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= 021304
(314 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZME|B Chain B, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
Length = 238
Score = 117 bits (292), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 60/137 (43%), Positives = 92/137 (67%), Gaps = 9/137 (6%)
Query: 177 GSVRMVGVGGLLRKEQEMWESTDRSLQEAFQDLNALMNKAKEMVMLAEKMRQKLLAGSSS 236
G +R VG+ G+ RK +E + TD+++ EAF+DL+ LM KAKEMV L++ + K+
Sbjct: 1 GRIRAVGIVGIERKLEEKRKETDKNISEAFEDLSKLMIKAKEMVELSKSIANKI---KDK 57
Query: 237 QSNSANDEELGSKEEMQDWLLSVGIVSPVTKES--AGALYHQQLSRQLADFVKIPLERAG 294
Q + DE + + +LLS+GI +PVT+E+ +G YH QL++QLA +++PLE G
Sbjct: 58 QGDITEDETI----RFKSYLLSMGIANPVTRETYGSGTQYHMQLAKQLAGILQVPLEERG 113
Query: 295 GMINLIDVYCLFNRARG 311
G+++L +VYCL NRARG
Sbjct: 114 GIMSLTEVYCLVNRARG 130
>pdb|3CUQ|B Chain B, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
Length = 218
Score = 102 bits (254), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 53/116 (45%), Positives = 79/116 (68%), Gaps = 9/116 (7%)
Query: 198 TDRSLQEAFQDLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLL 257
TD+++ EAF+DL+ LM KAKEMV L++ + K+ Q + DE + K +LL
Sbjct: 2 TDKNISEAFEDLSKLMIKAKEMVELSKSIANKI---KDKQGDITEDETIRFK----SYLL 54
Query: 258 SVGIVSPVTKES--AGALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARG 311
S+GI +PVT+E+ +G YH QL++QLA +++PLE GG+++L +VYCL NRARG
Sbjct: 55 SMGIANPVTRETYGSGTQYHMQLAKQLAGILQVPLEERGGIMSLTEVYCLVNRARG 110
>pdb|2DX5|A Chain A, The Complex Structure Between The Mouse Eap45-Glue Domain
And Ubiquitin
Length = 139
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 29/122 (23%), Positives = 52/122 (42%), Gaps = 13/122 (10%)
Query: 37 HDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSP 96
+D ++ + F +G +L+THRL++ + +AIPLS I I + + S
Sbjct: 27 YDGEEKIKF---DAGTLLLSTHRLIWRDQKNNECCMAIPLSQIVFI---EEQAAGIGKSA 80
Query: 97 RFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWRGRAWAWET 156
+ + P N+ +PG ++ I + + G E + E + R WET
Sbjct: 81 KIVVHLHPAPSNK----EPGPFQSSKNSYIRLSFKEHGQIEFYRRLSEEMTQRR---WET 133
Query: 157 TP 158
P
Sbjct: 134 VP 135
>pdb|2HTH|B Chain B, Structural Basis For Ubiquitin Recognition By The Human
Eap45ESCRT-Ii Glue Domain
Length = 140
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/122 (22%), Positives = 49/122 (40%), Gaps = 13/122 (10%)
Query: 37 HDQDDAVSFPPLKSGHFILTTHRLLFLSSSCSSTAVAIPLSAITHIFSSKRSLKSVFHSP 96
+D ++ + F +G +L+THRL++ +AI LS I I + + S
Sbjct: 29 YDGEEKIKF---DAGTLLLSTHRLIWRDQKNHECCMAILLSQIVFI---EEQAAGIGKSA 82
Query: 97 RFRFQVSATPDNRIFDSDPGRVTGLRSVVITVVVRGKGDWELFLSKMWECWRGRAWAWET 156
+ + P N+ +PG ++ I + + G E + E + R WE
Sbjct: 83 KIVVHLHPAPPNK----EPGPFQSSKNSYIKLSFKEHGQIEFYRRLSEEMTQRR---WEN 135
Query: 157 TP 158
P
Sbjct: 136 MP 137
>pdb|1H5Y|A Chain A, Hisf Protein From Pyrobaculum Aerophilum
pdb|1H5Y|B Chain B, Hisf Protein From Pyrobaculum Aerophilum
Length = 253
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 29/52 (55%), Gaps = 9/52 (17%)
Query: 244 EELGSKEEMQDWLLSVGIVSPVTKESAGALYHQQLSRQLADFVKIPLERAGG 295
EELG+ E + ++ + ++ G Y +L R++AD V+IP+ +GG
Sbjct: 164 EELGAGEIL---------LTSIDRDGTGLGYDVELIRRVADSVRIPVIASGG 206
>pdb|1W7P|D Chain D, The Crystal Structure Of Endosomal Complex Escrt-Ii
(Vps22VPS25VPS36)
Length = 566
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 26/133 (19%), Positives = 62/133 (46%), Gaps = 13/133 (9%)
Query: 182 VGVGGLLRKEQEMWESTDRSLQEAFQDLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSA 241
+G+ L + + + D A DLN LM+ A + E++ + +++ +
Sbjct: 323 IGISSLEKSRENQLLNNDILFNNALTDLNKLMSLATSI----ERLYKNSNITMKTKTLNL 378
Query: 242 NDEELGSKEEMQDWLLSVGIVSPVTKESAGALYHQQLSRQ-----LADFVKIPLERAGGM 296
DE ++ + + LL + + KE L+ +++R+ L++F + + +
Sbjct: 379 QDESTVNEPKTRRPLLILDREKFLNKE----LFLDEIAREIYEFTLSEFKDLNSDTNYMI 434
Query: 297 INLIDVYCLFNRA 309
I L+D+Y ++N++
Sbjct: 435 ITLVDLYAMYNKS 447
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
0.318 0.131 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,530,507
Number of Sequences: 62578
Number of extensions: 303609
Number of successful extensions: 615
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 605
Number of HSP's gapped (non-prelim): 8
length of query: 314
length of database: 14,973,337
effective HSP length: 99
effective length of query: 215
effective length of database: 8,778,115
effective search space: 1887294725
effective search space used: 1887294725
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)