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|15644716|ref|NP_206886.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(450 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|1JNR|A Chain A, Structure Of Adenylylsulfate Reductase ... 32 0.15
pdb|1JU2|A Chain A, Crystal Structure Of The Hydroxynitrile... 30 0.43
pdb|1K25|B Chain B, Pbp2x From A Highly Penicillin-Resistan... 29 0.95
pdb|1YGP|A Chain A, Phosphorylated Form Of Yeast Glycogen P... 28 2.8
pdb|1EY4|A Chain A, Structure Of S. Nuclease Stabilizing Mu... 27 6.1
pdb|1JEQ|A Chain A, Crystal Structure Of The Ku Heterodimer... 27 6.1
pdb|1OJT| Structure Of Dihydrolipoamide Dehydrogenase 27 6.1
pdb|1BHY| Low Temperature Middle Resolution Structure Of ... 27 6.1
pdb|1C3W|A Chain A, BacteriorhodopsinLIPID COMPLEX AT 1.55 ... 26 8.0
pdb|1GOS|A Chain A, Human Monoamine Oxidase B >gi|17942912|... 26 8.0
pdb|1SYB| Staphylococcal Nuclease (E.C.3.1.31.1) With Res... 26 8.0
pdb|1L0M|A Chain A, Solution Structure Of Bacteriorhodopsin 26 8.0
pdb|1KME|A Chain A, Crystal Structure Of Bacteriorhodopsin ... 26 8.0
pdb|1AT9| Structure Of Bacteriorhodopsin At 3.0 Angstrom ... 26 8.0
pdb|1UKZ| Uridylate Kinase (E.C.2.7.4.-) Complexed With A... 26 8.0
pdb|1STA| Staphylococcal Nuclease (E.C.3.1.31.1) Double I... 26 8.0
pdb|1SNM| Staphylococcal Nuclease (E.C.3.1.31.1) Mutant (... 26 8.0
pdb|1F50|A Chain A, Bacteriorhodopsin-Br State Of The E204q... 26 8.0
pdb|1JV7|A Chain A, Bacteriorhodopsin O-Like Intermediate S... 26 8.0
pdb|1E0P|A Chain A, L Intermediate Of Bacteriorhodopsin >gi... 26 8.0
pdb|1STB| Staphylococcal Nuclease (E.C.3.1.31.1) Insertio... 26 8.0
pdb|1C8S|A Chain A, Bacteriorhodopsin D96n Late M State Int... 26 8.0
pdb|1FBK|A Chain A, Crystal Structure Of Cytoplasmically Op... 26 8.0
pdb|1C8R|A Chain A, Bacteriorhodopsin D96m Br State At 2.0 ... 26 8.0
pdb|1BO1|A Chain A, Phosphatidylinositol Phosphate Kinase T... 26 8.0
pdb|1ENC| Staphylococcal Nuclease (E.C.3.1.31.1) Mutant W... 26 8.0
pdb|1CWQ|A Chain A, M Intermediate Structure Of The Wild Ty... 26 8.0
pdb|1EY0|A Chain A, Structure Of Wild-Type S. Nuclease At 1... 26 8.0
pdb|1BHA| Bacteriorhodopsin (Proteolytic Fragment 1 - 71,... 26 8.0
pdb|1NUC| Staphylococcal Nuclease, V23c Variant 26 8.0
pdb|1JV6|A Chain A, Bacteriorhodopsin D85sF219L DOUBLE MUTA... 26 8.0
pdb|1QHJ|A Chain A, X-Ray Structure Of Bacteriorhodopsin Gr... 26 8.0
pdb|1EY5|A Chain A, Structure Of S. Nuclease Stabilizing Mu... 26 8.0
pdb|3NUC| Staphlococcal Nuclease, 1-N-Propane Thiol Disul... 26 8.0
pdb|1BRD| Bacteriorhodopsin 26 8.0
pdb|1EY6|A Chain A, Structure Of S. Nuclease Stabilizing Mu... 26 8.0
pdb|1M0K|A Chain A, Bacteriorhodopsin K Intermediate At 1.4... 26 8.0
>pdb|1JNR|A Chain A, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
pdb|1JNR|C Chain C, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
pdb|1JNZ|A Chain A, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
pdb|1JNZ|C Chain C, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
Length = 643
Score = 32.0 bits (71), Expect = 0.15
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 3 MEFDAVIIGGGVSGCATFYTLSEYSSL--KRVAIVEKCS 39
+E D +IIGGG SGC Y + ++ L +V +VEK +
Sbjct: 21 VETDILIIGGGFSGCGAAYEAAYWAKLGGLKVTLVEKAA 59
>pdb|1JU2|A Chain A, Crystal Structure Of The Hydroxynitrile Lyase From
Almond
pdb|1JU2|B Chain B, Crystal Structure Of The Hydroxynitrile Lyase From
