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= psy5866
(98 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F97|A Chain A, Soluble Part Of The Junction Adhesion Molecule From Mouse
Length = 212
Score = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 35/67 (52%), Gaps = 3/67 (4%)
Query: 27 RDNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQPPKISPGANPVATEGRAIELVCSTSGG 86
+DNG++ C + G GQ+ +TVL PP P IS ++ V RA+ L CS G
Sbjct: 75 KDNGEYTCMVSEEG-GQNYGEVSIHLTVLVPPSKPTISVPSS-VTIGNRAV-LTCSEHDG 131
Query: 87 SPDPQIS 93
SP + S
Sbjct: 132 SPPSEYS 138
>pdb|1DR9|A Chain A, Crystal Structure Of A Soluble Form Of B7-1 (Cd80)
Length = 201
Score = 32.0 bits (71), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 40/89 (44%), Gaps = 18/89 (20%)
Query: 6 IIDYRP-DSGRYDLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQPPKIS 64
I+ RP D G Y+ ++ +E+D K E H T++V P IS
Sbjct: 69 ILALRPSDEGTYECVV--LKYEKDAFKRE------------HLAEVTLSVKADFPTPSIS 114
Query: 65 PGANPVATEGRAIELVCSTSGGSPDPQIS 93
P + R ++CSTSGG P+P +S
Sbjct: 115 DFEIPTSNIRR---IICSTSGGFPEPHLS 140
>pdb|1I8L|A Chain A, Human B7-1CTLA-4 Co-Stimulatory Complex
pdb|1I8L|B Chain B, Human B7-1CTLA-4 Co-Stimulatory Complex
Length = 208
Score = 32.0 bits (71), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 40/89 (44%), Gaps = 18/89 (20%)
Query: 6 IIDYRP-DSGRYDLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQPPKIS 64
I+ RP D G Y+ ++ +E+D K E H T++V P IS
Sbjct: 69 ILALRPSDEGTYECVV--LKYEKDAFKRE------------HLAEVTLSVKADFPTPSIS 114
Query: 65 PGANPVATEGRAIELVCSTSGGSPDPQIS 93
P + R ++CSTSGG P+P +S
Sbjct: 115 DFEIPTSNIRR---IICSTSGGFPEPHLS 140
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 48/96 (50%), Gaps = 10/96 (10%)
Query: 3 KVEIIDYRPDSGRYDLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQPPK 62
+ E+I++ +G L I +RD +EC A S ++++ ++VL Q P
Sbjct: 52 RFEVIEFDDGAGSV-LRIQPLRVQRDEAIYEC--TATNSLGEINTSA-KLSVLEEDQLPS 107
Query: 63 ISPGAN-----PVATEGRAIELVCSTSGGSPDPQIS 93
P + V +GR ++C+ +GG+PDP+IS
Sbjct: 108 GFPTIDMGPQLKVVEKGRTATMLCA-AGGNPDPEIS 142
>pdb|2YD5|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Lar
pdb|2YD8|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Lar In Complex
With Sucrose Octasulphate
Length = 214
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 48/96 (50%), Gaps = 10/96 (10%)
Query: 3 KVEIIDYRPDSGRYDLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLT----PP 58
+ E+I++ +G L I +RD +EC A S ++++ ++VL PP
Sbjct: 51 RFEVIEFDDGAGSV-LRIQPLRVQRDEAIYEC--TATNSLGEINTSA-KLSVLEEEQLPP 106
Query: 59 QPPKISPGAN-PVATEGRAIELVCSTSGGSPDPQIS 93
P I G V + R ++C+ +GG+PDP+IS
Sbjct: 107 GFPSIDMGPQLKVVEKARTATMLCA-AGGNPDPEIS 141
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 28 DNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQPPKISPGANPVATEGRAIELVCSTSGGS 87
D G + C + G+ ++ + V V PP N A G+++ LVC + G
Sbjct: 166 DEGTYRCEGRILARGE-INFKDIQVIVNVPPTVQARQSIVNATANLGQSVTLVCD-ADGF 223
Query: 88 PDPQISVT 95
P+P +S T
Sbjct: 224 PEPTMSWT 231
