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= psy12750
(93 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 114 bits (284), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 50/79 (63%), Positives = 67/79 (84%)
Query: 13 VLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR 72
VLEACM++CG +FH EVGKFRFLNELIK++SPKYLG+ + V+T++IELLY WT+ P
Sbjct: 73 VLEACMKNCGRRFHNEVGKFRFLNELIKVVSPKYLGDRVSEKVKTKVIELLYSWTMALPE 132
Query: 73 ESKIREAYEMLKKQQVVQA 91
E+KI++AY MLK+Q +VQ+
Sbjct: 133 EAKIKDAYHMLKRQGIVQS 151
>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 = 110 bits (276), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 51/85 (60%), Positives = 66/85 (77%)
Query: 7 VILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLW 66
I + VLE CM+ CG +FH EVGKFRFLNELIK++SPKYLG+ T + V+ +I+ELLY W
Sbjct: 65 AIQALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW 124
Query: 67 TLEYPRESKIREAYEMLKKQQVVQA 91
T+ P E KI EAY+MLKKQ +V++
Sbjct: 125 TVGLPEEVKIAEAYQMLKKQGIVKS 149
>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 = 110 bits (276), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 51/85 (60%), Positives = 66/85 (77%)
Query: 7 VILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLW 66
I + VLE CM+ CG +FH EVGKFRFLNELIK++SPKYLG+ T + V+ +I+ELLY W
Sbjct: 64 AIQALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW 123
Query: 67 TLEYPRESKIREAYEMLKKQQVVQA 91
T+ P E KI EAY+MLKKQ +V++
Sbjct: 124 TVGLPEEVKIAEAYQMLKKQGIVKS 148
>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 = 110 bits (276), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 51/85 (60%), Positives = 66/85 (77%)
Query: 7 VILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLW 66
I + VLE CM+ CG +FH EVGKFRFLNELIK++SPKYLG+ T + V+ +I+ELLY W
Sbjct: 63 AIQALTVLETCMKSCGKRFHDEVGKFRFLNELIKVVSPKYLGSRTSEKVKNKILELLYSW 122
Query: 67 TLEYPRESKIREAYEMLKKQQVVQA 91
T+ P E KI EAY+MLKKQ +V++
Sbjct: 123 TVGLPEEVKIAEAYQMLKKQGIVKS 147
>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 = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 48/79 (60%), Positives = 64/79 (81%)
Query: 13 VLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR 72
VLEAC ++CG +FH EVGKFRFLNELIK++SPKYLG+ + V+T++IELLY WT P
Sbjct: 73 VLEACXKNCGRRFHNEVGKFRFLNELIKVVSPKYLGDRVSEKVKTKVIELLYSWTXALPE 132
Query: 73 ESKIREAYEMLKKQQVVQA 91
E+KI++AY LK+Q +VQ+
Sbjct: 133 EAKIKDAYHXLKRQGIVQS 151
>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 = 104 bits (259), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 45/78 (57%), Positives = 62/78 (79%)
Query: 13 VLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLEYPR 72
VLE CM HCG +FH+EV KFRFLNELIK++SPKYLG+ V+ +IE+L+ WT+ +P
Sbjct: 61 VLEMCMNHCGEKFHSEVAKFRFLNELIKVLSPKYLGSWATGKVKGRVIEILFSWTVWFPE 120
Query: 73 ESKIREAYEMLKKQQVVQ 90
+ KIR+AY+MLKKQ +++
Sbjct: 121 DIKIRDAYQMLKKQGIIK 138
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 52/82 (63%), Gaps = 8/82 (9%)
Query: 9 LTIWVLEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYLWT 67
LT+ +++ C+Q+CGP F + + K F+ E L+KL++P+Y NL P ++ I+ + W+
Sbjct: 73 LTLSLIDXCVQNCGPSFQSLIVKKEFVKENLVKLLNPRY--NL-PLDIQNRILNFIKTWS 129
Query: 68 LEYPRE---SKIREAY-EMLKK 85
+P S+++E Y +++KK
Sbjct: 130 QGFPGGVDVSEVKEVYLDLVKK 151
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 44/84 (52%), Gaps = 7/84 (8%)
Query: 7 VILTIWVLEACMQHCGPQFHAEVGKFRFLNE-LIKLISPKYLGNLTPDAVRTEIIELLYL 65
V+L + VLE C+++CG +FH V F+ L++ I PK N P V +++ L+
Sbjct: 71 VMLALTVLETCVKNCGHRFHVLVASQDFVESVLVRTILPK---NNPPTIVHDKVLNLIQS 127
Query: 66 WTLEY---PRESKIREAYEMLKKQ 86
W + P + + YE L+++
Sbjct: 128 WADAFRSSPDLTGVVTIYEDLRRK 151
