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= 020031
(332 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|W Chain W, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 268
Score = 135 bits (341), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 77/164 (46%), Positives = 104/164 (63%), Gaps = 6/164 (3%)
Query: 5 AGL---EIGGELNLAAGIQVAQLALKHRQNKKQQQRIIVFVGSPIKHEKKVLEMIGRKLK 61
AGL +I G+L++A +Q+AQL LKHRQNK Q QRI+ FV SPI + L + + LK
Sbjct: 74 AGLHDTQIEGKLHMATALQIAQLTLKHRQNKVQHQRIVAFVCSPISDSRDELIRLAKTLK 133
Query: 62 KNSVALDIVNFGEDDEGNTEKLEALLAAVNN--NDSSHLVHVPPGPNALSDVLLSTPIFT 119
KN+VA+DI+NFGE E NTE L+ +AAVNN ++SHL+ V PGP L + + S+PI
Sbjct: 134 KNNVAVDIINFGE-IEQNTELLDEFIAAVNNPQEETSHLLTVTPGPRLLYENIASSPIIL 192
Query: 120 GDGEXXXXXXXXXXXXXXXXXXXYEFGVDPNLDPELALALRVSM 163
+G +FGVDP++DPELA+ALR+SM
Sbjct: 193 EEGSSGMGAFGGSGGDSDANGTFMDFGVDPSMDPELAMALRLSM 236
>pdb|2X5N|A Chain A, Crystal Structure Of The Sprpn10 Vwa Domain
Length = 192
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 54/114 (47%), Positives = 77/114 (67%), Gaps = 2/114 (1%)
Query: 7 LEIGGELNLAAGIQVAQLALKHRQNKKQQQRIIVFVGSPIKHEKKVLEMIGRKLKKNSVA 66
L + G GIQ+AQLALKHR+NK Q+QRI+ FVGSPI ++K L + +++KKN+VA
Sbjct: 78 LPVRGNAKFGDGIQIAQLALKHRENKIQRQRIVAFVGSPIVEDEKNLIRLAKRMKKNNVA 137
Query: 67 LDIVNFGEDDEGNTEKLEALLAAVNNNDSSHLVHVPPGPNALSDVLLSTPIFTG 120
+DI++ GE N L+ + A N++DS HLV +PP P LSD++ +PI G
Sbjct: 138 IDIIHIGELQ--NESALQHFIDAANSSDSCHLVSIPPSPQLLSDLVNQSPIGQG 189
>pdb|2KDE|A Chain A, Nmr Structure Of Major S5a (196-306):k48 Linked
Diubiquitin Species
pdb|2KDF|A Chain A, Nmr Structure Of Minor S5a (196-306):k48 Linked
Diubiquitin Species
Length = 111
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/21 (85%), Positives = 20/21 (95%)
Query: 143 YEFGVDPNLDPELALALRVSM 163
+EFGVDP+ DPELALALRVSM
Sbjct: 9 FEFGVDPSADPELALALRVSM 29
>pdb|1YX4|A Chain A, Structure Of S5a Bound To Monoubiquitin Provides A Model
For Polyubiquitin Recognition
pdb|1YX5|A Chain A, Solution Structure Of S5a Uim-1UBIQUITIN COMPLEX
pdb|1YX6|A Chain A, Solution Structure Of S5a Uim-2UBIQUITIN COMPLEX
Length = 132
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/21 (85%), Positives = 20/21 (95%)
Query: 143 YEFGVDPNLDPELALALRVSM 163
+EFGVDP+ DPELALALRVSM
Sbjct: 30 FEFGVDPSADPELALALRVSM 50
>pdb|1OYZ|A Chain A, X-Ray Structure Of Yiba_ecoli Northeast Structural
Genomics Consortium Target Et31
Length = 280
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 27/41 (65%)
Query: 30 QNKKQQQRIIVFVGSPIKHEKKVLEMIGRKLKKNSVALDIV 70
Q+K ++ RI +G + +K+VL ++ +LKKN+V DI+
Sbjct: 202 QDKNEEVRIEAIIGLSYRKDKRVLSVLCDELKKNTVYDDII 242
>pdb|2WPV|A Chain A, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|C Chain C, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|E Chain E, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|G Chain G, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
Length = 312
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 26/40 (65%)
Query: 274 DMSQLLADQAFVSSILASLPGVDPEDPSVKDVLTSMQNQS 313
D++++ D V+ ++ + +DP +P++KDV+T M N S
Sbjct: 84 DLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWS 123
>pdb|3LKU|A Chain A, Crystal Structure Of S. Cerevisiae Get4 In Complex With An
N-Terminal Fragment Of Get5
pdb|3LKU|C Chain C, Crystal Structure Of S. Cerevisiae Get4 In Complex With An
N-Terminal Fragment Of Get5
pdb|3LKU|E Chain E, Crystal Structure Of S. Cerevisiae Get4 In Complex With An
N-Terminal Fragment Of Get5
Length = 292
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 25/40 (62%)
Query: 274 DMSQLLADQAFVSSILASLPGVDPEDPSVKDVLTSMQNQS 313
D++++ D V+ ++ + +DP +P++KDV+T N S
Sbjct: 76 DLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGXNNWS 115
>pdb|3EQN|A Chain A, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a)
pdb|3EQN|B Chain B, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a)
pdb|3EQO|A Chain A, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a) Gluconolactone Complex
pdb|3EQO|B Chain B, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a) Gluconolactone Complex
Length = 758
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 39/91 (42%), Gaps = 26/91 (28%)
Query: 34 QQQRIIVFVGSPIKHEKKVLEMIGRKLKKNSVALDIVNFGEDDEGNTEKLEALLAAVN-- 91
Q Q I F G+P + + R +K N+G +GNT+ A+ AA+N
Sbjct: 32 QHQGIAAFNGNPGGYP------VFRNVK---------NYGAKGDGNTDDTAAIQAAINAG 76
Query: 92 -----NNDSSH----LVHVPPGPNALSDVLL 113
DS+ LV+ PPG +S L+
Sbjct: 77 GRCGQGCDSTTTQPALVYFPPGTYKVSSPLV 107
>pdb|3IYG|E Chain E, Ca Model Of Bovine TricCCT DERIVED FROM A 4.0 ANGSTROM
Cryo-Em Map
Length = 515
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 47 KHEKKVLEMIGRKLKKNSVALDIVNFGEDDEGNTEKLEALLAAVN 91
K+EK+ E + R++K+ L + +G DDE N L+ L AV
Sbjct: 257 KYEKEKFEEMIRQIKETGANLAVCQWGFDDEANHLLLQNDLPAVR 301
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
0.309 0.127 0.343
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,585,693
Number of Sequences: 62578
Number of extensions: 264059
Number of successful extensions: 545
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 530
Number of HSP's gapped (non-prelim): 15
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 52 (24.6 bits)