Almond
Length = 536
Score = 30.4 bits (67), Expect = 0.43
Identities = 13/21 (61%), Positives = 15/21 (70%)
Query: 5 FDAVIIGGGVSGCATFYTLSE 25
+D VI+GGG SGC TLSE
Sbjct: 27 YDYVIVGGGTSGCPLAATLSE 47
>pdb|1K25|B Chain B, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|D Chain D, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|A Chain A, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
pdb|1K25|C Chain C, Pbp2x From A Highly Penicillin-Resistant Streptococcus
Pneumoniae Clinical Isolate
Length = 685
Score = 29.3 bits (64), Expect = 0.95
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 169 KLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISEDAEEVYAKFV 218
K+ E VEE L PN QV L K+E+ D Y E A E +AK++
Sbjct: 603 KIKETSVEEGTNLAPNQQVLL--LSDKVEEIPDMYGWKKETA-ETFAKWL 649
>pdb|1YGP|A Chain A, Phosphorylated Form Of Yeast Glycogen Phosphorylase With
Phosphate Bound In The Active Site.
pdb|1YGP|B Chain B, Phosphorylated Form Of Yeast Glycogen Phosphorylase With
Phosphate Bound In The Active Site
Length = 879
Score = 27.7 bits (60), Expect = 2.8
Identities = 19/50 (38%), Positives = 30/50 (60%), Gaps = 5/50 (10%)
Query: 165 MNFAKLS--ENFVEEALKLKPNNQVFLNFKVK---KIEKRNDTYAVISED 209
++ AKL+ E +VE+ LK NQV LN K++ I+K ND +I+ +
Sbjct: 546 LDMAKLTQLEKYVEDKEFLKKWNQVKLNNKIRLVDLIKKENDGVDIINRE 595
>pdb|1EY4|A Chain A, Structure Of S. Nuclease Stabilizing Mutant S59a
Length = 149
Score = 26.6 bits (57), Expect = 6.1
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEAAAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|1JEQ|A Chain A, Crystal Structure Of The Ku Heterodimer
pdb|1JEY|A Chain A, Crystal Structure Of The Ku Heterodimer Bound To Dna
Length = 609
Score = 26.6 bits (57), Expect = 6.1
Identities = 17/46 (36%), Positives = 25/46 (53%), Gaps = 2/46 (4%)
Query: 113 KRYESFKEIFVGLEEFDKQKIKE-LEPNVILGANGIDRHENIIGHG 157
K +FK I+V L+E D K LE + G G R ++++GHG
Sbjct: 94 KNSVNFKNIYV-LQELDNPGAKRILELDQFKGQQGQKRFQDMMGHG 138
>pdb|1OJT| Structure Of Dihydrolipoamide Dehydrogenase
Length = 482
Score = 26.6 bits (57), Expect = 6.1
Identities = 13/41 (31%), Positives = 23/41 (55%), Gaps = 2/41 (4%)
Query: 4 EFDAVIIGGGVSGCATFYTLSEYSSLKRVAIVEKCSKLAQI 44
E+D V++GGG G + + ++ +VAIVE+ L +
Sbjct: 6 EYDVVVLGGGPGGYSAAFAAADEG--LKVAIVERYKTLGGV 44
>pdb|1BHY| Low Temperature Middle Resolution Structure Of P64k From Masc
Data
Length = 482
Score = 26.6 bits (57), Expect = 6.1
Identities = 13/41 (31%), Positives = 23/41 (55%), Gaps = 2/41 (4%)
Query: 4 EFDAVIIGGGVSGCATFYTLSEYSSLKRVAIVEKCSKLAQI 44
E+D V++GGG G + + ++ +VAIVE+ L +
Sbjct: 6 EYDVVVLGGGPGGYSAAFAAADEG--LKVAIVERYKTLGGV 44
>pdb|1C3W|A Chain A, BacteriorhodopsinLIPID COMPLEX AT 1.55 A RESOLUTION
Length = 222
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 30 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 64
>pdb|1GOS|A Chain A, Human Monoamine Oxidase B
pdb|1GOS|B Chain B, Human Monoamine Oxidase B
Length = 520
Score = 26.2 bits (56), Expect = 8.0
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 1 MSMEFDAVIIGGGVSGCA 18
MS + D V++GGG+SG A
Sbjct: 1 MSNKCDVVVVGGGISGMA 18
>pdb|1SYB| Staphylococcal Nuclease (E.C.3.1.31.1) With Residues 27 - 31
(Tyr-Lys-Gly-Gln-Pro) Replaced With Residues 160 - 165
Of Concanavalin A (Ser-Ser-Asn-Gly-Ser-Pro) Complexed
With 2'-Deoxy-3'-5'-Diphosphothymidine And Calcium
Length = 150
