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= 035853
(581 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 71/168 (42%), Gaps = 10/168 (5%)
Query: 389 LGRLPSLQTFRVHENLSSYQSMLSNNLCPLLHLESLKLVDERTIALQPSSIVLPEYQFPP 448
L +L +LQT + N S L L HL++L L + LQ + ++ P
Sbjct: 343 LEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQA-----FKECP 397
Query: 449 RLIELSLSNTELKYD-PMPALEKLPHLRVLKLKKNSFFGRKLVCSSGGFPSLKVMHLKSM 507
+L L L+ T L + P + L L+VL L F G P L+ ++LK
Sbjct: 398 QLELLDLAFTRLHINAPQSPFQNLHFLQVLNLTY-CFLDTSNQHLLAGLPVLRHLNLKGN 456
Query: 508 FWLEEWTMEND---AMPKLESLIINPCAYLKILPEELWRIKSLTKLEL 552
+ + + + + LE LI++ C L I + + ++ ++L
Sbjct: 457 HFQDGTITKTNLLQTVGSLEVLILSSCGLLSIDQQAFHSLGKMSHVDL 504
>pdb|2VDW|A Chain A, Guanosine N7 Methyl-Transferase Sub-Complex (D1-D12) Of
The Vaccinia Virus Mrna Capping Enzyme
pdb|2VDW|C Chain C, Guanosine N7 Methyl-Transferase Sub-Complex (D1-D12) Of
The Vaccinia Virus Mrna Capping Enzyme
pdb|2VDW|E Chain E, Guanosine N7 Methyl-Transferase Sub-Complex (D1-D12) Of
The Vaccinia Virus Mrna Capping Enzyme
pdb|2VDW|G Chain G, Guanosine N7 Methyl-Transferase Sub-Complex (D1-D12) Of
The Vaccinia Virus Mrna Capping Enzyme
Length = 302
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 41/85 (48%), Gaps = 14/85 (16%)
Query: 362 HPGKCCSSLENLNFISVLHP----SSCTQDILGRLPSLQTFRVHENLSSYQSMLSNNLCP 417
HP + + NL+ ++ ++ D L +L +TF +H+NL S ++ +S
Sbjct: 144 HPRHYATVMNNLSELTASGGKVLITTMDGDKLSKLTDKKTFIIHKNLPSSENYMS----- 198
Query: 418 LLHLESLKLVDERTIALQPSSIVLP 442
+E K+ D+R + PS++ P
Sbjct: 199 ---VE--KIADDRIVVYNPSTMSTP 218
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 50/101 (49%), Gaps = 14/101 (13%)
Query: 204 EFVEFVNVVPSTLRADRS-----LEDFKRISVCRTVTNFDSW--EHFDTYLHS-FLHLTV 255
+++E++N+ + + + +S L K +S+ +T T+ + E F + HS L L +
Sbjct: 329 KYLEYLNMDDNNIPSTKSNTFTGLVSLKYLSLSKTFTSLQTLTNETFVSLAHSPLLTLNL 388
Query: 256 ERKHLSEDVFTLEYCNAICKWFKFLRLLDLGTIVLDEYPAG 296
+ H+S+ N W LR+LDLG +++ +G
Sbjct: 389 TKNHISK------IANGTFSWLGQLRILDLGLNEIEQKLSG 423
>pdb|3DSM|A Chain A, Crystal Structure Of The Surface Layer Protein
Bacuni_02894 From Bacteroides Uniformis, Northeast
Structural Genomics Consortium Target Btr193d
Length = 328
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 400 VHENLSSYQSMLSNNLCPLLHLESLKLVDERTIALQPSSIVLPEYQFPPRLIELSLSNTE 459
V+ N SYQ+ + + E+ K+VDE TI +QP+S+V +Y + + +
Sbjct: 143 VYVNCWSYQNRILK-----IDTETDKVVDELTIGIQPTSLVXDKYNKXWTITDGGYEGSP 197
Query: 460 LKYDPMPALEKL 471
Y+ P+L ++
Sbjct: 198 YGYE-APSLYRI 208
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 41/99 (41%), Gaps = 7/99 (7%)
Query: 283 LDLGTIVLDEYPAGINPXXXXXXXXXNIPSLKHLPSSLCNLLSLHTLDMRWSYIHHTPDE 342
LDL + + A I N SL LP+ + NL +L LD+ + + P E
Sbjct: 229 LDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAE 288
Query: 343 IWKMNELRHLNFGS---ITLPAHPGKCCSSLENLNFISV 378
+ +L++ F TLP G C NL F+ V
Sbjct: 289 LGSCFQLKYFYFFDNMVTTLPWEFGNLC----NLQFLGV 323
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 450 LIELSLSNTELKYDPMPALEKLPHLRVLKLKKNSFFGRKLVCSSGGFPS---LKVMHLKS 506
L EL L N +LK P A +KL L+ LKL N K V G F S LK++ L+
Sbjct: 159 LKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQL---KRV-PEGAFDSLEKLKMLQLQE 214
Query: 507 MFW 509
W
Sbjct: 215 NPW 217
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 19/37 (51%)
Query: 446 FPPRLIELSLSNTELKYDPMPALEKLPHLRVLKLKKN 482
PPR LSLS + MP + L LRVL+L N
Sbjct: 50 LPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHN 86
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 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,733,218
Number of Sequences: 62578
Number of extensions: 728509
Number of successful extensions: 1352
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1346
Number of HSP's gapped (non-prelim): 15
length of query: 581
length of database: 14,973,337
effective HSP length: 104
effective length of query: 477
effective length of database: 8,465,225
effective search space: 4037912325
effective search space used: 4037912325
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: 54 (25.4 bits)