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= psy6184
(156 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZYQ|A Chain A, Crystal Structure Of The Tandem Vhs And Fyve Domains Of
Hepatocyte Growth Factor-Regulated Tyrosine Kinase
Substrate (Hgs-Hrs) At 1.48 A Resolution
pdb|4AVX|A Chain A, Hepatocyte Growth Factor-Regulated Tyrosine Kinase
Substrate (Hgs-Hrs) Bound To An Ip2 Compound At 1.68 A
Resolution
Length = 226
Score = 107 bits (268), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 56/108 (51%), Positives = 73/108 (67%), Gaps = 2/108 (1%)
Query: 12 HALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQHEE 71
+A+ SIKKK+ + NPH+ LYAL V+ES VKNCG +HDEV K ME++K+L++
Sbjct: 45 YAVNSIKKKVNDKNPHVALYALEVMESVVKNCGQTVHDEVANKQTMEELKDLLKRQVEVN 104
Query: 72 VKAKILELIQAWAHAFRNSPKYRAV-PTKSWMTDKGFKNPS-KSSDSL 117
V+ KIL LIQAWAHAFRN PKY+ V T M +G P K SD++
Sbjct: 105 VRNKILYLIQAWAHAFRNEPKYKVVQDTYQIMKVEGHVFPEFKESDAM 152
>pdb|1DVP|A Chain A, Crystal Structure Of The Vhs And Fyve Tandem Domains Of
Hrs, A Protein Involved In Membrane Trafficking And
Signal Transduction
Length = 220
Score = 100 bits (248), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 51/112 (45%), Positives = 73/112 (65%), Gaps = 2/112 (1%)
Query: 8 IVPSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGT 67
+ P +A A+IKKK+ + NPH Y+LLVLES VKNCG +H+EV TK E + T
Sbjct: 38 VTPKNAFAAIKKKMNSPNPHSSCYSLLVLESIVKNCGAPVHEEVFTKENCEMFSSFLEST 97
Query: 68 QHEEVKAKILELIQAWAHAFRNSPKYRAV-PTKSWMTDKGFKNPS-KSSDSL 117
HE V+ K+LEL+Q WA+AFR+S KY+A+ T + + KG P + +D++
Sbjct: 98 PHENVRQKMLELVQTWAYAFRSSDKYQAIKDTMTILKAKGHTFPELREADAM 149
>pdb|1ELK|A Chain A, Vhs Domain Of Tom1 Protein From H. Sapiens
pdb|1ELK|B Chain B, Vhs Domain Of Tom1 Protein From H. Sapiens
Length = 157
Score = 69.3 bits (168), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 42/95 (44%), Positives = 57/95 (60%), Gaps = 8/95 (8%)
Query: 10 PSHALASIKKKLT-NSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQ 68
P AL ++KK++ N N H V+ AL VLE+CVKNCG+ H V ++ F+E + LVR
Sbjct: 51 PKDALRAVKKRIVGNKNFHEVMLALTVLETCVKNCGHRFHVLVASQDFVESV--LVRTIL 108
Query: 69 HEE-----VKAKILELIQAWAHAFRNSPKYRAVPT 98
+ V K+L LIQ+WA AFR+SP V T
Sbjct: 109 PKNNPPTIVHDKVLNLIQSWADAFRSSPDLTGVVT 143
>pdb|1X5B|A Chain A, The Solution Structure Of The Vhs Domain Of Human Signal
Transducing Adaptor Molecule 2
pdb|2L0T|B Chain B, Solution Structure Of The Complex Of Ubiquitin And The Vhs
Domain Of Stam2
Length = 163
Score = 63.5 bits (153), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 58/106 (54%), Gaps = 1/106 (0%)
Query: 14 LASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQHEEVK 73
L +I K++ + PH+ L AL +L +CV NCG + H EV ++ F +++ +++ H +V
Sbjct: 54 LKAIMKRVNHKVPHVALQALTLLGACVANCGKIFHLEVCSRDFATEVRAVIKNKAHPKVC 113
Query: 74 AKILELIQAWAHAFRNSPKYRAV-PTKSWMTDKGFKNPSKSSDSLG 118
K+ L+ W+ F+ P++ + T M ++G P S + G
Sbjct: 114 EKLKSLMVEWSEEFQKDPQFSLISATIKSMKEEGITFPPAGSQTSG 159
>pdb|3LDZ|A Chain A, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|D Chain D, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|B Chain B, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
pdb|3LDZ|C Chain C, Crystal Structure Of Human Stam1 Vhs Domain In Complex
With Ubiquitin
Length = 140
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 48/87 (55%), Gaps = 1/87 (1%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQH 69
P L SI +++ + +PH+ + AL +L +CV NCG + H EV ++ F ++ ++ H
Sbjct: 40 PKDCLRSIMRRVNHKDPHVAMQALTLLGACVSNCGKIFHLEVCSRDFASEVSNVL-NKGH 98
Query: 70 EEVKAKILELIQAWAHAFRNSPKYRAV 96
+V K+ L+ W F+N P+ +
