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= psy17120
(137 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WUH|A Chain A, Crystal Structure Of The Ddr2 Discoidin Domain Bound To A
Triple-Helical Collagen Peptide
Length = 178
Score = 65.5 bits (158), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 64/137 (46%), Gaps = 27/137 (19%)
Query: 2 CGGALGLENGVIPDKDIXXXXXXXXXXVGPQFGSSYIFQISCIKRHNLIESLFLIHSRLR 61
C LG+ G IPD+DI ES + RL
Sbjct: 18 CRYPLGMSGGQIPDEDI-------------------------TASSQWSESTAAKYGRLD 52
Query: 62 HDKNGGAWCPKHMV-GNDGHEYIEVNLHDLHIVTGVQLQGRFGNGLGQEYAEEIVVDFWR 120
++ GAWCP+ V +D E+++++LH LH +T V QGR G G E+A +++ R
Sbjct: 53 SEEGDGAWCPEIPVEPDDLKEFLQIDLHTLHFITLVGTQGRHAGGHGIEFAPMYKINYSR 112
Query: 121 PGFTKWRRWKGRNGKEV 137
G T+W W+ R+GK+V
Sbjct: 113 DG-TRWISWRNRHGKQV 128
>pdb|2Z4F|A Chain A, Solution Structure Of The Discoidin Domain Of Ddr2
Length = 173
Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 64/137 (46%), Gaps = 27/137 (19%)
Query: 2 CGGALGLENGVIPDKDIXXXXXXXXXXVGPQFGSSYIFQISCIKRHNLIESLFLIHSRLR 61
C LG+ G IPD+DI ES + RL
Sbjct: 9 CRYPLGMSGGQIPDEDI-------------------------TASSQWSESTAAKYGRLD 43
Query: 62 HDKNGGAWCPKHMV-GNDGHEYIEVNLHDLHIVTGVQLQGRFGNGLGQEYAEEIVVDFWR 120
++ GAWCP+ V +D E+++++LH LH +T V QGR G G E+A +++ R
Sbjct: 44 SEEGDGAWCPEIPVEPDDLKEFLQIDLHTLHFITLVGTQGRHAGGHGIEFAPMYKINYSR 103
Query: 121 PGFTKWRRWKGRNGKEV 137
G T+W W+ R+GK+V
Sbjct: 104 DG-TRWISWRNRHGKQV 119
>pdb|4AG4|A Chain A, Crystal Structure Of A Ddr1-Fab Complex
Length = 351
Score = 55.8 bits (133), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 41/136 (30%), Positives = 57/136 (41%), Gaps = 26/136 (19%)
Query: 2 CGGALGLENGVIPDKDIXXXXXXXXXXVGPQFGSSYIFQISCIKRHNLIESLFLIHSRLR 61
C ALG+++ IP + +S HSRL
Sbjct: 6 CRYALGMQDRTIP-------------------------DSDISASSSWSDSTAARHSRLE 40
Query: 62 HDKNGGAWCPKHMVGNDGHEYIEVNLHDLHIVTGVQLQGRFGNGLGQEYAEEIVVDFWRP 121
GAWCP V EY++V+L LH+V V QGR GLG+E++ + + R
Sbjct: 41 SSDGDGAWCPAGSVFPKEEEYLQVDLQRLHLVALVGTQGRHAGGLGKEFSRSYRLRYSRD 100
Query: 122 GFTKWRRWKGRNGKEV 137
G +W WK R G+EV
Sbjct: 101 G-RRWMGWKDRWGQEV 115
>pdb|3S88|H Chain H, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Gulu) Bound To 16f6
Length = 220
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 44 IKRHNLIESLFLIHSRLRHDKNGGAWCPKHMVGNDGHEY 82
I R N ++LFL S LR + +C + + GN +Y
Sbjct: 70 ISRDNAKKTLFLQMSSLRSEDTAMYYCARQLYGNSFFDY 108
>pdb|3VE0|A Chain A, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Boniface) Bound To 16f6
Length = 220
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 44 IKRHNLIESLFLIHSRLRHDKNGGAWCPKHMVGNDGHEY 82
I R N ++LFL S LR + +C + + GN +Y
Sbjct: 70 ISRDNAKKTLFLQMSSLRSEDTAMYYCARQLYGNSFFDY 108
