
pdb|1F8S|A Chain A, Crystal Structure Of L-Amino Acid Oxida... 27 9.0
>pdb|1GKI|A Chain A, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|B Chain B, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|D Chain D, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|E Chain E, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|F Chain F, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GKI|G Chain G, Plasmid Coupling Protein Trwb In Complex With Adp And
Mg2+.
pdb|1GL7|A Chain A, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|B Chain B, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|D Chain D, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|E Chain E, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|F Chain F, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolisable Atp-Analogue Adpnp.
pdb|1GL7|G Chain G, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolisable Atp-Analogue Adpnp.
pdb|1E9S|A Chain A, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|F Chain F, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|G Chain G, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|L Chain L, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|E Chain E, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|M Chain M, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|H Chain H, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|I Chain I, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|J Chain J, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9R|B Chain B, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9S|B Chain B, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9S|K Chain K, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9R|A Chain A, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|E Chain E, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|G Chain G, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9S|D Chain D, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Unbound Monoclinic Form.
pdb|1E9R|F Chain F, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate.
pdb|1E9R|D Chain D, Bacterial Conjugative Coupling Protein Trwbdeltan70.
Trigonal Form In Complex With Sulphate
Length = 437
Score = 29.6 bits (65), Expect = 1.4
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 652 YIFIDEAKSVIENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGAK 702
++FIDE S+ + LA + D L + RK + Q +QLD V G K
Sbjct: 282 WLFIDELASLEK----LASLADALTKGRKAGLRVVAGLQSTSQLDDVYGVK 328
>pdb|1GL6|A Chain A, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|B Chain B, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|D Chain D, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|E Chain E, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|F Chain F, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolysable Gtp Analogue Gdpnp
pdb|1GL6|G Chain G, Plasmid Coupling Protein Trwb In Complex With The
Non-Hydrolysable Gtp Analogue Gdpnp
Length = 436
Score = 29.6 bits (65), Expect = 1.4
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 652 YIFIDEAKSVIENPIMLAKIKDTLAQARKLNGVLTLAFQDINQLDGVEGAK 702
++FIDE S+ + LA + D L + RK + Q +QLD V G K
Sbjct: 281 WLFIDELASLEK----LASLADALTKGRKAGLRVVAGLQSTSQLDDVYGVK 327
>pdb|1SEI|A Chain A, Structure Of 30s Ribosomal Protein S8
pdb|1SEI|B Chain B, Structure Of 30s Ribosomal Protein S8
Length = 130
Score = 29.6 bits (65), Expect = 1.4
Identities = 22/84 (26%), Positives = 37/84 (43%), Gaps = 11/84 (13%)
Query: 317 VEIDELNDMIKTDRVLMQEISLNILVHAKTKTDLDSACIEITNLLKQKGIVSTQESI--- 373
V D + DM+ R + N++ H K + EI +LK++G + E I
Sbjct: 1 VMTDPIADMLTAIR------NANMVRHEKLEVPASKIKREIAEILKREGFIRDYEYIEDN 54
Query: 374 --GMLPMFFSFFPNRNRLNFRKRL 395
G+L +F + PN + KR+
Sbjct: 55 KQGILRIFLKYGPNERVITGLKRI 78
>pdb|1E79|D Chain D, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
Length = 482
Score = 28.1 bits (61), Expect = 4.0
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 457 IFGGTGAGKTTLIEFLITNCFK 478
+FGG G GKT LI LI N K
Sbjct: 158 LFGGAGVGKTVLIMELINNVAK 179
>pdb|1MAB|B Chain B, Rat Liver F1-Atpase
Length = 479
Score = 28.1 bits (61), Expect = 4.0
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 457 IFGGTGAGKTTLIEFLITNCFK 478
+FGG G GKT LI LI N K
Sbjct: 154 LFGGAGVGKTVLIMELINNVAK 175
>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 = 28.1 bits (61), Expect = 4.0
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 457 IFGGTGAGKTTLIEFLITNCFK 478
+FGG G GKT LI LI N K
Sbjct: 170 LFGGAGVGKTVLIMELINNIAK 191
>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 = 28.1 bits (61), Expect = 4.0
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 457 IFGGTGAGKTTLIEFLITNCFK 478
+FGG G GKT LI LI N K
Sbjct: 158 LFGGAGVGKTVLIMELINNVAK 179
>pdb|1NBM|E Chain E, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
Length = 480
Score = 28.1 bits (61), Expect = 4.0
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 457 IFGGTGAGKTTLIEFLITNCFK 478
+FGG G GKT LI LI N K
Sbjct: 158 LFGGAGVGKTVLIMELINNVAK 179
>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 = 28.1 bits (61), Expect = 4.0
Identities = 13/22 (59%), Positives = 14/22 (63%)
Query: 457 IFGGTGAGKTTLIEFLITNCFK 478
+FGG G GKT LI LI N K
Sbjct: 158 LFGGAGVGKTVLIMELINNVAK 179
>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 = 28.1 bits (61), Expect = 4.0
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 457 IFGGTGAGKTTLIEFLITN 475
+FGG G GKT LI+ LI N
Sbjct: 156 LFGGAGVGKTVLIQELIHN 174
>pdb|1F8S|A Chain A, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8S|B Chain B, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8S|C Chain C, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8S|D Chain D, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8S|E Chain E, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8S|F Chain F, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8S|G Chain G, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8S|H Chain H, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O- Aminobenzoate.
pdb|1F8R|B Chain B, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|D Chain D, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|C Chain C, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|A Chain A, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
Length = 498
Score = 26.9 bits (58), Expect = 9.0
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 4/36 (11%)
Query: 696 DGVEGAKSIIENAAQVILYPTNNFEK----LESYGI 727
DG+ G KS + ++ I YP +NF + +YGI
Sbjct: 339 DGIHGGKSTTDLPSRFIYYPNHNFTNGVGVIIAYGI 374
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
0.319 0.137 0.379
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,332,297
Number of Sequences: 13198
Number of extensions: 180296
Number of successful extensions: 414
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 405
Number of HSP's gapped (non-prelim): 13
length of query: 807
length of database: 2,899,336
effective HSP length: 96
effective length of query: 711
effective length of database: 1,632,328
effective search space: 1160585208
effective search space used: 1160585208
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.9 bits)