BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 029478
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
Repeat Domain Of Varp
Length = 189
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 48/167 (28%), Positives = 86/167 (51%), Gaps = 21/167 (12%)
Query: 5 GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
++++ V++GT +LA+H GNF + Q L K+P+ ++K TYS + F+++ V
Sbjct: 3 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 62
Query: 65 FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQNEESHPLAXXXXXXXXXXXRFSIAYN 124
+L + D+ RS F FL VK F+ YG+ Q ++ Y
Sbjct: 63 YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQT--------------------ALPYA 102
Query: 125 LDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKV 171
++ EF L +++ S + + K+ + +AQ+ E+KGIM+ NI+ V
Sbjct: 103 MNSEFSSVLAAQLKH-HSENKSLDKVMETQAQVDELKGIMVRNIDLV 148
>pdb|4AFI|A Chain A, Complex Between Vamp7 Longin Domain And Fragment Of Delta-
Adaptin From Ap3
pdb|4AFI|B Chain B, Complex Between Vamp7 Longin Domain And Fragment Of Delta-
Adaptin From Ap3
Length = 173
Score = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 54/95 (56%)
Query: 5 GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
++++ V++GT +LA+H GNF + Q L K+P+ ++K TYS + F+++ V
Sbjct: 55 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 114
Query: 65 FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQN 99
+L + D+ RS F FL VK F+ YG+ Q
Sbjct: 115 YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQT 149
>pdb|2VX8|A Chain A, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|B Chain B, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|C Chain C, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|D Chain D, Vamp7 Longin Domain Hrb Peptide Complex
Length = 169
Score = 68.9 bits (167), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 54/94 (57%)
Query: 5 GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
++++ V++GT +LA+H GNF + Q L K+P+ ++K TYS + F+++ V
Sbjct: 45 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 104
Query: 65 FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQ 98
+L + D+ RS F FL VK F+ YG+ Q
Sbjct: 105 YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRAQ 138
>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin-
Like Protein 1
Length = 131
Score = 67.4 bits (163), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 54/94 (57%)
Query: 5 GLIYSFVSKGTVVLAEHTSYSGNFSTIAIQCLQKLPASSSKYTYSCDGHTFNFLLDSGFV 64
++++ V++GT +LA+H GNF + Q L K+P+ ++K TYS + F+++ V
Sbjct: 9 AILFAVVARGTTILAKHAWCGGNFLEVTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 68
Query: 65 FLVVADESVGRSVPFVFLERVKDDFKQRYGASIQ 98
+L + D+ RS F FL +K F+ YG+ Q
Sbjct: 69 YLCITDDDFERSRAFNFLNEIKKRFQTTYGSRAQ 102
>pdb|1IFQ|A Chain A, Sec22b N-Terminal Domain
pdb|1IFQ|B Chain B, Sec22b N-Terminal Domain
Length = 138
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 27 NFSTIAIQCLQKL-PASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERV 85
+ + A Q +KL S ++ T TF+++++ G +LV+ + + + + F +LE +
Sbjct: 43 QYQSQAKQLFRKLNEQSPTRCTLEAGAXTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 102
Query: 86 KDDFKQRYGASI 97
+F +++G +
Sbjct: 103 HSEFDEQHGKKV 114
>pdb|3EGD|C Chain C, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22 AND
BOUND To The Transport Signal Sequence Of Vesicular
Stomatitis Virus Glycoprotein
pdb|3EGX|C Chain C, Crystal Structure Of The Mammalian Copii-Coat Protein
Sec23a24A COMPLEXED WITH THE SNARE PROTEIN SEC22B AND
