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= 016966
(379 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 35.0 bits (79), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 55/117 (47%), Gaps = 18/117 (15%)
Query: 173 LPDISFVGYLKKLEILCLRGSDIVKLPVEVGELTWLKLLDLRDCCF----LKVIPPNILS 228
L DIS + L L L L G+ + LP V + KL +L++ L+ +P +
Sbjct: 75 LHDISALKELTNLTYLILTGNQLQSLPNGVFD----KLTNLKELVLVENQLQSLPDGVFD 130
Query: 229 KLSHLEELYIGRESFVDWEEEVEGVKNASLEELKHLPNLTSLEVHVRDVSSLPRGLL 285
KL++L LY+ + +++ + ++L NLT L++ + SLP G+
Sbjct: 131 KLTNLTYLYL-------YHNQLQSLPKGVFDKLT---NLTRLDLDNNQLQSLPEGVF 177
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 55/110 (50%), Gaps = 18/110 (16%)
Query: 179 VGYLKKLEILCLRGS---DIVKLPVEVGELTWLKLLDLRDCCFLKVIPPNILSKLSHLEE 235
+ YL + L L G+ DI L E+ LT+L L + L+ +P + KL++L+E
Sbjct: 59 IQYLPNVRYLALGGNKLHDISALK-ELTNLTYLILTGNQ----LQSLPNGVFDKLTNLKE 113
Query: 236 LYIGRESFVDWEEEVEGVKNASLEELKHLPNLTSLEVHVRDVSSLPRGLL 285
L + E +++ + + ++L NLT L ++ + SLP+G+
Sbjct: 114 LVL-------VENQLQSLPDGVFDKLT---NLTYLYLYHNQLQSLPKGVF 153
>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 = 0.54, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 49/117 (41%), Gaps = 18/117 (15%)
Query: 173 LPDISFVGYLKKLEILCLRGSDIVKLPVEVGELTWLKLLDLRDCCF----LKVIPPNILS 228
L DIS + L L L L G+ + LP V + KL +L++ L+ +P +
Sbjct: 75 LHDISALKELTNLTYLILTGNQLQSLPNGVFD----KLTNLKELVLVENQLQSLPDGVFD 130
Query: 229 KLSHLEELYIGRESFVDWEEEVEGVKNASLEELKHLPNLTSLEVHVRDVSSLPRGLL 285
KL++L L + + V L NLT L++ + SLP G+
Sbjct: 131 KLTNLTYLNLAHNQLQSLPKGV----------FDKLTNLTELDLSYNQLQSLPEGVF 177
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 21/31 (67%)
Query: 193 SDIVKLPVEVGELTWLKLLDLRDCCFLKVIP 223
S+++ LP+++ LT L+ LDLR C L +P
Sbjct: 264 SNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%)
Query: 179 VGYLKKLEILCLRGSDIVKLPVEVGELTWLKLLDLRDCCFLKVIPP 224
+ L+ L+ L +R S + L + L L+ LDLR C L+ PP
Sbjct: 202 IANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP 247
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 35/131 (26%), Positives = 56/131 (42%), Gaps = 20/131 (15%)
Query: 173 LPDISFVGYLKKLEILCLRGSDIVKL-PVEVGELTWLKLLDLRDCCFLKVIPPNILSKLS 231
+P SF + L IL L + + + LT L+ LDL D L+V+ P L
Sbjct: 46 VPAASFQS-CRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLG 104
Query: 232 HLEELYIGRESFVDWEE---------EVEGVKNASLEEL-----KHLPNLTSLEVHVRDV 277
HL L++ R + + +++ +L+ L + L NLT L +H +
Sbjct: 105 HLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRI 164
Query: 278 SSLP----RGL 284
S+P RGL
Sbjct: 165 PSVPEHAFRGL 175
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 16/115 (13%)
Query: 172 GLPDISFVGYLKKLEILCLRGSDIVKLPVEV-GELTWLKLLDLRDCCFLKVIPPNILSKL 230
G DI+ L +I+ + S + KLP + ++LL+L D ++ I +
Sbjct: 44 GFEDIT----LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAYA 98
Query: 231 SHLEELYIGRESFVDWEEEVEGVKNASLEELKHLPNLTSLEVHVRDVSSLPRGLL 285
+++LY+G ++ +++P LT L + D+SSLPRG+
Sbjct: 99 HTIQKLYMG----------FNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIF 143
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 52/115 (45%), Gaps = 16/115 (13%)
Query: 172 GLPDISFVGYLKKLEILCLRGSDIVKLPVEV-GELTWLKLLDLRDCCFLKVIPPNILSKL 230
G DI+ L +I+ + S + KLP + ++LL+L D ++ I +
Sbjct: 38 GFEDIT----LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQ-IEEIDTYAFAYA 92
Query: 231 SHLEELYIGRESFVDWEEEVEGVKNASLEELKHLPNLTSLEVHVRDVSSLPRGLL 285
+++LY+G ++ +++P LT L + D+SSLPRG+
Sbjct: 93 HTIQKLYMG----------FNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIF 137
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 46/103 (44%), Gaps = 13/103 (12%)
Query: 182 LKKLEILCLRGSDIVKLPVEV-GELTWLKLLDLRDCCFLKVIPPNILSKLSHLEELYIGR 240
L L+ L L + + LPV V LT L +LDL L V+P + +L HL+EL++
Sbjct: 63 LINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN-QLTVLPSAVFDRLVHLKELFMCC 121
Query: 241 ESFVDWEEEVEGVKNASLEELKHLPNLTSLEVHVRDVSSLPRG 283
+ +E L +LT L + + S+P G
Sbjct: 122 NKLTELPRGIE-----------RLTHLTHLALDQNQLKSIPHG 153
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
0.321 0.139 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,871,148
Number of Sequences: 62578
Number of extensions: 364096
Number of successful extensions: 734
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 728
Number of HSP's gapped (non-prelim): 15
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
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)