>pdb|4FP8|H Chain H, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|I Chain I, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|J Chain J, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|K Chain K, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FQR|AA Chain a, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|CC Chain c, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|EE Chain e, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|GG Chain g, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|II Chain i, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|KK Chain k, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|MM Chain m, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|OO Chain o, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|QQ Chain q, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|SS Chain s, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|UU Chain u, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|WW Chain w, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
Length = 241
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 44 IKRHNLIESLFLIHSRLRHDKNGGAWCPKHM 74
I R N E+L+L + LR + G +C KHM
Sbjct: 75 ISRDNSKETLYLQMTNLRVEDTGVYYCAKHM 105
>pdb|4FNL|H Chain H, Crystal Structure Of Broadly Neutralizing Antibody C05
pdb|4FNL|I Chain I, Crystal Structure Of Broadly Neutralizing Antibody C05
Length = 247
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 44 IKRHNLIESLFLIHSRLRHDKNGGAWCPKHM 74
I R N E+L+L + LR + G +C KHM
Sbjct: 75 ISRDNSKETLYLQMTNLRVEDTGVYYCAKHM 105
>pdb|2H07|A Chain A, Crystal Structure Of Human Phosphoribosyl Pyrophosphate
Synthetase 1 Mutant S132a
pdb|2H07|B Chain B, Crystal Structure Of Human Phosphoribosyl Pyrophosphate
Synthetase 1 Mutant S132a
Length = 326
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 48/115 (41%), Gaps = 29/115 (25%)
Query: 37 YIFQISCIK-RHNLIESLFLIH-------SRL----------RHDKNGGAWCP------K 72
YI Q C + NL+E L +I+ SR+ R DK + P
Sbjct: 54 YIVQSGCGEINDNLMELLIMINACKIASASRVTAVIPCFPYARQDKKDKSRAPISAKLVA 113
Query: 73 HMVGNDGHEYIEVNLHDLHIVTGVQLQGRFGNGLGQEYAEEIVVDFWRPGFTKWR 127
+M+ G ++I DLH Q+QG F + YAE V+ + R ++WR
Sbjct: 114 NMLSVAGADHIIT--MDLH---AAQIQGFFDIPVDNLYAEPAVLKWIRENISEWR 163
>pdb|2QQJ|A Chain A, Crystal Structure Of The B1b2 Domains From Human
Neuropilin-2
Length = 325
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 28/118 (23%), Positives = 43/118 (36%), Gaps = 28/118 (23%)
Query: 2 CGGALGLENGVIPDKDIXXXXXXXXXXVGPQFGSSYIFQISCIKRHNLIESLFLIHSRLR 61
C LG+ +G+I D I Y++ S + L+ SR
Sbjct: 164 CSNMLGMLSGLIADSQISASST-----------QEYLWSPSAAR---------LVSSR-- 201
Query: 62 HDKNGGAWCPKHMVGNDGHEYIEVNLHDLHIVTGVQLQG-RFGNGLGQEYAEEIVVDF 118
W P+ G E+++V+L V GV +QG R G+ + A V F
Sbjct: 202 -----SGWFPRIPQAQPGEEWLQVDLGTPKTVKGVIIQGARGGDSITAVEARAFVRKF 254
>pdb|2ZU2|A Chain A, Complex Structure Of Cov 229e 3cl Protease With Epdtc
pdb|2ZU2|B Chain B, Complex Structure Of Cov 229e 3cl Protease With Epdtc
Length = 302
Score = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 7/42 (16%)
Query: 69 WCPKHMVGNDG-------HEYIEVNLHDLHIVTGVQLQGRFG 103