Bound To The Transport Signal Sequence Of The Snare
Protein Bet1
Length = 157
Score = 35.4 bits (80), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 27 NFSTIAIQCLQKL-PASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERV 85
+ + A Q +KL S ++ T TF+++++ G +LV+ + + + + F +LE +
Sbjct: 32 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 91
Query: 86 KDDFKQRYGASI 97
+F +++G +
Sbjct: 92 HSEFDEQHGKKV 103
>pdb|2NUP|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
pdb|2NUT|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
Complexed With The Snare Protein Sec22b
Length = 196
Score = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/72 (22%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 27 NFSTIAIQCLQKL-PASSSKYTYSCDGHTFNFLLDSGFVFLVVADESVGRSVPFVFLERV 85
+ + A Q +KL S ++ T TF+++++ G +LV+ + + + + F +LE +
Sbjct: 33 QYQSQAKQLFRKLNEQSPTRCTLEAGAMTFHYIIEQGVCYLVLCEAAFPKKLAFAYLEDL 92
Query: 86 KDDFKQRYGASI 97
+F +++G +
Sbjct: 93 HSEFDEQHGKKV 104
>pdb|1YJE|A Chain A, Crystal Structure Of The Rngfi-B Ligand-Binding Domain
Length = 264
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 133 LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLK 177
LKEHM P+ S LS+L ++ E++ + ++ R+F LK
Sbjct: 201 LKEHMAAVAGDPQPASCLSRLLGKLPELRTLCTQGLQ--RIFCLK 243
>pdb|1ITQ|A Chain A, Human Renal Dipeptidase
pdb|1ITQ|B Chain B, Human Renal Dipeptidase
pdb|1ITU|A Chain A, Human Renal Dipeptidase Complexed With Cilastatin
pdb|1ITU|B Chain B, Human Renal Dipeptidase Complexed With Cilastatin
Length = 369
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 120 SIAYNLDREFGPRLKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVF 174
++ + D + PR+ E ++ +P+ +++L + EVKG + DN+ +RVF
Sbjct: 282 AVGFGGDFDGVPRVPEGLEDVSKYPDLIAELLRRNWTEAEVKGALADNL--LRVF 334
>pdb|3B5N|A Chain A, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|E Chain E, Structure Of The Yeast Plasma Membrane Snare Complex
pdb|3B5N|I Chain I, Structure Of The Yeast Plasma Membrane Snare Complex
Length = 61
Score = 28.5 bits (62), Expect = 2.4, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 148 SKLSKLKAQITEVKGIMMDNIEKV 171
S+ ++L+A+I + GIM DNI KV
Sbjct: 2 SRTAELQAEIDDTVGIMRDNINKV 25
>pdb|1J8D|A Chain A, Structure Of The Metal-Free Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1J8D|B Chain B, Structure Of The Metal-Free Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1J8D|C Chain C, Structure Of The Metal-Free Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1J8D|D Chain D, Structure Of The Metal-Free Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
Length = 180
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 7/41 (17%)
Query: 149 KLSKLKAQITEVKGIMMD-------NIEKVRVFFLKNGIGI 182
KL +K IT+V G++ D N E ++ F +++G+GI
Sbjct: 4 KLENIKFVITDVDGVLTDGQLHYDANGEAIKSFHVRDGLGI 44
>pdb|1YB6|A Chain A, Hydroxynitrile Lyase From Hevea Brasiliensis In Complex
With Mandelonitrile
pdb|1YB7|A Chain A, Hydroxynitrile Lyase From Hevea Brasiliensis In Complex
With 2,3- Dimethyl-2-Hydroxy-Butyronitrile
Length = 256
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 133 LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGII-YMYIW 188
L+E++ Y + PEE +L+K+ + KG + NI R FF K G G I +Y+W
Sbjct: 152 LRENL-YTLCGPEEY-ELAKMLTR----KGSLFQNILAKRPFFTKEGYGSIKKIYVW 202
>pdb|1YAS|A Chain A, Hydroxynitrile Lyase Complexed With Histidine
pdb|7YAS|A Chain A, Hydroxynitrile Lyase, Low Temperature Native Structure
