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|15646175|ref|NP_208359.1| hypothetical protein
[Helicobacter pylori 26695]
(183 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|2BSP|A Chain A, Bacillus Subtilis Pectate Lyase R279k M... 27 1.4
pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase 27 1.4
pdb|1C0N|A Chain A, Csdb Protein, Nifs Homologue 26 2.4
pdb|1JF9|A Chain A, Crystal Structure Of Selenocysteine Lyase 26 2.4
pdb|1KMJ|A Chain A, E. Coli NifsCSDB PROTEIN AT 2.0A WITH T... 26 2.4
pdb|1B9B|B Chain B, Triosephosphate Isomerase Of Thermotoga... 25 4.0
pdb|1QKS|A Chain A, Cytochrome Cd1 Nitrite Reductase, Oxidi... 25 5.3
pdb|1HJ5|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reoxi... 25 5.3
pdb|1E2R|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reduc... 25 5.3
pdb|1DJN|A Chain A, Structural And Biochemical Characteriza... 24 9.0
pdb|1DML|E Chain E, Crystal Structure Of Herpes Simplex Ul4... 24 9.0
pdb|1DJQ|A Chain A, Structural And Biochemical Characteriza... 24 9.0
>pdb|2BSP|A Chain A, Bacillus Subtilis Pectate Lyase R279k Mutant
Length = 420
Score = 26.9 bits (58), Expect = 1.4
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 18 DAKKLENKNLKKERELLEITGNQFVANDKTKTAVIQGNVQIK 59
+A+ KN +K R +++I N + T V+ GN QIK
Sbjct: 129 EARARSQKN-QKARVMVDIPANTTIVGSGTNAKVVGGNFQIK 169
>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
Length = 420
Score = 26.9 bits (58), Expect = 1.4
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 18 DAKKLENKNLKKERELLEITGNQFVANDKTKTAVIQGNVQIK 59
+A+ KN +K R +++I N + T V+ GN QIK
Sbjct: 129 EARARSQKN-QKARVMVDIPANTTIVGSGTNAKVVGGNFQIK 169
>pdb|1C0N|A Chain A, Csdb Protein, Nifs Homologue
Length = 406
Score = 26.2 bits (56), Expect = 2.4
Identities = 11/30 (36%), Positives = 19/30 (62%)
Query: 122 NAVVREVGKSNVITGDEIILNKTKGYADVL 151
N V G SNV GD II+++ + +A+++
Sbjct: 99 NLVANSWGNSNVRAGDNIIISQMEHHANIV 128
>pdb|1JF9|A Chain A, Crystal Structure Of Selenocysteine Lyase
Length = 408
Score = 26.2 bits (56), Expect = 2.4
Identities = 11/30 (36%), Positives = 19/30 (62%)
Query: 122 NAVVREVGKSNVITGDEIILNKTKGYADVL 151
N V G SNV GD II+++ + +A+++
Sbjct: 101 NLVANSWGNSNVRAGDNIIISQMEHHANIV 130
>pdb|1KMJ|A Chain A, E. Coli NifsCSDB PROTEIN AT 2.0A WITH THE CYSTEINE
Persulfide Intermediate (Residue Css).
pdb|1KMK|A Chain A, E. Coli NifsCSDB PROTEIN AT 2.20A WITH THE CYSTEINE
Perselenide Intermediate (Residue Csz)
Length = 406
Score = 26.2 bits (56), Expect = 2.4
Identities = 11/30 (36%), Positives = 19/30 (62%)
Query: 122 NAVVREVGKSNVITGDEIILNKTKGYADVL 151
N V G SNV GD II+++ + +A+++
Sbjct: 99 NLVANSWGNSNVRAGDNIIISQMEHHANIV 128
>pdb|1B9B|B Chain B, Triosephosphate Isomerase Of Thermotoga Maritima
pdb|1B9B|A Chain A, Triosephosphate Isomerase Of Thermotoga Maritima
Length = 255
Score = 25.4 bits (54), Expect = 4.0
Identities = 15/54 (27%), Positives = 25/54 (45%), Gaps = 4/54 (7%)
Query: 92 NIFTEDNREISGSADKLIYNALNGEYKLLQNAVVREVGKSNVITGDEIILNKTK 145
N+F ED +G L+ + EY ++ ++ R + K + DE I K K
Sbjct: 66 NVFYEDQGAFTGEISPLMLQEIGVEYVIVGHSERRRIFKED----DEFINRKVK 115
>pdb|1QKS|A Chain A, Cytochrome Cd1 Nitrite Reductase, Oxidised Form
pdb|1QKS|B Chain B, Cytochrome Cd1 Nitrite Reductase, Oxidised Form
pdb|1AOQ|B Chain B, Cytochrome Cd1 Nitrite Reductase With Substrate And
Product Bound
pdb|1AOM|B Chain B, Substrate And Product Bound To Cytochrome Cd1 Nitrite
Reductase
pdb|1AOQ|A Chain A, Cytochrome Cd1 Nitrite Reductase With Substrate And
Product Bound
pdb|1AOF|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reduced Form
pdb|1AOF|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reduced Form
pdb|1AOM|A Chain A, Substrate And Product Bound To Cytochrome Cd1 Nitrite
Reductase
Length = 567
Score = 25.0 bits (53), Expect = 5.3
Identities = 15/36 (41%), Positives = 20/36 (54%)
Query: 14 LSVMDAKKLENKNLKKERELLEITGNQFVANDKTKT 49
L V+D K LE K++ K+ L+ TG V N T T
Sbjct: 531 LVVVDDKTLELKHVIKDERLVTPTGKFNVYNTMTDT 566
>pdb|1HJ5|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reoxidised Enzyme
pdb|1HJ5|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reoxidised Enzyme
pdb|1HJ4|A Chain A, Cytochrome Cd1 Nitrite Reductase, X-Ray Reduced Dioxygen
