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= 017530
(370 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 = 165 bits (418), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 82/181 (45%), Positives = 122/181 (67%), Gaps = 9/181 (4%)
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 GMINLIDVYCLFNRARGTALISPDDLSQACSLWEKFDVPVMLRKFDSGVMAIQSKSHSDE 354
G+++L +VYCL NRARG L+SP+DL AC + E +P+ LR FDSGVM I+ +SH +E
Sbjct: 114 GIMSLTEVYCLVNRARGMELLSPEDLVNACKMLEALKLPLRLRVFDSGVMVIELQSHKEE 173
Query: 355 E 355
E
Sbjct: 174 E 174
>pdb|3CUQ|B Chain B, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
Length = 218
Score = 150 bits (379), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 74/160 (46%), Positives = 109/160 (68%), Gaps = 9/160 (5%)
Query: 198 TDRSLQEAFQDLNALMNKAKEMVMLAEKMRQKLLAGSSSQSNSANDEELGSKEEMQDWLL 257
TD+++ EAF+DL+ LM KAKEMV L++ + K+ Q + DE + + +LL
Sbjct: 2 TDKNISEAFEDLSKLMIKAKEMVELSKSIANKI---KDKQGDITEDETI----RFKSYLL 54
Query: 258 SVGIVSPVTKES--AGALYHQQLSRQLADFVKIPLERAGGMINLIDVYCLFNRARGTALI 315
S+GI +PVT+E+ +G YH QL++QLA +++PLE GG+++L +VYCL NRARG L+
Sbjct: 55 SMGIANPVTRETYGSGTQYHMQLAKQLAGILQVPLEERGGIMSLTEVYCLVNRARGMELL 114
Query: 316 SPDDLSQACSLWEKFDVPVMLRKFDSGVMAIQSKSHSDEE 355
SP+DL AC + E +P+ LR FDSGVM I+ +SH +EE
Sbjct: 115 SPEDLVNACKMLEALKLPLRLRVFDSGVMVIELQSHKEEE 154
>pdb|1W7P|D Chain D, The Crystal Structure Of Endosomal Complex Escrt-Ii
(Vps22VPS25VPS36)
Length = 566
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/176 (21%), Positives = 85/176 (48%), Gaps = 16/176 (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 INLIDVYCLFNRAR--GTALISPDDLSQACSLWEKFDV-PVMLRKFDSGVMAIQSK 349
I L+D+Y ++N++ GT LISP ++ +AC +E + + L K + ++ + S+
Sbjct: 435 ITLVDLYAMYNKSMRIGTGLISPMEMREACERFEHLGLNELKLVKVNKRILCVTSE 490
>pdb|2DX5|A Chain A, The Complex Structure Between The Mouse Eap45-Glue Domain
And Ubiquitin
Length = 139
Score = 36.6 bits (83), Expect = 0.021, 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|1U5T|B Chain B, Structure Of The Escrt-Ii Endosomal Trafficking Complex
Length = 169
Score = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 48/85 (56%), Gaps = 8/85 (9%)
Query: 273 LYHQQLSRQ-----LADFVKIPLERAGGMINLIDVYCLFNRAR--GTALISPDDLSQACS 325
L+ +++R+ L++F + + +I L+D+Y ++N++ GT LISP ++ +AC
Sbjct: 11 LFLDEIAREIYEFTLSEFKDLNSDTNYMIITLVDLYAMYNKSMRIGTGLISPMEMREACE 70
Query: 326 LWEKFDV-PVMLRKFDSGVMAIQSK 349
+E + + L K + ++ + S+
Sbjct: 71 RFEHLGLNELKLVKVNKRILCVTSE 95
>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 = 2.4, 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 = 7.4, 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
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
0.319 0.132 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,082,264
Number of Sequences: 62578
Number of extensions: 367916
Number of successful extensions: 734
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 723
Number of HSP's gapped (non-prelim): 9
length of query: 370
length of database: 14,973,337
effective HSP length: 100
effective length of query: 270
effective length of database: 8,715,537
effective search space: 2353194990
effective search space used: 2353194990
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: 52 (24.6 bits)