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= 013278
(446 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DSH|A Chain A, Crystal Structure Of Dimeric Interferon Regulatory Factor
5 (irf-5) Transactivation Domain
Length = 246
Score = 32.0 bits (71), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 73 NVHNICSNPLERWSLQTTNEKFKDFVNWVLLFQNGSVNEP 112
+ H+ C NP++R ++T + F+N ++LFQ G N P
Sbjct: 121 SAHDSCPNPIQR-EVKTKLFSLEHFLNELILFQKGQTNTP 159
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 40/122 (32%), Positives = 56/122 (45%), Gaps = 32/122 (26%)
Query: 147 VGFSRLKSLDLQHVESLDISTTSLKYLTVDEFLLSEPKGLRSCKVICESLEALKLHFGRE 206
+G S L L H+ESL S SL L P+ L+S V +L+AL
Sbjct: 81 LGLSSLPELP-PHLESLVASCNSLTELP------ELPQSLKSLLVDNNNLKALS------ 127
Query: 207 IDSSPLLENL-----------KMDSCCFPDLKILDISSNSLKSL-----TLERIEFGGDE 250
D PLLE L ++ + F LKI+D+ +NSLK L +LE I G ++
Sbjct: 128 -DLPPLLEYLGVSNNQLEKLPELQNSSF--LKIIDVDNNSLKKLPDLPPSLEFIAAGNNQ 184
Query: 251 LD 252
L+
Sbjct: 185 LE 186
>pdb|2OVP|B Chain B, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|B Chain B, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 445
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 28 DRLSNLPEPIIHHIFSFLETIDVVRASAVSRKWRYL 63
D +S LP+ + ++ SFLE D+++A+ R WR L
Sbjct: 17 DFISLLPKELALYVLSFLEPKDLLQAAQTCRYWRIL 52
>pdb|1W63|B Chain B, Ap1 Clathrin Adaptor Core
pdb|1W63|D Chain D, Ap1 Clathrin Adaptor Core
pdb|1W63|F Chain F, Ap1 Clathrin Adaptor Core
pdb|1W63|H Chain H, Ap1 Clathrin Adaptor Core
pdb|1W63|J Chain J, Ap1 Clathrin Adaptor Core
pdb|1W63|L Chain L, Ap1 Clathrin Adaptor Core
Length = 584
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 14/98 (14%)
Query: 275 DFTLESLNSLQNAF--------IF-LETIGEYM-----EAKEICHRMSKILNGLRDVKVL 320
D +S+N L A IF L+ +G YM EA+ IC R++ L+ VL
Sbjct: 198 DLKAQSINKLLTALNECTEWAQIFILDCLGNYMPKDDREAQSICERVTPRLSHANSAVVL 257
Query: 321 KLSCTLYQFLNAILEQRSYFSASFNNLKSLILCVTTAE 358
L +F+ + + Y++ L ++ + +AE
Sbjct: 258 SAVKVLMKFMEMLSKDLDYYATLLKKLAPPLVTLLSAE 295
>pdb|3UT7|A Chain A, Structural View Of A Non Pfam Singleton And Crystal
Packing Analysis
pdb|3UT8|A Chain A, Structural View Of A Non Pfam Singleton And Crystal
Packing Analysis
pdb|3UT8|B Chain B, Structural View Of A Non Pfam Singleton And Crystal
Packing Analysis
Length = 130
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 33 LPEPIIHHIFSFLETIDVVRASAVSRKWRYLWLSIPYLNFNVHNICSNPLERW-SLQTTN 91
LP ++H + + +++ + + K+ + L IPYL + + + LER SL+ N
Sbjct: 52 LPVVVLHQSIAMPHILTILQGNDIMWKYWVIKLMIPYLIYPNKQLVKSELERLSSLEIIN 111
Query: 92 EKFKDFVN 99
E ++ VN
Sbjct: 112 EDIREIVN 119
>pdb|3UT4|A Chain A, Structural View Of A Non Pfam Singleton And Crystal
Packing Analysis
pdb|3UT4|B Chain B, Structural View Of A Non Pfam Singleton And Crystal
Packing Analysis
Length = 134
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 33 LPEPIIHHIFSFLETIDVVRASAVSRKWRYLWLSIPYLNFNVHNICSNPLERW-SLQTTN 91
LP ++H + + +++ + + K+ + L IPYL + + + LER SL+ N
Sbjct: 52 LPVVVLHQSIAMPHILTILQGNDIMWKYWVIKLMIPYLIYPNKQLVKSELERLSSLEIIN 111
Query: 92 EKFKDFVN 99
E ++ VN
Sbjct: 112 EDIREIVN 119
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 36/69 (52%), Gaps = 11/69 (15%)
Query: 221 CCFPDLKILDISSNSLKSLTLERIEFGGDELDNYKLKIACSNLESFNIFAPLLPDFTLES 280
C P +K+LD+ SN +KS+ + ++ + +L +A + L+S +PD +
Sbjct: 418 CLPPRIKVLDLHSNKIKSIPKQVVKLEALQ----ELNVASNQLKS-------VPDGIFDR 466
Query: 281 LNSLQNAFI 289
L SLQ ++
Sbjct: 467 LTSLQKIWL 475
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
0.322 0.138 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,255,744
Number of Sequences: 62578
Number of extensions: 539079
Number of successful extensions: 1180
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1167
Number of HSP's gapped (non-prelim): 42
length of query: 446
length of database: 14,973,337
effective HSP length: 102
effective length of query: 344
effective length of database: 8,590,381
effective search space: 2955091064
effective search space used: 2955091064
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)