pdb|2YAS|A Chain A, Hydroxynitrile Lyase From Hevea Brasiliensis Complexed
With Rhodanide
pdb|3YAS|A Chain A, Hydroxynitrile Lyase Complexed With Acetone
pdb|4YAS|A Chain A, Hydroxynitrile Lyase Complexed With Chloralhydrate
pdb|5YAS|A Chain A, Hydroxynitrile Lyase Complexed With Hexafluoroacetone
pdb|6YAS|A Chain A, Hydroxynitrile Lyase From Hevea Brasiliensis, Room
Temperature Structure
pdb|1QJ4|A Chain A, Hydroxynitrile-lyase From Hevea Brasiliensis At Atomic
Resolution
pdb|1SC9|A Chain A, Hydroxynitrile Lyase From Hevea Brasiliensis In Complex
With The Natural Substrate Acetone Cyanohydrin
pdb|3C6X|A Chain A, Hnl From Hevea Brasiliensis To Atomic Resolution
pdb|3C6Y|A Chain A, Hnl From Hevea Brasiliensis To Atomic Resolution
pdb|3C6Z|A Chain A, Hnl From Hevea Brasiliensis To Atomic Resolution
pdb|3C70|A Chain A, Hnl From Hevea Brasiliensis To Atomic Resolution
Length = 257
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 133 LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGII-YMYIW 188
L+E++ Y + PEE +L+K+ + KG + NI R FF K G G I +Y+W
Sbjct: 153 LRENL-YTLCGPEEY-ELAKMLTR----KGSLFQNILAKRPFFTKEGYGSIKKIYVW 203
>pdb|1SCI|A Chain A, K236l Mutant Of Hydroxynitrile Lyase From Hevea
Brasiliensis
pdb|1SCK|A Chain A, K236l Mutant Of Hydroxynitrile Lyase From Hevea
Brasiliensis In Complex With Acetone
pdb|1SCQ|A Chain A, K236l Mutant Of Hydroxynitrile Lyase From Hevea
Brasiliensis In Complex With Acetonecyanohydrin
Length = 257
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 133 LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGII-YMYIW 188
L+E++ Y + PEE +L+K+ + KG + NI R FF K G G I +Y+W
Sbjct: 153 LRENL-YTLCGPEEY-ELAKMLTR----KGSLFQNILAKRPFFTKEGYGSIKKIYVW 203
>pdb|2G4L|A Chain A, Anomalous Substructure Of Hydroxynitrile Lyase
Length = 257
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 7/57 (12%)
Query: 133 LKEHMQYCMSHPEEMSKLSKLKAQITEVKGIMMDNIEKVRVFFLKNGIGII-YMYIW 188
L+E++ Y + PEE +L+K+ + KG + NI R FF K G G I +Y+W
Sbjct: 153 LRENL-YTLCGPEEY-ELAKMLTR----KGSLFQNILAKRPFFTKEGYGSIKKIYVW 203
>pdb|1K1E|A Chain A, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|B Chain B, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|C Chain C, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|D Chain D, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|E Chain E, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|F Chain F, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|G Chain G, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|H Chain H, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|I Chain I, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|J Chain J, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|K Chain K, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
pdb|1K1E|L Chain L, Structure Of The Cobalt-Bound Form Of The
Deoxy-D-Mannose-Octulosonate 8-Phosphate Phosphatase
(Yrbi) From Haemophilus Influenzae (Hi1679)
Length = 180
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 7/41 (17%)
Query: 149 KLSKLKAQITEVKGIMMD-------NIEKVRVFFLKNGIGI 182
KL +K IT+V G++ D N E ++ F +++G+GI
Sbjct: 4 KLENIKFVITDVDGVLTDGQLHYDANGEAIKSFHVRDGLGI 44
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,119,295
Number of Sequences: 62578
Number of extensions: 177005
Number of successful extensions: 548
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 535
Number of HSP's gapped (non-prelim): 18
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)