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= psy11469
(267 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1O77|A Chain A, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|B Chain B, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|C Chain C, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|D Chain D, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
pdb|1O77|E Chain E, Crystal Structure Of The C713s Mutant Of The Tir Domain Of
Human Tlr2
Length = 146
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 138 AYVIYSLKDEPFVKQILLPGLAFKDPAVKLRVHHRDLNPNLISTADFVTNSIERSEKVIM 197
A+V YS +D +V+ +++ L +P KL +H RD P D + +SIE+S K +
Sbjct: 5 AFVSYSERDAYWVENLMVQELENFNPPFKLCLHKRDFIPGKW-IIDNIIDSIEKSHKTVF 63
Query: 198 VLSRAFIYGDWSRPE 212
VLS F+ +WS+ E
Sbjct: 64 VLSENFVKSEWSKYE 78
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 41/75 (54%), Gaps = 1/75 (1%)
Query: 138 AYVIYSLKDEPFVKQILLPGLAFKDPAVKLRVHHRDLNPNLISTADFVTNSIERSEKVIM 197
A+V YS +D +V+ + + L +P KL +H RD P D + +SIE+S K +
Sbjct: 8 AFVSYSERDAYWVENLXVQELENFNPPFKLXLHKRDFIPGKW-IIDNIIDSIEKSHKTVF 66
Query: 198 VLSRAFIYGDWSRPE 212
VLS F+ +W + E
Sbjct: 67 VLSENFVKSEWXKYE 81
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%), Gaps = 3/76 (3%)
Query: 138 AYVIYSLKDEPFVKQILLPGLAFKDPAVKLRVHHRD-LNPNLISTADFVTNSIERSEKVI 196
A+V YS +D +V+ +++ L +P KL +H RD ++ I D + +SIE+S K +
Sbjct: 8 AFVSYSERDAYWVENLMVQELENFNPPFKLXLHKRDFIHGKWI--IDNIIDSIEKSHKTV 65
Query: 197 MVLSRAFIYGDWSRPE 212
VLS F+ +W + E
Sbjct: 66 FVLSENFVKSEWXKYE 81
>pdb|2J67|A Chain A, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
pdb|2J67|B Chain B, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
Length = 178
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 56/116 (48%), Gaps = 2/116 (1%)
Query: 121 FVPMDATTIYLD-DTPCQAYVIYSLKDEPFVKQILLPGLAFKDPAVKLRVHHRDLNPNLI 179
F M T L + A++ YS D +VK L+P L +D ++ + ++ +P
Sbjct: 20 FQSMKTTQEQLKRNVRFHAFISYSEHDSLWVKNELIPNLEKEDGSILICLYESYFDPGK- 78
Query: 180 STADFVTNSIERSEKVIMVLSRAFIYGDWSRPEFKSALNGSLMRHRKPLFIIMLPP 235
S ++ + + IE+S K I VLS F+ +W EF A + + + +I+L P
Sbjct: 79 SISENIVSFIEKSYKSIFVLSPNFVQNEWCHYEFYFAHHNLFHENSDHIILILLEP 134
>pdb|1FYV|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr1
Length = 161
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 46/99 (46%), Gaps = 3/99 (3%)
Query: 137 QAYVIYSLKDEPFVKQILLPGLAFKDPAVKLRVHHRDLNPNLISTADFVTNSIERSEKVI 196
A++ YS D +VK LLP L + ++ +H R+ P S + + IE+S K I
Sbjct: 14 HAFISYSGHDSFWVKNELLPNL--EKEGXQICLHERNFVPGK-SIVENIITCIEKSYKSI 70
Query: 197 MVLSRAFIYGDWSRPEFKSALNGSLMRHRKPLFIIMLPP 235
VLS F+ +W E A + L +I+L P
Sbjct: 71 FVLSPNFVQSEWCHYELYFAHHNLFHEGSNSLILILLEP 109
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 91 CPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLD 132
CP CTC + +V CSN +P +P D T +YLD
Sbjct: 4 CPTECTCLD------TVVRCSNKGLKVLPKGIPRDVTELYLD 39
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 6 LGENPFECDCKMEWLQ 21
+G NP CDC M+WL
Sbjct: 133 IGANPLYCDCNMQWLS 148
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 6/44 (13%)
Query: 90 SCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLDD 133
+CP C+C + VDC + ++ VP +P +A +YL D
Sbjct: 12 ACPSQCSC------SGTTVDCRSKRHASVPAGIPTNAQILYLHD 49
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 31.2 bits (69), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 6/45 (13%)
Query: 89 MSCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLDD 133
+ CP CTC N NIVDC +P +P T I L+
Sbjct: 3 LHCPAACTCSN------NIVDCRGKGLTEIPTNLPETITEIRLEQ 41
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 6 LGENPFECDCKMEWL 20
L +NPF CDC ++WL
Sbjct: 159 LAQNPFICDCHLKWL 173
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 6/45 (13%)
Query: 89 MSCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLDD 133
+ CP CTC N NIVDC +P +P T I L+
