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|15645332|ref|NP_207503.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(300 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|1MAB|G Chain G, Rat Liver F1-Atpase 31 0.20
pdb|1I7E|A Chain A, C-Terminal Domain Of Mouse Brain Tubby ... 29 0.75
pdb|1C8Z|A Chain A, C-Terminal Domain Of Mouse Brain Tubby ... 29 0.75
pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular ... 29 0.75
pdb|1JR3|E Chain E, Crystal Structure Of The Processivity C... 28 0.98
pdb|1OAC|B Chain B, Oxidoreductase, Copper, Tpq, Periplasmi... 26 6.3
pdb|1QAL|B Chain B, The Active Site Base Controls Cofactor ... 26 6.3
pdb|1QAF|B Chain B, The Active Site Base Controls Cofactor ... 26 6.3
pdb|1QAK|B Chain B, The Active Site Base Controls Cofactor ... 26 6.3
pdb|1JRQ|B Chain B, X-Ray Structure Analysis Of The Role Of... 26 6.3
pdb|1LLD|A Chain A, L-Lactate Dehydrogenase (E.C.1.1.1.27) ... 26 6.3
>pdb|1MAB|G Chain G, Rat Liver F1-Atpase
Length = 270
Score = 30.8 bits (68), Expect = 0.20
Identities = 37/161 (22%), Positives = 70/161 (42%), Gaps = 24/161 (14%)
Query: 93 GVGTKRKSVVLKTKNGQYFVS--------PDNGTLTLVAQTLGIDSVREIDEKA---NRL 141
G+G K KS++ +T + Q+ VS P G +++A L ++S E DE + N+
Sbjct: 104 GIGEKIKSILYRTHSDQFLVSFKDVGRKPPTFGDASVIALEL-LNSGYEFDEGSIIFNQF 162
Query: 142 KGSEKSYTFHGRDVYAYTGARLASGAITFEQVGPELPPKVVE------IPYQKAKATKGE 195
K S SY + +++++ A ++ + ++ E I Y ++T E
Sbjct: 163 K-SVISYKTEEKPIFSFSTVVAAENMSIYDDIDADVLQNYQEYNLANIIYYSLKESTTSE 221
Query: 196 VKGNIPILDIQYGNVWSNISDKLLNQAKIKLNDTLCVTIFK 236
+ +D N N SD ++++ + N T I K
Sbjct: 222 QSARMTAMD----NASKNASD-MIDKLTLTFNRTRQAVITK 257
>pdb|1I7E|A Chain A, C-Terminal Domain Of Mouse Brain Tubby Protein Bound To
Phosphatidylinositol 4,5-Bis-Phosphate
Length = 265
Score = 28.9 bits (63), Expect = 0.75
Identities = 31/130 (23%), Positives = 55/130 (41%), Gaps = 21/130 (16%)
Query: 26 ILQTDFSLKDGAVSAMKGVAFSVDSHLKIFDLTHEIPPYNIWEGAYRLYQTASYWPKGSV 85
++ T F++ D V+ K + +++S L E+ A Y+T KG
Sbjct: 95 LMGTKFTVYDNGVNPQKASSSTLESGT----LRQEL--------AAVCYETNVLGFKGPR 142
Query: 86 FVSVVDPGVGTKRKSVVLKTKNGQYFVSPDNGTLTLVAQTLGIDSVREIDEKANRLKGSE 145
+SV+ PG+ + V ++ +N ++ TL Q +S+ E+ K
Sbjct: 143 KMSVIVPGMNMVHERVCIRPRN-------EHETLLARWQNKNTESIIELQNKTPVWNDDT 195
Query: 146 KSY--TFHGR 153
+SY FHGR
Sbjct: 196 ESYVLNFHGR 205
>pdb|1C8Z|A Chain A, C-Terminal Domain Of Mouse Brain Tubby Protein
Length = 265
Score = 28.9 bits (63), Expect = 0.75
Identities = 31/130 (23%), Positives = 55/130 (41%), Gaps = 21/130 (16%)
Query: 26 ILQTDFSLKDGAVSAMKGVAFSVDSHLKIFDLTHEIPPYNIWEGAYRLYQTASYWPKGSV 85