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 56 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 98
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 99 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 144
>pdb|1L0M|A Chain A, Solution Structure Of Bacteriorhodopsin
Length = 212
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 28 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 62
>pdb|1KME|A Chain A, Crystal Structure Of Bacteriorhodopsin Crystallized From
Bicelles
pdb|1KME|B Chain B, Crystal Structure Of Bacteriorhodopsin Crystallized From
Bicelles
pdb|1KGB|A Chain A, Structure Of Ground-State Bacteriorhodopsin
pdb|1KG9|A Chain A, Structure Of A "mock-Trapped" Early-M Intermediate Of
Bacteriorhosopsin
pdb|1KG8|A Chain A, X-Ray Structure Of An Early-M Intermediate Of
Bacteriorhodopsin
Length = 231
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1AT9| Structure Of Bacteriorhodopsin At 3.0 Angstrom Determined By
Electron Crystallography
pdb|1BRR|C Chain C, X-Ray Structure Of The Bacteriorhodopsin TrimerLIPID
Complex
pdb|1BRR|B Chain B, X-Ray Structure Of The Bacteriorhodopsin TrimerLIPID
Complex
pdb|1BRR|A Chain A, X-Ray Structure Of The Bacteriorhodopsin TrimerLIPID
Complex
pdb|2AT9| Structure Of Bacteriorhodopsin At 3.0 Angstrom By Electron
Crystallography
pdb|2BRD| Crystal Structure Of Bacteriorhodopsin In Purple Membrane
pdb|1BM1| Crystal Structure Of Bacteriorhodopsin In The Light-Adapted State
pdb|1BRX| BacteriorhodopsinLIPID COMPLEX
Length = 247
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1UKZ| Uridylate Kinase (E.C.2.7.4.-) Complexed With Adp And Amp
pdb|1UKY| Uridylate Kinase (E.C.2.7.4.-) Complexed With Two Adp Molecules
Length = 203
Score = 26.2 bits (56), Expect = 8.0
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 102 GVGDEECEFMKKRYESFKEIFVGLEEFDKQKIK 134
G D+ E +KKR+ +FKE + + E+ + K K
Sbjct: 146 GRSDDNIESIKKRFNTFKETSMPVIEYFETKSK 178
>pdb|1STA| Staphylococcal Nuclease (E.C.3.1.31.1) Double Insertion Mutant
With Two Glycine Residues Inserted In The First Beta
Strand Between Pro 11 And Ala 12 (Ins(P11-Gg)) Complexed
With Calcium And The Inhibitor Thymidine
3',5'-Diphosphate
Length = 151
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 57 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 99
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 100 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 145
>pdb|1SNM| Staphylococcal Nuclease (E.C.3.1.31.1) Mutant (Glu 43 Replaced By
Asp) (E43D) Complex With A Calcium Ion And 3-Prime,
5-Prime-Deoxythymidine Bisphosphate
Length = 149
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|1F50|A Chain A, Bacteriorhodopsin-Br State Of The E204q Mutant At 1.7
Angstrom Resolution
pdb|1F4Z|A Chain A, Bacteriorhodopsin-M Photointermediate State Of The E204q
Mutant At 1.8 Angstrom Resolution
Length = 227
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 30 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 64
>pdb|1JV7|A Chain A, Bacteriorhodopsin O-Like Intermediate State Of The D85s
Mutant At 2.25 Angstrom Resolution
Length = 249
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1E0P|A Chain A, L Intermediate Of Bacteriorhodopsin
pdb|1E0P|B Chain B, L Intermediate Of Bacteriorhodopsin
Length = 228
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 30 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 64