Sbjct: 3 LHCPAACTCSN------NIVDCRGKGLTEIPTNLPETITEIRLEQ 41
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 6 LGENPFECDCKMEWL 20
L +NPF CDC ++WL
Sbjct: 159 LAQNPFICDCHLKWL 173
>pdb|2IFG|A Chain A, Structure Of The Extracellular Segment Of Human Trka In
Complex With Nerve Growth Factor
pdb|2IFG|B Chain B, Structure Of The Extracellular Segment Of Human Trka In
Complex With Nerve Growth Factor
Length = 347
Score = 30.4 bits (67), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 1 MPKFFLGENPFECDCKMEWLQRAHEIHKDGIYPE 34
+ + L NP C C + WLQR E G+ PE
Sbjct: 105 LQELVLSGNPLHCSCALRWLQRWEEEGLGGV-PE 137
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 6/45 (13%)
Query: 89 MSCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLDD 133
M+CP C+C + VDCS VP +P +YL D
Sbjct: 1 MACPSQCSC------SGTTVDCSGKSLASVPTGIPTTTQVLYLYD 39
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 6/45 (13%)
Query: 89 MSCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLDD 133
M+CP C+C + VDCS VP +P +YL D
Sbjct: 1 MACPSQCSC------SGTTVDCSGKSLASVPTGIPTTTQVLYLYD 39
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 91 CPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYL 131
CP C CYN+ TT+ C VP+ +P + I+L
Sbjct: 2 CPGACVCYNEPKVTTS---CPQQGLQAVPVGIPAASQRIFL 39
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 91 CPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYL 131
CP C CYN+ TT+ C VP+ +P + I+L
Sbjct: 1 CPGACVCYNEPKVTTS---CPQQGLQAVPVGIPAASQRIFL 38
>pdb|3LPD|A Chain A, Crystal Structure Of A Subtilisin-Like Protease
Length = 339
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 169 VHHRDLNPNLISTADFVTNS 188
+HHRDLN N++ DF++NS
Sbjct: 44 LHHRDLNANVLPGYDFISNS 63
>pdb|3LPC|A Chain A, Crystal Structure Of A Subtilisin-Like Protease
Length = 340
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 8/59 (13%)
Query: 130 YLDDTPCQAYVIYSLKDEPFVKQILLPGLAFKDPAVKLRVHHRDLNPNLISTADFVTNS 188
Y D +A ++ D F Q ++ +A D + +HHRDLN N++ DF++NS
Sbjct: 13 YFDRYGVKADKVW---DMGFTGQNVV--VAVVDTGI---LHHRDLNANVLPGYDFISNS 63
>pdb|3LPA|A Chain A, Crystal Structure Of A Subtilisin-Like Protease
Length = 340
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 169 VHHRDLNPNLISTADFVTNS 188
+HHRDLN N++ DF++NS
Sbjct: 44 LHHRDLNANVLPGYDFISNS 63
>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 = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 91 CPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYL 131
CP C CYN+ TT+ C VP +P + I+L
Sbjct: 1 CPGACVCYNEPKVTTS---CPQQGLQAVPTGIPASSQRIFL 38
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 6/44 (13%)
Query: 90 SCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLDD 133
+CP C+C + VDCS VP +P +YL D
Sbjct: 10 ACPSQCSC------SGTTVDCSGKSLASVPTGIPTTTQVLYLYD 47
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 89 MSCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVP 123
+SCP NC C +NI+ CS Q +VP +P
Sbjct: 10 VSCPANCLC------ASNILSCSKQQLPNVPQSLP 38
>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 = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 6/44 (13%)
Query: 90 SCPFNCTCYNDQAWTTNIVDCSNSQYNHVPLFVPMDATTIYLDD 133
CP C+C DQ +V+C N + VP +P D ++L++
Sbjct: 5 GCPSQCSC--DQT----LVNCQNIRLASVPAGIPTDKQRLWLNN 42
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
0.326 0.140 0.456
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,153,390
Number of Sequences: 62578
Number of extensions: 318007
Number of successful extensions: 843
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 817
Number of HSP's gapped (non-prelim): 35
length of query: 267
length of database: 14,973,337
effective HSP length: 97
effective length of query: 170
effective length of database: 8,903,271
effective search space: 1513556070
effective search space used: 1513556070
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)