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|15645422|ref|NP_207596.1| hypothetical protein
[Helicobacter pylori 26695]
(279 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|1JGY|M Chain M, Photosynthetic Reaction Center Mutant W... 27 3.4
pdb|1MPS|M Chain M, Photosynthetic Reaction Center Mutant W... 25 7.5
pdb|1L9B|M Chain M, X-Ray Structure Of The Cytochrome-C(2)-... 25 7.5
pdb|1DS8|M Chain M, Photosynthetic Reaction Center From Rho... 25 7.5
pdb|1PSS|M Chain M, Photosynthetic Reaction Center (Wild-Type) 25 7.5
pdb|1QOV|M Chain M, Photosynthetic Reaction Center Mutant W... 25 7.5
pdb|1E14|M Chain M, Photosynthetic Reaction Center Mutant W... 25 7.5
pdb|1JGW|M Chain M, Photosynthetic Reaction Center Mutant W... 25 7.5
pdb|1K6L|M Chain M, Photosynethetic Reaction Center From Rh... 25 7.5
pdb|1YST|M Chain M, Photosynthetic Reaction Center (Wild Type) 25 7.5
pdb|1AIJ|S Chain S, Photosynthetic Reaction Center From Rho... 25 7.5
pdb|1PST|M Chain M, Photosynthetic Reaction Center Mutant W... 25 7.5
pdb|1JGX|M Chain M, Photosynthetic Reaction Center Mutant W... 25 7.5
pdb|1HBZ|A Chain A, Catalase From Micrococcus Lysodeikticu 25 7.5
>pdb|1JGY|M Chain M, Photosynthetic Reaction Center Mutant With Tyr M 76
Replaced With Phe
Length = 307
Score = 26.6 bits (57), Expect = 3.4
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI WF+ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWFQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1MPS|M Chain M, Photosynthetic Reaction Center Mutant With Phe M 197
Replaced With Arg And Tyr M 177 Replaced With Phe (Chain
M, Y177f, F197r)
Length = 307
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1L9B|M Chain M, X-Ray Structure Of The Cytochrome-C(2)-Photosynthetic
Reaction Center Electron Transfer Complex From
Rhodobacter Sphaeroides In Type Ii Co-Crystals
pdb|1L9J|M Chain M, X-Ray Structure Of The Cytochrome-C(2)-Photosynthetic
Reaction Center Electron Transfer Complex From
Rhodobacter Sphaeroides In Type I Co-Crystals
pdb|1L9J|S Chain S, X-Ray Structure Of The Cytochrome-C(2)-Photosynthetic
Reaction Center Electron Transfer Complex From
Rhodobacter Sphaeroides In Type I Co-Crystals
pdb|1M3X|M Chain M, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides
pdb|2RCR|M Chain M, Photosynthetic Reaction Center From (Rhodobacter
sphaeroides)
pdb|1PCR|M Chain M, Photosynthetic Reaction Center
pdb|1FNQ|M Chain M, Crystal Structure Analysis Of The Mutant Reaction Center
Pro L209-> Glu From The Photosynthetic Purple Bacterium
Rhodobacter Sphaeroides
pdb|1F6N|M Chain M, Crystal Structure Analysis Of The Mutant Reaction Center
Pro L209-> Tyr From The Photosynthetic Purple Bacterium
Rhodobacter Sphaeroides
pdb|1AIJ|M Chain M, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State
pdb|1JH0|M Chain M, Photosynthetic Reaction Center Mutant With Glu L 205
Replaced To Leu
pdb|1FNP|M Chain M, Crystal Structure Analysis Of The Mutant Reaction Center
Pro L209-> Phe From The Photosynthetic Purple Bacterium
Rhodobacter Sphaeroides
pdb|1AIG|M Chain M, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The D+qb- Charge Separated State
pdb|1AIG|O Chain O, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The D+qb- Charge Separated State
pdb|4RCR|M Chain M, Photosynthetic Reaction Center
Length = 307
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1DS8|M Chain M, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Cd2+
pdb|1DS8|S Chain S, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Cd2+
pdb|1DV6|M Chain M, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Zn2+
pdb|1DV6|S Chain S, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State With The
Proton Transfer Inhibitor Zn2+
pdb|1DV3|M Chain M, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Separated D+qaqb- State With
The Proton Transfer Inhibitor Cd2+
pdb|1DV3|S Chain S, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Separated D+qaqb- State With
The Proton Transfer Inhibitor Cd2+
Length = 307
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1PSS|M Chain M, Photosynthetic Reaction Center (Wild-Type)
Length = 296
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 46 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 90
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 91 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 125
>pdb|1QOV|M Chain M, Photosynthetic Reaction Center Mutant With Ala M260
Replaced With Trp (Chain M, A260w)
Length = 307
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1E14|M Chain M, Photosynthetic Reaction Center Mutant With Phe M197
Replaced With Arg (Chain M, Fm197r) And Gly M203
Replaced With Asp (Chain M, Gm203d)
Length = 307
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1JGW|M Chain M, Photosynthetic Reaction Center Mutant With Thr M 21
Replaced With Leu
Length = 307
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1K6L|M Chain M, Photosynethetic Reaction Center From Rhodobacter
Sphaeroides
pdb|1K6N|M Chain M, E(L212)a,D(L213)a Double Mutant Structure Of
Photosynthetic Reaction Center From Rhodobacter
Sphaeroides
Length = 314
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1YST|M Chain M, Photosynthetic Reaction Center (Wild Type)
Length = 305
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1AIJ|S Chain S, Photosynthetic Reaction Center From Rhodobacter
Sphaeroides In The Charge-Neutral Dqaqb State
Length = 301
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1PST|M Chain M, Photosynthetic Reaction Center Mutant With His M 202
Replaced With Leu (H(M 202)l)
Length = 296
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 46 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 90
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 91 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 125
>pdb|1JGX|M Chain M, Photosynthetic Reaction Center Mutant With Thr M 21
Replaced With Asp
Length = 307
Score = 25.4 bits (54), Expect = 7.5
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 17/96 (17%)
Query: 88 YLGTSIGILGVSLVIGIVGLYLMPESVTNWDKEKFGIKSWFENVRMGPKLDNDSFIFN-E 146
YLG S+G+L SL G++ + + GI W++ D F F+ E
Sbjct: 51 YLG-SLGVL--SLFSGLMWFFTI------------GIWFWYQAGWNPAVFLRDLFFFSLE 95
Query: 147 ILHPYFGAMYYMQPRMAGFSWMASAFFSFITSTLFW 182
P +G + + P G W+ ++FF F+ +W
Sbjct: 96 PPAPEYG-LSFAAPLKEGGLWLIASFFMFVAVWSWW 130
>pdb|1HBZ|A Chain A, Catalase From Micrococcus Lysodeikticu
Length = 498
Score = 25.4 bits (54), Expect = 7.5
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 55 TLRRSPKNLIWQHFKKKFKKSNTIP 79
TL R+PKN Q F SNT+P
Sbjct: 297 TLNRNPKNHFAQIESAAFSPSNTVP 321
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
0.327 0.144 0.454
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,679,909
Number of Sequences: 13198
Number of extensions: 69236
Number of successful extensions: 173
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 172
Number of HSP's gapped (non-prelim): 14
length of query: 279
length of database: 2,899,336
effective HSP length: 87
effective length of query: 192
effective length of database: 1,751,110
effective search space: 336213120
effective search space used: 336213120
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)