Sbjct: 99 PKVCEKLKALMVEWTDEFKNDPQLSLI 125
>pdb|1LF8|A Chain A, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|B Chain B, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|C Chain C, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
pdb|1LF8|D Chain D, Complex Of Gga3-Vhs Domain And Ci-Mpr C-Terminal
Phosphopeptide
Length = 171
Score = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 40/70 (57%), Gaps = 5/70 (7%)
Query: 30 LYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQ-----HEEVKAKILELIQAWA 84
L AL VLE+C+KNCG H+EVG F+ ++ ++V E+VK K++EL+ +W
Sbjct: 68 LQALTVLEACMKNCGRRFHNEVGKFRFLNELIKVVSPKYLGDRVSEKVKTKVIELLYSWT 127
Query: 85 HAFRNSPKYR 94
A K +
Sbjct: 128 MALPEEAKIK 137
>pdb|1JPL|A Chain A, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JPL|B Chain B, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JPL|C Chain C, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JPL|D Chain D, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Independent Mannose 6-Phosphate Receptor
pdb|1JUQ|A Chain A, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
pdb|1JUQ|B Chain B, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
pdb|1JUQ|C Chain C, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
pdb|1JUQ|D Chain D, Gga3 Vhs Domain Complexed With C-Terminal Peptide From
Cation-Dependent Mannose 6-Phosphate Receptor
Length = 171
Score = 49.7 bits (117), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 39/71 (54%), Gaps = 5/71 (7%)
Query: 29 VLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQ-----HEEVKAKILELIQAW 83
L AL VLE+C KNCG H+EVG F+ ++ ++V E+VK K++EL+ +W
Sbjct: 67 ALQALTVLEACXKNCGRRFHNEVGKFRFLNELIKVVSPKYLGDRVSEKVKTKVIELLYSW 126
Query: 84 AHAFRNSPKYR 94
A K +
Sbjct: 127 TXALPEEAKIK 137
>pdb|1PY1|A Chain A, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|B Chain B, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|C Chain C, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
pdb|1PY1|D Chain D, Complex Of Gga1-Vhs Domain And Beta-Secretase C-Terminal
Phosphopeptide
Length = 158
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 5/61 (8%)
Query: 29 VLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVR----GTQ-HEEVKAKILELIQAW 83
+ AL VLE+C+K+CG HDEVG F+ ++ ++V G++ E+VK KILEL+ +W
Sbjct: 64 AIQALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW 123
Query: 84 A 84
Sbjct: 124 T 124
>pdb|3G2S|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Peptide
pdb|3G2S|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Peptide
pdb|3G2T|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Phosphopeptide
pdb|3G2T|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sorla C-Terminal
Phosphopeptide
pdb|3G2U|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Peptide
pdb|3G2U|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Peptide
pdb|3G2V|A Chain A, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Phosphopeptide
pdb|3G2V|B Chain B, Vhs Domain Of Human Gga1 Complexed With Sotilin C-Terminal
Phosphopeptide
pdb|3G2W|A Chain A, Vhs Domain Of Human Gga1 Complexed With A Dxxll Hinge
Peptide
pdb|3G2W|B Chain B, Vhs Domain Of Human Gga1 Complexed With A Dxxll Hinge
Peptide
Length = 149
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 40/60 (66%), Gaps = 5/60 (8%)
Query: 30 LYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVR----GTQ-HEEVKAKILELIQAWA 84
+ AL VLE+C+K+CG HDEVG F+ ++ ++V G++ E+VK KILEL+ +W
Sbjct: 66 IQALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSWT 125
>pdb|1JWF|A Chain A, Crystal Structure Of Human Gga1 Vhs Domain.