++ T F++ D V+ K + +++S L E+ A Y+T KG
Sbjct: 95 LMGTKFTVYDNGVNPQKASSSTLESGT----LRQEL--------AAVCYETNVLGFKGPR 142
Query: 86 FVSVVDPGVGTKRKSVVLKTKNGQYFVSPDNGTLTLVAQTLGIDSVREIDEKANRLKGSE 145
+SV+ PG+ + V ++ +N ++ TL Q +S+ E+ K
Sbjct: 143 KMSVIVPGMNMVHERVCIRPRN-------EHETLLARWQNKNTESIIELQNKTPVWNDDT 195
Query: 146 KSY--TFHGR 153
+SY FHGR
Sbjct: 196 QSYVLNFHGR 205
>pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1JV2|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
Length = 957
Score = 28.9 bits (63), Expect = 0.75
Identities = 14/46 (30%), Positives = 25/46 (53%), Gaps = 1/46 (2%)
Query: 249 VASFGDVPEGQP-LVYLNSLLNVSVALNRDNFAQKYQIKSGADWNI 293
V G + G+ ++Y+ SLL +N++N Y +KS A +N+
Sbjct: 883 VCQVGRLDRGKSAILYVKSLLWTETFMNKENQNHSYSLKSSASFNV 928
>pdb|1JR3|E Chain E, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1A5T| Crystal Structure Of The Delta Prime Subunit Of The Clamp-Loader
Complex Of Escherichia Coli Dna Polymerase Iii
Length = 334
Score = 28.5 bits (62), Expect = 0.98
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 8/39 (20%)
Query: 110 YFVSPDNGTLTLVAQTLGIDSVREIDEKAN---RLKGSE 145
Y ++P+ G TLG+D+VRE+ EK N RL G++
Sbjct: 77 YTLAPEKGK-----NTLGVDAVREVTEKLNEHARLGGAK 110
>pdb|1OAC|B Chain B, Oxidoreductase, Copper, Tpq, Periplasmic, Signal Mol_id:
1; Molecule: Copper Amine Oxidase; Chain: A, B; Ec:
1.4.3.6
pdb|1OAC|A Chain A, Oxidoreductase, Copper, Tpq, Periplasmic, Signal Mol_id:
1; Molecule: Copper Amine Oxidase; Chain: A, B; Ec:
1.4.3.6
pdb|1SPU|B Chain B, Structure Of Oxidoreductase
pdb|1DYU|B Chain B, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase: X-Ray Crystallographic
Studies With Mutational Variants.
pdb|1D6Z|B Chain B, Crystal Structure Of The Aerobically Freeze Trapped Rate-
Determining Catalytic Intermediate Of E. Coli Copper-
Containing Amine Oxidase.
pdb|1D6Y|B Chain B, Crystal Structure Of E. Coli Copper-Containing Amine
Oxidase Anaerobically Reduced With Beta-Phenylethylamine
And Complexed With Nitric Oxide.
pdb|1D6U|B Chain B, Crystal Structure Of E. Coli Amine Oxidase Anaerobically
Reduced With Beta-Phenylethylamine
pdb|1SPU|A Chain A, Structure Of Oxidoreductase
pdb|1DYU|A Chain A, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase: X-Ray Crystallographic
Studies With Mutational Variants.
pdb|1D6Z|A Chain A, Crystal Structure Of The Aerobically Freeze Trapped Rate-
Determining Catalytic Intermediate Of E. Coli Copper-
Containing Amine Oxidase.
pdb|1D6Y|A Chain A, Crystal Structure Of E. Coli Copper-Containing Amine
Oxidase Anaerobically Reduced With Beta-Phenylethylamine
And Complexed With Nitric Oxide.
