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= 037889
(339 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 24/42 (57%)
Query: 30 LTAIPQEIGCLSSLKELDICENNFESLPASIMQLSRLTYLYL 71
LT +P EI LS+L+ LD+ N SLPA + +L Y Y
Sbjct: 259 LTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYF 300
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 35.4 bits (80), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 43/94 (45%), Gaps = 15/94 (15%)
Query: 40 LSSLKELDICENNFESLPASIM-QLSRLTYLYLSKCNMXXXXX---XXXXXXXXXDASNC 95
L++LKEL + EN +SLP + +L+ LTYLYL + D N
Sbjct: 108 LTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDN- 166
Query: 96 KRLQSLPEIPSSLEEVDASVFEKLSKHSHYDENE 129
+LQSLPE VF+KL++ N+
Sbjct: 167 NQLQSLPE----------GVFDKLTQLKQLSLND 190
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 32.3 bits (72), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%)
Query: 28 CGLTAIPQEIGCLSSLKELDICENNFESLPASIMQLSRLTYLYLSKC 74
GL +P + L+ L + N +LPASI L+RL L + C
Sbjct: 114 AGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRAC 160
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 13/85 (15%)
Query: 40 LSSLKELDICENNFESLPASIM-QLSRLTYLYLSKCNMXXXXXXXXXXXXXXDASNC--K 96
L++LKEL + EN +SLP + +L+ LTYL L+ + +
Sbjct: 108 LTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYN 167
Query: 97 RLQSLPEIPSSLEEVDASVFEKLSK 121
+LQSLPE VF+KL++
Sbjct: 168 QLQSLPE----------GVFDKLTQ 182
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 30 LTAIPQEIGCLSSLKELDICENNFESLPASIM-QLSRLTYLYL 71
+ +IP+++ L +L+EL++ N +S+P + +L+ L Y++L
Sbjct: 462 IMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWL 504
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 4/42 (9%)
Query: 35 QEIGC--LSSLKELDICENNFESLPA--SIMQLSRLTYLYLS 72
Q I C ++SL+ LD+ N+F+ LP L++LT+L LS
Sbjct: 113 QNISCCPMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLS 154
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 28/44 (63%), Gaps = 2/44 (4%)
Query: 30 LTAIPQEI-GCLSSLKELDICENNFESLP-ASIMQLSRLTYLYL 71
LTAIP + L+ L +LD+ +N+ +S+P + L LT++YL
Sbjct: 69 LTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL 112
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 30 LTAIPQEI-GCLSSLKELDICENNFESLPASIMQLSRLTYLYLSK 73
LT +P + L LKEL +C N LP I +L+ LT+L L +
Sbjct: 100 LTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQ 144
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 32 AIPQEIGCLSSLKELDICENNFES-LPASIMQLSRLTYLYLSKCNM 76
+IP E+G L L LD+ N + +P ++ L+ LT + LS N+
Sbjct: 668 SIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNL 713
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 32 AIPQEIGCLSSLKELDICENNFES-LPASIMQLSRLTYLYLSKCNM 76
+IP E+G L L LD+ N + +P ++ L+ LT + LS N+
Sbjct: 671 SIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNL 716
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 39 CLSSLKELDICENNFESLPASIMQLSRLTYLYLS 72
C S L+ELD+ + LP+ ++ LS L L LS
Sbjct: 276 CFSGLQELDLTATHLSELPSGLVGLSTLKKLVLS 309
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 30 LTAIPQEIGCLSSLKELDICENNFESLPASIMQLSRLTYL 69
+ +IP+++ L +L+EL++ N +S+P I RLT L
Sbjct: 433 IKSIPKQVVKLEALQELNVASNQLKSVPDGI--FDRLTSL 470
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
0.320 0.133 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,227,815
Number of Sequences: 62578
Number of extensions: 283722
Number of successful extensions: 941
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 912
Number of HSP's gapped (non-prelim): 43
length of query: 339
length of database: 14,973,337
effective HSP length: 99
effective length of query: 240
effective length of database: 8,778,115
effective search space: 2106747600
effective search space used: 2106747600
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: 52 (24.6 bits)