>pdb|1STB| Staphylococcal Nuclease (E.C.3.1.31.1) Insertion Mutant With Leu
Inserted At The End Of The Third Beta-Strand Between Leu
36 And Leu 37 (Ins(L36-L)) Complexed With Thymidine
3',5'-Diphosphate And Calcium
Length = 150
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 56 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 98
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 99 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 144
>pdb|1C8S|A Chain A, Bacteriorhodopsin D96n Late M State Intermediate
Length = 196
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 30 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 64
>pdb|1FBK|A Chain A, Crystal Structure Of Cytoplasmically Open Conformation Of
Bacteriorhodopsin
Length = 248
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1C8R|A Chain A, Bacteriorhodopsin D96m Br State At 2.0 A Resolution
Length = 222
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 30 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 64
>pdb|1BO1|A Chain A, Phosphatidylinositol Phosphate Kinase Type Ii Beta
pdb|1BO1|B Chain B, Phosphatidylinositol Phosphate Kinase Type Ii Beta
Length = 416
Score = 26.2 bits (56), Expect = 8.0
Identities = 19/80 (23%), Positives = 37/80 (45%), Gaps = 1/80 (1%)
Query: 58 GSIETNYTPEKAKKVRLSAYKTRQYALNKGLQNEVIFETQKMAIGVGDEECEFMKKRYES 117
GS +K K L +K + LN+G + V E++K + + EF+ +
Sbjct: 219 GSTVAREASDKEKAKDLPTFKDNDF-LNEGQKLHVGEESKKNFLEKLKRDVEFLAQLKIM 277
Query: 118 FKEIFVGLEEFDKQKIKELE 137
+ VG+ + D+ + +E+E
Sbjct: 278 DYSLLVGIHDVDRAEQEEME 297
>pdb|1ENC| Staphylococcal Nuclease (E.C.3.1.31.1) Mutant With Asp 21 Replaced
By Glu (D21e) Complexed With A Calcium Ion And The
Inhibitor Thymidine 3',5'-Diphosphate
Length = 149
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|1CWQ|A Chain A, M Intermediate Structure Of The Wild Type
Bacteriorhodopsin In Combination With The Ground State
Structure
pdb|1CWQ|B Chain B, M Intermediate Structure Of The Wild Type
Bacteriorhodopsin In Combination With The Ground State
Structure
Length = 248
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 35 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 69
>pdb|1EY0|A Chain A, Structure Of Wild-Type S. Nuclease At 1.6 A Resolution
pdb|1EYD|A Chain A, Structure Of Wild-Type S. Nuclease At 1.7 A Resolution
pdb|1STN| Staphylococcal Nuclease (E.C.3.1.31.1)
pdb|1STG| Staphylococcal Nuclease (E.C.3.1.31.1)
pdb|1STH| Staphylococcal Nuclease (E.C.3.1.31.1) Complexed With Co(Ii) Ion
And Thymidine 3',5'-Bisphosphate (Pdtp)
pdb|1SNC| Staphylococcal Nuclease (E.C.3.1.31.1) Complex With A Calcium Ion
And 3-Prime, 5-Prime-Deoxythymidine Bisphosphate
Length = 149
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|1BHA| Bacteriorhodopsin (Proteolytic Fragment 1 - 71, Solubilized In Sds
Micelles) (Nmr, 12 Structures)
pdb|1BHB| Bacteriorhodopsin (Proteolytic Fragment 1 - 71, Solubilized In
Methanol-Chloroform) (Nmr, 12 Structures)
Length = 71
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1NUC| Staphylococcal Nuclease, V23c Variant
Length = 149
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|1JV6|A Chain A, Bacteriorhodopsin D85sF219L DOUBLE MUTANT AT 2.00 ANGSTROM
Resolution
Length = 249
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1QHJ|A Chain A, X-Ray Structure Of Bacteriorhodopsin Grown In Lipidic
Cubic Phases
pdb|1QKO|A Chain A, High Resolution X-Ray Structure Of An Early Intermediate