>pdb|1E07|A Chain A, Model Of Human Carcinoembryonic Antigen By Homology
Modelling And Curve-Fitting To Experimental Solution
Scattering Data
Length = 642
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 4/66 (6%)
Query: 17 DLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLT-PPQPPKISPGANPVATEGR 75
+L I N + ++G + C+ + +G + + V T+TV PP+P S +NPV E
Sbjct: 249 ELFIPNITV-NNSGSYTCQAHNSDTGLN-RTTVTTITVYAEPPKPFITSNNSNPVEDED- 305
Query: 76 AIELVC 81
A+ L C
Sbjct: 306 AVALTC 311
>pdb|2E6P|A Chain A, Solution Structure Of The Ig-Like Domain (714-804) From
Human Obscurin-Like Protein 1
Length = 104
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 1 MDKVEIIDYRPDSGRYDLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQP 60
+++ E++ + D ++ LI+ A + D+G+FECR + S + VTV P P
Sbjct: 50 VEESELLVVKMDGRKHRLILPEAKVQ-DSGEFECRTEGV-------SAFFGVTVQDPSGP 101
>pdb|4F8T|A Chain A, Crystal Structure Of The Human Btn3a3 Ectodomain
Length = 226
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 28/81 (34%), Gaps = 23/81 (28%)
Query: 12 DSGRYDLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQPPKISPGANPVA 71
DSG+Y + F K LK A G DLH +V
Sbjct: 94 DSGKYLCYFQDGDFYE---KALVELKVAALGSDLHIEVK--------------------G 130
Query: 72 TEGRAIELVCSTSGGSPDPQI 92
E I L C ++G P PQI
Sbjct: 131 YEDGGIHLECRSTGWYPQPQI 151
>pdb|4I0K|A Chain A, Crystal Structure Of Murine B7-H3 Extracellular Domain
Length = 222
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 10/81 (12%)
Query: 18 LIISNASFE------RDNGKFECRLKAAGSGQDLHSQVYTVTVLTPPQPPKISPGANPVA 71
L+ NAS D G + C + S QD S ++ V P P ++ N
Sbjct: 67 LVQGNASLRLQRVRVTDEGSYTCFV----SIQDFDSAAVSLQVAAPYSKPSMTLEPNKDL 122
Query: 72 TEGRAIELVCSTSGGSPDPQI 92
G + + CS+ G P+ ++
Sbjct: 123 RPGNMVTITCSSYQGYPEAEV 143
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 41/99 (41%), Gaps = 16/99 (16%)
Query: 3 KVEIIDYRPDSGRYDLIISNASFERDNGKFECRLKAAGSGQDLHSQVYTVTVLT------ 56
+ E I++ +G L I RD +EC Q+ H +V LT
Sbjct: 51 RFETIEFDESAGAV-LRIQPLRTPRDENIYEC------VAQNPHGEVTVHAKLTVLREDQ 103
Query: 57 -PPQPPKISPGAN-PVATEGRAIELVCSTSGGSPDPQIS 93
PP P I G V R ++C+ SG +PDP+I+
Sbjct: 104 LPPGFPNIDMGPQLKVVERTRTATMLCAASG-NPDPEIT 141
>pdb|1X1F|A Chain A, Solution Structure Of The Ph Domain Of Human Docking
Protein Brdg1
Length = 149
Score = 25.4 bits (54), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 16/75 (21%)
Query: 1 MDKVEIIDYRPDSGRYDLIISNASFERDNGKF-------ECRLKAAG--SGQDLHSQVYT 51
+DK++I+D + S E++ KF E +LK SG++ + T
Sbjct: 58 VDKLDIVDL-------TCLTEQNSTEKNCAKFTLVLPKEEVQLKTENTESGEEWRGFILT 110
Query: 52 VTVLTPPQPPKISPG 66
VT L+ PQ + PG
Sbjct: 111 VTELSVPQNVSLLPG 125
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
0.313 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,312,203
Number of Sequences: 62578
Number of extensions: 125852
Number of successful extensions: 234
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 227
Number of HSP's gapped (non-prelim): 16
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)