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= 017729
(367 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OQC|A Chain A, Ubiquitin-Fold Modifier 1 Specific Protease, Ufsp2
pdb|3OQC|B Chain B, Ubiquitin-Fold Modifier 1 Specific Protease, Ufsp2
Length = 481
Score = 219 bits (558), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 126/319 (39%), Positives = 179/319 (56%), Gaps = 44/319 (13%)
Query: 75 LSKLVVPGLVDQLNTMKKAIMPYLL-TQHPQLRPFHFSPPGVLQPITVIYELSYGETEMK 133
+ KL+V ++ QL ++K I+ Y+ T P HF PG +TV+Y + +++
Sbjct: 177 VRKLLVDAILRQLVDVEKCILRYMKGTSIVVPEPLHFQLPGKKNLVTVLYPSGIPDDQLQ 236
Query: 134 Q------------ADLTTFSRCVSN-----------LRSLRCQL----IVEALSCIVHLA 166
D F R + +R+ L I ++ C+V
Sbjct: 237 AYRKELHDLFNLPHDRPYFKRINAYHFPDELYKDGYIRNPHTYLSPPNIEGSMICVVQGT 296
Query: 167 LVKHKNLKIMSALSWMLKWSTFSLGWGCAYRSLQTIISWFRLQHYASVDVPSHREIQQAL 226
H ++ GWG AYRSLQTI SWFR Q Y +P+HREIQQAL
Sbjct: 297 YAYHH----------YMQDRIDDNGWGSAYRSLQTICSWFRHQGYTERSIPTHREIQQAL 346
Query: 227 VDIGDKDPSFVGSREWIGAIELSFVLDKLLGVSCKVLNVRSGAELPEKCRELALHFESQG 286
VD GDK +FVGSR+WIG+IE+ VL++L+GV+ K+L V G+E+ + RELA HF++ G
Sbjct: 347 VDAGDKPATFVGSRQWIGSIEVQMVLNQLIGVTSKILFVNQGSEMASQGRELANHFQNVG 406
Query: 287 TPIMIGGGVLAYTLLGVDYNEASGDCAFLILDPHYTGNDEHKKIVNGGWCGWKKAVDSKG 346
TP+M+GGGVLA+T+LGV +NE +G FLILDPHYTG ++ + ++ GWCGWK
Sbjct: 407 TPVMVGGGVLAHTILGVAWNETTGQIKFLILDPHYTGAEDLQVMLEKGWCGWKSP----- 461
Query: 347 KNFFLHDKFYNLLLPQRPS 365
+F+ D +YNL LPQRP+
Sbjct: 462 -DFWNKDAYYNLCLPQRPN 479
>pdb|2Z84|A Chain A, Insights From Crystal And Solution Structures Of Mouse
Ufsp1
Length = 218
Score = 109 bits (273), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 67/171 (39%), Positives = 92/171 (53%), Gaps = 12/171 (7%)
Query: 191 GWGCAYRSLQTIISWFRLQHYASVDVPSHREIQQALVDIGDKDPSFVGSREWIGAIELSF 250
GWGC YR+LQT+ SW Q S VP +Q AL +GDK P F GSR WIG +E S
Sbjct: 45 GWGCGYRTLQTLCSWPGGQ---SSGVPGLPALQGALEAMGDKPPGFRGSRNWIGCVEASL 101
Query: 251 VLDKLLGVSCKVLNVRSGAELPEKCRELALHFESQGTPIMIGGGVLAYT--LLGVDYNEA 308
L+ G ++ ++ G L + L HF + G P+M+GG A + LLG+
Sbjct: 102 CLEHFGGPQGRLCHLPRGVGLRGEEERLYSHFTTGGGPVMVGGDADAQSKALLGICEGPG 161
Query: 309 SGDCAFLILDPHYTGNDEHK-KIVNGGWCGWKKAVDSKGKNFFLHDKFYNL 358
S + LILDPHY G +++ ++ GW GW+K K+ F + FYNL
Sbjct: 162 S-EVYVLILDPHYWGTPKNRCELQAAGWVGWQKV-----KSVFDSNSFYNL 206
>pdb|3PYA|A Chain A, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
(S)-15-Aza-14,15-Dihydrogeranylgeranyl Thiolodiphosphate
pdb|3PYB|A Chain A, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3PYB|B Chain B, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3PYB|C Chain C, Crystal Structure Of Ent-Copalyl Diphosphate Synthase From
Arabidopsis Thaliana In Complex With
13-Aza-13,14-Dihydrocopalyl Diphosphate
Length = 727
Score = 31.6 bits (70), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 43/93 (46%), Gaps = 13/93 (13%)
Query: 195 AYRSLQTIISWFRLQHYASVDVPSHREIQQALVDIGDKDPSFVGSREWIGAIELS----- 249
A +S++TI+ R + + ++ AL+D GDK P+F + +WI +LS
Sbjct: 14 AVKSVKTIL---RNLTDGEITISAYDTAWVALIDAGDKTPAFPSAVKWIAENQLSDGSWG 70
Query: 250 -----FVLDKLLGVSCKVLNVRSGAELPEKCRE 277
D+L+ V+ +RS P +C +
Sbjct: 71 DAYLFSYHDRLINTLACVVALRSWNLFPHQCNK 103
>pdb|1VRM|A Chain A, Crystal Structure Of The Apbe Protein (Tm1553) From
Thermotoga Maritima Msb8 At 1.58 A Resolution
Length = 325
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 38/90 (42%), Gaps = 10/90 (11%)
Query: 205 WFRLQHYASVDVPSHREIQQALVDIGDKDPSFVGSREWIGAIELSFVLDKLLGVSCKVLN 264
W +Y ++ VPS EI++AL G K+ F + GV +
Sbjct: 114 WGFTGNYENLRVPSREEIEEALKHTGYKNVLFDDKNXRVXVKN---------GVKIDLGG 164