+CP+H++ ++ HEY + LH+ I++G G G
Sbjct: 37 YCPRHVIASNTTSAIDYDHEYSIMRLHNFSIISGTAFLGVVG 78
>pdb|1P9S|A Chain A, Coronavirus Main Proteinase (3clpro) Structure: Basis For
Design Of Anti-Sars Drugs
pdb|1P9S|B Chain B, Coronavirus Main Proteinase (3clpro) Structure: Basis For
Design Of Anti-Sars Drugs
Length = 300
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 7/42 (16%)
Query: 69 WCPKHMVGNDG-------HEYIEVNLHDLHIVTGVQLQGRFG 103
+CP+H++ ++ HEY LH+ I++G G G
Sbjct: 37 YCPRHVIASNTTSAIDYDHEYSIXRLHNFSIISGTAFLGVVG 78
>pdb|1JMJ|A Chain A, Crystal Structure Of Native Heparin Cofactor Ii
pdb|1JMJ|B Chain B, Crystal Structure Of Native Heparin Cofactor Ii
Length = 480
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 45 KRHNLIESLFLIHSRLRHDKNG 66
K +NL+ESL L+ R+ DKNG
Sbjct: 382 KNYNLVESLKLMGIRMLFDKNG 403
>pdb|1JMO|A Chain A, Crystal Structure Of The Heparin Cofactor Ii-S195a
Thrombin Complex
Length = 480
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 45 KRHNLIESLFLIHSRLRHDKNG 66
K +NL+ESL L+ R+ DKNG
Sbjct: 382 KNYNLVESLKLMGIRMLFDKNG 403
>pdb|2L9L|A Chain A, Nmr Structure Of The Mouse Mfg-e8 C2 Domain
Length = 170
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 38/100 (38%), Gaps = 24/100 (24%)
Query: 2 CGGALGLENGVIPDKDIXXXXXXXXXXVGPQFGSSYIFQISCIKRHNLIESLFLIH-SRL 60
C LGL+N IPD + SSY K NL + H RL
Sbjct: 7 CSEPLGLKNNTIPDSQMSA-------------SSSY-------KTWNLRAFGWYPHLGRL 46
Query: 61 RHDKNGGAWCPKHMVGNDGHEYIEVNLHDLHIVTGVQLQG 100
+ AW + N E+++V+L VTG+ QG
Sbjct: 47 DNQGKINAWTAQ---SNSAKEWLQVDLGTQRQVTGIITQG 83
>pdb|2QQO|A Chain A, Crystal Structure Of The A2b1b2 Domains From Human
Neuropilin-2
pdb|2QQO|B Chain B, Crystal Structure Of The A2b1b2 Domains From Human
Neuropilin-2
Length = 460
Score = 26.2 bits (56), Expect = 6.0, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 58 SRLRHDKNGGAWCPKHMVGNDGHEYIEVNLHDLHIVTGVQLQG-RFGNGLGQEYAEEIVV 116
+RL ++G W P+ G E+++V+L V GV +QG R G+ + A V
Sbjct: 324 ARLVSSRSG--WFPRIPQAQPGEEWLQVDLGTPKTVKGVIIQGARGGDSITAVEARAFVR 381
Query: 117 DF 118
F
Sbjct: 382 KF 383
>pdb|2QQK|A Chain A, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
pdb|2QQL|A Chain A, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
Length = 579
Score = 26.2 bits (56), Expect = 6.1, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 58 SRLRHDKNGGAWCPKHMVGNDGHEYIEVNLHDLHIVTGVQLQG-RFGNGLGQEYAEEIVV 116
+RL ++G W P+ G E+++V+L V GV +QG R G+ + A V
Sbjct: 443 ARLVSSRSG--WFPRIPQAQPGEEWLQVDLGTPKTVKGVIIQGARGGDSITAVEARAFVR 500
Query: 117 DF 118
F
Sbjct: 501 KF 502
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
0.323 0.145 0.482
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,691,837
Number of Sequences: 62578
Number of extensions: 186963
Number of successful extensions: 384
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 21
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)