In The Bacteriorhodopsin Photocycle
pdb|1QKP|A Chain A, High Resolution X-Ray Structure Of An Early Intermediate
In The Bacteriorhodopsin Photocycle
pdb|1QM8|A Chain A, Structure Of Bacteriorhodopsin At 100 K
pdb|1DZE|A Chain A, Structure Of The M Intermediate Of Bacteriorhodopsin
Trapped At 100k
pdb|1FBB|A Chain A, Crystal Structure Of Native Conformation Of
Bacteriorhodopsin
pdb|1AP9| X-Ray Structure Of Bacteriorhodopsin From Microcrystals Grown In
Lipidic Cubic Phases
Length = 248
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1EY5|A Chain A, Structure Of S. Nuclease Stabilizing Mutant T33v
pdb|1EZ8|A Chain A, Structure Of S. Nuclease Stabilizing Mutant T33v
Length = 149
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|3NUC| Staphlococcal Nuclease, 1-N-Propane Thiol Disulfide To V23c
Variant
pdb|1A2T| Staphylococcal Nuclease, B-Mercaptoethanol Disulfide To V23c
Variant
pdb|1A2U| Staphylococcal Nuclease, V23c Variant, Complex With 1-N-Butane
Thiol And 3',5'-Thymidine Diphosphate
pdb|2NUC| Staphlococcal Nuclease, Ethane Thiol Disulfide To V23c Variant
pdb|1A3U| Staphylococcal Nuclease, Cyclohexane Thiol Disulfide To V23c
Variant
pdb|1A3T| Staphylococcal Nuclease, V23c Variant, Complex With 2-Fluoroethane
Thiol And 3',5'-Thymidine Diphosphate
pdb|1AEX| Staphylococcal Nuclease, Methane Thiol Disulfide To V23c Variant
pdb|5NUC| Staphylococcal Nuclease, 1-N-Pentane Thiol Disulfide To V23c
Variant
pdb|1A3V| Staphylococcal Nuclease, Cyclopentane Thiol Disulfide To V23c
Variant
Length = 149
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|1BRD| Bacteriorhodopsin
Length = 248
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 34 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 68
>pdb|1EY6|A Chain A, Structure Of S. Nuclease Stabilizing Mutant T41i
Length = 149
Score = 26.2 bits (56), Expect = 8.0
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 104 GDEECEFMKKRYESFKEIFVGLEEFDKQKIKELEPNVILGANGIDRHENIIGHGYRKDWS 163
G E F KK E+ K+I V EFDK D++ + + Y D
Sbjct: 55 GPEASAFTKKMVENAKKIEV---EFDK-------------GQRTDKYGRGLAYIYA-DGK 97
Query: 164 TMNFAKLSENFVEEALKLKPNNQVFLNFKVKKIEKRNDTYAVISED 209
+N A + + + A KPNN + + + + + + + SED
Sbjct: 98 MVNEALVRQGLAKVAYVYKPNNTHEQHLRKSEAQAKKEKLNIWSED 143
>pdb|1M0K|A Chain A, Bacteriorhodopsin K Intermediate At 1.43 A Resolution
pdb|1M0L|A Chain A, BacteriorhodopsinLIPID COMPLEX AT 1.47 A RESOLUTION
pdb|1M0M|A Chain A, Bacteriorhodopsin M1 Intermediate At 1.43 A Resolution
Length = 262
Score = 26.2 bits (56), Expect = 8.0
Identities = 13/35 (37%), Positives = 21/35 (59%)
Query: 205 VISEDAEEVYAKFVLVNAGSYALPLAQSMGYGLDL 239
V DA++ YA LV A ++ + L+ +GYGL +
Sbjct: 47 VSDPDAKKFYAITTLVPAIAFTMYLSMLLGYGLTM 81
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 0.386
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,625,530
Number of Sequences: 13198
Number of extensions: 113122
Number of successful extensions: 297
Number of sequences better than 10.0: 37
Number of HSP's better than 10.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 277
Number of HSP's gapped (non-prelim): 37
length of query: 450
length of database: 2,899,336
effective HSP length: 91
effective length of query: 359
effective length of database: 1,698,318
effective search space: 609696162
effective search space used: 609696162
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)