Query: 265 VRSGAELPEKCRELALHFESQGTPIMIGGG 294
+ G L ++ R++AL F+ T + GG
Sbjct: 165 IAKGYAL-DRARQIALSFDENATGFVEAGG 193
>pdb|3P5P|A Chain A, Crystal Structure Of Taxadiene Synthase From Pacific Yew
(Taxus Brevifolia) In Complex With Mg2+ And
13-Aza-13,14-Dihydrocopalyl Diphosphate
pdb|3P5R|A Chain A, Crystal Structure Of Taxadiene Synthase From Pacific Yew
(Taxus Brevifolia) In Complex With Mg2+ And
2-Fluorogeranylgeranyl Diphosphate
pdb|3P5R|B Chain B, Crystal Structure Of Taxadiene Synthase From Pacific Yew
(Taxus Brevifolia) In Complex With Mg2+ And
2-Fluorogeranylgeranyl Diphosphate
Length = 764
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 137 LTTFSRCVSNLRSLRCQLIVEALSCIVHLALVKHKNLKIMSALSWMLK-WSTFSLGWG 193
L F CV + S+ + + I HL + +H +I AL ++ + WS +GWG
Sbjct: 231 LDKFGGCVPCMYSIDLLERLSLVDNIEHLGIGRHFKQEIKGALDYVYRHWSERGIGWG 288
>pdb|1J0A|A Chain A, Crystal Structure Analysis Of The Acc Deaminase Homologue
pdb|1J0A|B Chain B, Crystal Structure Analysis Of The Acc Deaminase Homologue
pdb|1J0A|C Chain C, Crystal Structure Analysis Of The Acc Deaminase Homologue
pdb|1J0B|A Chain A, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|B Chain B, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|C Chain C, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|D Chain D, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|E Chain E, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|F Chain F, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|G Chain G, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|H Chain H, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|I Chain I, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|J Chain J, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|K Chain K, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|L Chain L, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|M Chain M, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|N Chain N, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|O Chain O, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|P Chain P, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|Q Chain Q, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|R Chain R, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|S Chain S, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|T Chain T, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|U Chain U, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|V Chain V, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|W Chain W, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
pdb|1J0B|X Chain X, Crystal Structure Analysis Of The Acc Deaminase Homologue
Complexed With Inhiitor
Length = 325
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 10/38 (26%), Positives = 23/38 (60%)
Query: 249 SFVLDKLLGVSCKVLNVRSGAELPEKCRELALHFESQG 286
+++LDK++G+ +V + + EL + E+A + +G
Sbjct: 111 NYLLDKIMGIETRVYDAKDSFELMKYAEEIAEELKREG 148
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
0.324 0.139 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,156,580
Number of Sequences: 62578
Number of extensions: 458877
Number of successful extensions: 807
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 799
Number of HSP's gapped (non-prelim): 9
length of query: 367
length of database: 14,973,337
effective HSP length: 100
effective length of query: 267
effective length of database: 8,715,537
effective search space: 2327048379
effective search space used: 2327048379
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: 52 (24.6 bits)