Complex
pdb|1HJ3|A Chain A, Cytochrome Cd1 Nitrite Reductase, Dioxygen Complex
pdb|1HJ3|B Chain B, Cytochrome Cd1 Nitrite Reductase, Dioxygen Complex
pdb|1HJ4|B Chain B, Cytochrome Cd1 Nitrite Reductase, X-Ray Reduced Dioxygen
Complex
pdb|1DY7|B Chain B, Cytochrome Cd1 Nitrite Reductase, Co Complex
pdb|1H9X|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reduced Form
pdb|1HCM|B Chain B, Cytochrome Cd1 Nitrite Reductase, Oxidised From From
Tetragonal Crystals
pdb|1H9X|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reduced Form
pdb|1HCM|A Chain A, Cytochrome Cd1 Nitrite Reductase, Oxidised From From
Tetragonal Crystals
pdb|1H9Y|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reduced Form Complexed
To Cn
pdb|1H9Y|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reduced Form Complexed
To Cn
pdb|1DY7|A Chain A, Cytochrome Cd1 Nitrite Reductase, Co Complex
Length = 567
Score = 25.0 bits (53), Expect = 5.3
Identities = 15/36 (41%), Positives = 20/36 (54%)
Query: 14 LSVMDAKKLENKNLKKERELLEITGNQFVANDKTKT 49
L V+D K LE K++ K+ L+ TG V N T T
Sbjct: 531 LVVVDDKTLELKHVIKDERLVTPTGKFNVYNTMTDT 566
>pdb|1E2R|B Chain B, Cytochrome Cd1 Nitrite Reductase, Reduced And Cyanide
Bound
pdb|1E2R|A Chain A, Cytochrome Cd1 Nitrite Reductase, Reduced And Cyanide
Bound
Length = 567
Score = 25.0 bits (53), Expect = 5.3
Identities = 15/36 (41%), Positives = 20/36 (54%)
Query: 14 LSVMDAKKLENKNLKKERELLEITGNQFVANDKTKT 49
L V+D K LE K++ K+ L+ TG V N T T
Sbjct: 531 LVVVDDKTLELKHVIKDERLVTPTGKFNVYNTMTDT 566
>pdb|1DJN|A Chain A, Structural And Biochemical Characterization Of Recombinant
Wild Type Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|1DJN|B Chain B, Structural And Biochemical Characterization Of Recombinant
Wild Type Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|2TMD|A Chain A, Trimethylamine Dehydrogenase (E.C.1.5.99.7)
pdb|2TMD|B Chain B, Trimethylamine Dehydrogenase (E.C.1.5.99.7)
Length = 729
Score = 24.3 bits (51), Expect = 9.0
Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 6/38 (15%)
Query: 124 VVREVGKSNVI------TGDEIILNKTKGYADVLGSAK 155
+V++V K V+ +++I TKGYAD++G A+
Sbjct: 285 LVKQVSKKPVLGVGRYTDPEKMIEIVTKGYADIIGCAR 322
>pdb|1DML|E Chain E, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
Terminus Of Hsv Pol
pdb|1DML|G Chain G, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
Terminus Of Hsv Pol
pdb|1DML|C Chain C, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
Terminus Of Hsv Pol
pdb|1DML|A Chain A, Crystal Structure Of Herpes Simplex Ul42 Bound To The C-
Terminus Of Hsv Pol
Length = 319
Score = 24.3 bits (51), Expect = 9.0
Identities = 20/101 (19%), Positives = 45/101 (43%), Gaps = 9/101 (8%)
Query: 32 ELLEITGNQFVANDKTKTAVI--QGNVQIKKGKDRLFADKVSVFLN----DKRKPERYEA 85
E +E+ + + T V+ QG ++ RL +++ LN D P +E
Sbjct: 148 EAVELASETLMKRELTSFVVLVPQGTPDVQL---RLTRPQLTKVLNATGADSATPTTFEL 204
Query: 86 TGNTHFNIFTEDNREISGSADKLIYNALNGEYKLLQNAVVR 126
N F++FT + ++ + ++ + + ++L NA+ +
Sbjct: 205 GVNGKFSVFTTSTCVTFAAREEGVSSSTSTQVQILSNALTK 245
>pdb|1DJQ|A Chain A, Structural And Biochemical Characterization Of Recombinant
C30a Mutant Of Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|1DJQ|B Chain B, Structural And Biochemical Characterization Of Recombinant
C30a Mutant Of Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
Length = 729
Score = 24.3 bits (51), Expect = 9.0
Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 6/38 (15%)
Query: 124 VVREVGKSNVI------TGDEIILNKTKGYADVLGSAK 155
+V++V K V+ +++I TKGYAD++G A+
Sbjct: 285 LVKQVSKKPVLGVGRYTDPEKMIEIVTKGYADIIGCAR 322
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 0.383
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,053,799
Number of Sequences: 13198
Number of extensions: 42652
Number of successful extensions: 111
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 103
Number of HSP's gapped (non-prelim): 12
length of query: 183
length of database: 2,899,336
effective HSP length: 83
effective length of query: 100
effective length of database: 1,803,902
effective search space: 180390200
effective search space used: 180390200
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: 51 (24.3 bits)