>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 = 32.7 bits (73), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 42/82 (51%), Gaps = 8/82 (9%)
Query: 6 LVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYL 65
+ + + V+E+ +++CG H EV + + EL L+ + N VR +I+ L+
Sbjct: 61 VALYALEVMESVVKNCGQTVHDEVANKQTMEELKDLLKRQVEVN-----VRNKILYLIQA 115
Query: 66 WTLEYPRESK---IREAYEMLK 84
W + E K +++ Y+++K
Sbjct: 116 WAHAFRNEPKYKVVQDTYQIMK 137
>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 = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 42/87 (48%), Gaps = 9/87 (10%)
Query: 6 LVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYL 65
+ + + +L AC+ +CG FH EV F +E+ +++ + V ++ L+
Sbjct: 58 VAMQALTLLGACVSNCGKIFHLEVCSRDFASEVSNVLNKGHP------KVCEKLKALMVE 111
Query: 66 WTLEY---PRESKIREAYEMLKKQQVV 89
WT E+ P+ S I + LK+Q V
Sbjct: 112 WTDEFKNDPQLSLISAMIKNLKEQGVT 138
>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 = 29.6 bits (65), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 10 TIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLYLWTLE 69
++ VLE+ +++CG H EV F E ++ S +L + + VR +++EL+ W
Sbjct: 62 SLLVLESIVKNCGAPVHEEV----FTKENCEMFS-SFLESTPHENVRQKMLELVQTWAYA 116
Query: 70 YPRESK---IREAYEMLKKQ 86
+ K I++ +LK +
Sbjct: 117 FRSSDKYQAIKDTMTILKAK 136
>pdb|3FHN|A Chain A, Structure Of Tip20p
pdb|3FHN|B Chain B, Structure Of Tip20p
pdb|3FHN|C Chain C, Structure Of Tip20p
pdb|3FHN|D Chain D, Structure Of Tip20p
Length = 706
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 34/59 (57%), Gaps = 5/59 (8%)
Query: 26 HAEVGKFRFLNELIKLISPKYLGN----LTPDAVRT-EIIELLYLWTLEYPRESKIREA 79
HA K L+EL+K++ KY N L P+ ++T L ++++Y +++KI++A
Sbjct: 638 HATNYKCXSLHELVKILKLKYDPNNQQFLNPEYIKTGNFTSLKEAYSIKYLKDTKIQDA 696
>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 = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 32/69 (46%), Gaps = 5/69 (7%)
Query: 5 RLVILTIWVLEACMQHCGPQFHAEVGKFRFLNELIKLISPKYLGNLTPDAVRTEIIELLY 64
+ + + +L AC+ +CG FH EV F E+ +I N V ++ L+
Sbjct: 67 HVALQALTLLGACVANCGKIFHLEVCSRDFATEVRAVIK-----NKAHPKVCEKLKSLMV 121
Query: 65 LWTLEYPRE 73
W+ E+ ++
Sbjct: 122 EWSEEFQKD 130
>pdb|3K6S|A Chain A, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|C Chain C, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|E Chain E, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K6S|G Chain G, Structure Of Integrin Alphaxbeta2 Ectodomain
pdb|3K71|A Chain A, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|C Chain C, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|E Chain E, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K71|G Chain G, Structure Of Integrin Alphax Beta2 Ectodomain
pdb|3K72|A Chain A, Structure Of Integrin Alphax Beta2
pdb|3K72|C Chain C, Structure Of Integrin Alphax Beta2
Length = 1095
Score = 27.3 bits (59), Expect = 2.3, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 21 CGPQFHAEVGKFRFLNELIKLISPKYLGNLTP 52
CGP H E G+ +L L L+ P L P
Sbjct: 89 CGPTVHHECGRNMYLTGLCFLLGPTQLTQRLP 120
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
0.327 0.141 0.446
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,713,177
Number of Sequences: 62578
Number of extensions: 91494
Number of successful extensions: 237
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 224
Number of HSP's gapped (non-prelim): 16
length of query: 93
length of database: 14,973,337
effective HSP length: 60
effective length of query: 33
effective length of database: 11,218,657
effective search space: 370215681
effective search space used: 370215681
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: 45 (21.9 bits)