pdb|1D6U|A Chain A, Crystal Structure Of E. Coli Amine Oxidase Anaerobically
Reduced With Beta-Phenylethylamine
Length = 727
Score = 25.8 bits (55), Expect = 6.3
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 7/53 (13%)
Query: 92 PGVGTKRKSVVLK----TKNGQY---FVSPDNGTLTLVAQTLGIDSVREIDEK 137
P V T+R+ +V++ N Y ++ +NGT+ + A GI++V+ + K
Sbjct: 446 PNVSTERRELVVRWISTVGNXDYIFDWIFHENGTIGIDAGATGIEAVKGVKAK 498
>pdb|1QAL|B Chain B, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase : X-Ray Crystallographic
Studies With Mutational Variants
pdb|1QAL|A Chain A, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase : X-Ray Crystallographic
Studies With Mutational Variants
Length = 721
Score = 25.8 bits (55), Expect = 6.3
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 7/53 (13%)
Query: 92 PGVGTKRKSVVLK----TKNGQY---FVSPDNGTLTLVAQTLGIDSVREIDEK 137
P V T+R+ +V++ N Y ++ +NGT+ + A GI++V+ + K
Sbjct: 441 PNVSTERRELVVRWISTVGNXDYIFDWIFHENGTIGIDAGATGIEAVKGVKAK 493
>pdb|1QAF|B Chain B, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase : X-Ray Crystallographic
Studies With Mutational Variants
pdb|1QAF|A Chain A, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase : X-Ray Crystallographic
Studies With Mutational Variants
Length = 721
Score = 25.8 bits (55), Expect = 6.3
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 7/53 (13%)
Query: 92 PGVGTKRKSVVLK----TKNGQY---FVSPDNGTLTLVAQTLGIDSVREIDEK 137
P V T+R+ +V++ N Y ++ +NGT+ + A GI++V+ + K
Sbjct: 441 PNVSTERRELVVRWISTVGNXDYIFDWIFHENGTIGIDAGATGIEAVKGVKAK 493
>pdb|1QAK|B Chain B, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase : X-Ray Crystallographic
Studies With Mutational Variants
pdb|1QAK|A Chain A, The Active Site Base Controls Cofactor Reactivity In
Escherichia Coli Amine Oxidase : X-Ray Crystallographic
Studies With Mutational Variants
Length = 722
Score = 25.8 bits (55), Expect = 6.3
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 7/53 (13%)
Query: 92 PGVGTKRKSVVLK----TKNGQY---FVSPDNGTLTLVAQTLGIDSVREIDEK 137
P V T+R+ +V++ N Y ++ +NGT+ + A GI++V+ + K
Sbjct: 441 PNVSTERRELVVRWISTVGNXDYIFDWIFHENGTIGIDAGATGIEAVKGVKAK 493
>pdb|1JRQ|B Chain B, X-Ray Structure Analysis Of The Role Of The Conserved
Tyrosine-369 In Active Site Of E. Coli Amine Oxidase
pdb|1JRQ|A Chain A, X-Ray Structure Analysis Of The Role Of The Conserved
Tyrosine-369 In Active Site Of E. Coli Amine Oxidase
Length = 727
Score = 25.8 bits (55), Expect = 6.3
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 7/53 (13%)
Query: 92 PGVGTKRKSVVLK----TKNGQY---FVSPDNGTLTLVAQTLGIDSVREIDEK 137
P V T+R+ +V++ N Y ++ +NGT+ + A GI++V+ + K
Sbjct: 446 PNVSTERRELVVRWISTVGNXDYIFDWIFHENGTIGIDAGATGIEAVKGVKAK 498
>pdb|1LLD|A Chain A, L-Lactate Dehydrogenase (E.C.1.1.1.27) (T-State) Mutant
With Cys 199 Replaced By Ser (C199s) Complex With Nadh
pdb|1LLD|B Chain B, L-Lactate Dehydrogenase (E.C.1.1.1.27) (T-State) Mutant
With Cys 199 Replaced By Ser (C199s) Complex With Nadh
pdb|1LTH|R Chain R, Regular Mixture Of 1:1 Complex Of T- And R- State
Tetramers Of L-Lactate Dehydrogenase (E.C.1.1.1.27)
Mutant With Cys 199 Replaced By Ser (C199s)
pdb|1LTH|T Chain T, Regular Mixture Of 1:1 Complex Of T- And R- State
Tetramers Of L-Lactate Dehydrogenase (E.C.1.1.1.27)
Mutant With Cys 199 Replaced By Ser (C199s)
Length = 319
Score = 25.8 bits (55), Expect = 6.3
Identities = 17/63 (26%), Positives = 24/63 (37%), Gaps = 1/63 (1%)
Query: 91 DPGVGTKRKSVVLKTKNGQYFVSPDNGTLTLVAQTLGIDSVREIDEKANR-LKGSEKSYT 149
DP KR+ + + KN Y + G G+D + + NR L S
Sbjct: 208 DPLDADKREEIHQEVKNAAYKIINGKGATNYAIGMSGVDIIEAVLHDTNRILPVSSMLKD 267
Query: 150 FHG 152
FHG
Sbjct: 268 FHG 270
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
0.316 0.135 0.391
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,809,310
Number of Sequences: 13198
Number of extensions: 77409
Number of successful extensions: 169
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 167
Number of HSP's gapped (non-prelim): 11
length of query: 300
length of database: 2,899,336
effective HSP length: 88
effective length of query: 212
effective length of database: 1,737,912
effective search space: 368437344
effective search space used: 368437344
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: 54 (25.4 bits)