pdb|1JWG|A Chain A, Vhs Domain Of Human Gga1 Complexed With Cation-independent
M6pr C-terminal Peptide
pdb|1JWG|B Chain B, Vhs Domain Of Human Gga1 Complexed With Cation-independent
M6pr C-terminal Peptide
pdb|1UJJ|A Chain A, Vhs Domain Of Human Gga1 Complexed With C-Terminal Peptide
From Bace
pdb|1UJJ|B Chain B, Vhs Domain Of Human Gga1 Complexed With C-Terminal Peptide
From Bace
pdb|1UJK|A Chain A, Vhs Domain Of Human Gga1 Complexed With C-Terminal
Phosphopeptide From Bace
pdb|1UJK|B Chain B, Vhs Domain Of Human Gga1 Complexed With C-Terminal
Phosphopeptide From Bace
Length = 147
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 40/60 (66%), Gaps = 5/60 (8%)
Query: 30 LYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVR----GTQ-HEEVKAKILELIQAWA 84
+ AL VLE+C+K+CG HDEVG F+ ++ ++V G++ E+VK KILEL+ +W
Sbjct: 64 IQALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSWT 123
>pdb|1MHQ|A Chain A, Crystal Structure Of Human Gga2 Vhs Domain
pdb|1MHQ|B Chain B, Crystal Structure Of Human Gga2 Vhs Domain
Length = 148
Score = 43.1 bits (100), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 5/90 (5%)
Query: 10 PSHALASIKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGT-- 67
P+HA + K+ + LYAL VLE C+ +CG H EV F+ ++ +++
Sbjct: 36 PTHAPWLLAHKIQSPQEKEALYALTVLEMCMNHCGEKFHSEVAKFRFLNELIKVLSPKYL 95
Query: 68 ---QHEEVKAKILELIQAWAHAFRNSPKYR 94
+VK +++E++ +W F K R
Sbjct: 96 GSWATGKVKGRVIEILFSWTVWFPEDIKIR 125
>pdb|3RRU|A Chain A, X-Ray Crystal Structure Of The Vhs Domain Of Human
Tom1-Like Protein, Northeast Structural Genomics
Consortium Target Hr3050e
pdb|3RRU|B Chain B, X-Ray Crystal Structure Of The Vhs Domain Of Human
Tom1-Like Protein, Northeast Structural Genomics
Consortium Target Hr3050e
Length = 152
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 44/82 (53%), Gaps = 4/82 (4%)
Query: 10 PSHALASIKKKLT-NSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFM-EQMKELV--R 65
P A+ ++KK+++ N N + L +++ CV+NCG + K F+ E + +L+ R
Sbjct: 51 PKDAVKALKKRISKNYNHKEIQLTLSLIDXCVQNCGPSFQSLIVKKEFVKENLVKLLNPR 110
Query: 66 GTQHEEVKAKILELIQAWAHAF 87
+++ +IL I+ W+ F
Sbjct: 111 YNLPLDIQNRILNFIKTWSQGF 132
>pdb|1EYS|C Chain C, Crystal Structure Of Photosynthetic Reaction Center From A
Thermophilic Bacterium, Thermochromatium Tepidum
Length = 382
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 44 GNLIHDEVGTKAFMEQMKELVRGTQHEEVKAKILELIQAWAHAFRNSPKYRAVPTKSWMT 103
GN D++ TK +M ELVR + + KA + E R +P VP +W+T
Sbjct: 92 GNWASDDIYTKVVSRRMFELVRAA-NSDWKAHVAETGVTCYTCHRGNP----VPKYAWVT 146
Query: 104 DKGFKNPS 111
D G K PS
Sbjct: 147 DPGPKYPS 154
>pdb|4GKP|A Chain A, Structure Of The Truncated Neck And C-Terminal Motor
Homology Domain Of Vik1 From Candida Glabrata
pdb|4GKP|B Chain B, Structure Of The Truncated Neck And C-Terminal Motor
Homology Domain Of Vik1 From Candida Glabrata
Length = 275
Score = 30.0 bits (66), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 27 HIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQHEEVKAKILELIQAWAH 85
H++L ++ L+ C + N+I DE+ K + E + ++ + K +LIQ ++H
Sbjct: 2 HMLLNSITELKGCARLFANIIEDEISEKLIVNYSDESIEDMKNHKT-YKFTKLIQNFSH 59
>pdb|1CCW|B Chain B, Structure Of The Coenzyme B12 Dependent Enzyme Glutamate
Mutase From Clostridium Cochlearium
pdb|1CCW|D Chain D, Structure Of The Coenzyme B12 Dependent Enzyme Glutamate
Mutase From Clostridium Cochlearium
pdb|1CB7|B Chain B, Glutamate Mutase From Clostridium Cochlearium
Reconstituted With Methyl-Cobalamin
pdb|1CB7|D Chain D, Glutamate Mutase From Clostridium Cochlearium
Reconstituted With Methyl-Cobalamin
pdb|1I9C|B Chain B, Glutamate Mutase From Clostridium Cochlearium: Complex
With Adenosylcobalamin And Substrate
pdb|1I9C|D Chain D, Glutamate Mutase From Clostridium Cochlearium: Complex
With Adenosylcobalamin And Substrate
Length = 483
Score = 29.3 bits (64), Expect = 1.1, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 7/56 (12%)
Query: 24 SNPHIVLYALLVLESCVKN-------CGNLIHDEVGTKAFMEQMKELVRGTQHEEV 72
SN + ALL E VKN CGN+I D + EQ E ++ + +V
Sbjct: 229 SNAVGITEALLAAEQGVKNITVGYGECGNMIQDIAALRCLEEQTNEYLKAYGYNDV 284
>pdb|2P57|A Chain A, Gap Domain Of Znf289, An Id1-Regulated Zinc Finger Protein
Length = 144
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 92 KYRAVPTKSWMTDKGFKNPSKSSDSLGLELQI-----FRICHIHFSEIKGID 138
+ RAVPT D G KNPS +S + G+ L I R +H S I+ +
Sbjct: 30 RLRAVPTNKACFDCGAKNPSWASITYGVFLCIDCSGVHRSLGVHLSFIRSTE 81
>pdb|1Y4T|A Chain A, Ferric Binding Protein From Campylobacter Jejuni
pdb|1Y4T|D Chain D, Ferric Binding Protein From Campylobacter Jejuni
pdb|3E13|X Chain X, Iron Reconstituted Ferric Binding Protein From
Campylobacter Jejuni
Length = 322
Score = 27.3 bits (59), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 17 IKKKLTNSNPHIVLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVR 65
I+K LT+SN + + L VK+ G D++ E +KE V+
Sbjct: 262 IQKILTDSNYEFPIRNDVELSQTVKDFGTFKEDQIPVSKIAENIKEAVK 310
>pdb|4GKQ|A Chain A, Structure Of The Neck And C-Terminal Motor Homology
Domain Of Vik1 From Candida Glabrata
pdb|4GKQ|B Chain B, Structure Of The Neck And C-Terminal Motor Homology
Domain Of Vik1 From Candida Glabrata
Length = 286
Score = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 29 VLYALLVLESCVKNCGNLIHDEVGTKAFMEQMKELVRGTQHEEVKAKILELIQAWAH 85
+L ++ L+ C + N+I DE+ K + E + ++ + K +LIQ ++H
Sbjct: 15 LLNSITELKGCARLFANIIEDEISEKLIVNYSDESIEDMKNHKT-YKFTKLIQNFSH 70
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
0.320 0.132 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,694,602
Number of Sequences: 62578
Number of extensions: 171601
Number of successful extensions: 470
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 19
length of query: 156
length of database: 14,973,337
effective HSP length: 91
effective length of query: 65
effective length of database: 9,278,739
effective search space: 603118035
effective search space used: 603118035
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)