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= psy16887
(160 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SHW|A Chain A, Crystal Structure Of Zo-1 Pdz3-Sh3-Guk Supramodule Complex
With Connexin-45 Peptide
Length = 468
Score = 64.7 bits (156), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/50 (56%), Positives = 38/50 (76%), Gaps = 2/50 (4%)
Query: 13 SKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPD--KFSAPHPR 60
+KFPAYERV LR GF+RPV +FGP+AD+AR+KL ++ PD + + PR
Sbjct: 208 TKFPAYERVVLREAGFLRPVTIFGPIADVAREKLAREEPDIYQIAKSEPR 257
>pdb|3LH5|A Chain A, Crystal Structure Of The Sh3-Guanylate Kinase Core Domain
Of Zo-1
Length = 251
Score = 64.3 bits (155), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 26/43 (60%), Positives = 35/43 (81%)
Query: 13 SKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFS 55
+KFPAYERV LR GF+RPV +FGP+AD+AR+KL ++ PD +
Sbjct: 76 TKFPAYERVVLREAGFLRPVTIFGPIADVAREKLAREEPDIYQ 118
>pdb|3TSW|A Chain A, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSW|C Chain C, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSW|D Chain D, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
Zo-1
pdb|3TSZ|A Chain A, Crystal Structure Of Pdz3-Sh3-Guk Core Module From Human
Zo-1 In Complex With 12mer Peptide From Human Jam-A
Cytoplasmic Tail
Length = 391
Score = 64.3 bits (155), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 28/50 (56%), Positives = 38/50 (76%), Gaps = 2/50 (4%)
Query: 13 SKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPD--KFSAPHPR 60
+KFPAYERV LR GF+RPV +FGP+AD+AR+KL ++ PD + + PR
Sbjct: 216 TKFPAYERVVLREAGFLRPVTIFGPIADVAREKLAREEPDIYQIAKSEPR 265
>pdb|3KFV|A Chain A, Crystal Structure Of The Sh3-Kinase Fragment Of Tight
Junction Protein 3 (Tjp3) In Apo-Form
Length = 308
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 23/41 (56%), Positives = 29/41 (70%)
Query: 14 KFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKF 54
++P YERV LR F RPVV+ GPVAD+A KL + PD+F
Sbjct: 130 RYPPYERVVLREASFKRPVVILGPVADIAXQKLTAEXPDQF 170
>pdb|2XKX|A Chain A, Single Particle Analysis Of Psd-95 In Negative Stain
pdb|2XKX|B Chain B, Single Particle Analysis Of Psd-95 In Negative Stain
Length = 721
Score = 47.0 bits (110), Expect = 5e-06, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 17 AYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSA--PHPRRRNQE 65
+YE V+ + RP+++ GP D A D LL +FPDKF + PH R +E
Sbjct: 519 SYETVTQMEVHYARPIIILGPTKDRANDDLLSEFPDKFGSCVPHTTRPKRE 569
>pdb|1KJW|A Chain A, Sh3-Guanylate Kinase Module From Psd-95
Length = 295
Score = 46.2 bits (108), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 45/91 (49%), Gaps = 9/91 (9%)
Query: 17 AYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSA--PH---PRRRNQEKFRWSS 71
+YE V+ + RP+++ GP D A D LL +FPDKF + PH P+R + R
Sbjct: 93 SYETVTQMEVHYARPIIILGPTKDRANDDLLSEFPDKFGSCVPHTTRPKREYEIDGRDYH 152
Query: 72 FFNSLTK----VSATCLTSYGFYVDLLFGSN 98
F +S K + A G Y L+G++
Sbjct: 153 FVSSREKMEKDIQAHKFIEAGQYNSHLYGTS 183
>pdb|1JXM|A Chain A, Crystal Structure Of The Gmp Bound Sh3-Hook-Gk Fragment Of
Psd-95
pdb|1JXO|A Chain A, Crystal Structure Of The Sh3-Hook-Gk Fragment Of Psd-95
pdb|1JXO|B Chain B, Crystal Structure Of The Sh3-Hook-Gk Fragment Of Psd-95
Length = 301
Score = 46.2 bits (108), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 45/91 (49%), Gaps = 9/91 (9%)
Query: 17 AYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSA--PH---PRRRNQEKFRWSS 71
+YE V+ + RP+++ GP D A D LL +FPDKF + PH P+R + R
Sbjct: 99 SYETVTQMEVHYARPIIILGPTKDRANDDLLSEFPDKFGSCVPHTTRPKREYEIDGRDYH 158
Query: 72 FFNSLTK----VSATCLTSYGFYVDLLFGSN 98
F +S K + A G Y L+G++
Sbjct: 159 FVSSREKMEKDIQAHKFIEAGQYNSHLYGTS 189
>pdb|3UAT|A Chain A, Guanylate Kinase Domains Of The Maguk Family Scaffold
Proteins As Specific Phospho-Protein Binding Modules
Length = 296
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 13 SKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSA--PHPRR 61
SK +YE V+ + + RPV++ GP+ D D L+ +FPDKF + PH R
Sbjct: 90 SKVLSYEPVNQQEVNYTRPVIILGPMKDRVNDDLISEFPDKFGSCVPHTTR 140
>pdb|3TVT|A Chain A, Structural Basis For Discs Large Interaction With Pins
Length = 292
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 50/98 (51%), Gaps = 12/98 (12%)
Query: 10 DSISKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSA--PH---PRRRNQ 64
+++ + A +R+S+ + RPV++ GP+ D D L+ ++PDKF + PH P+R +
Sbjct: 84 ENVLSYEAVQRLSI---NYTRPVIILGPLKDRINDDLISEYPDKFGSCVPHTTRPKREYE 140
Query: 65 EKFRWSSFFNSLTK----VSATCLTSYGFYVDLLFGSN 98
R F +S + + G Y D L+G++
Sbjct: 141 VDGRDYHFVSSREQMERDIQNHLFIEAGQYNDNLYGTS 178
>pdb|3I99|A Chain A, The Crystal Structure Of The
Udp-N-Acetylenolpyruvoylglucosamine Reductase From The
Vibrio Cholerae O1 Biovar Tor
Length = 357
Score = 28.5 bits (62), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 4 DDVVFG--DSISKFPAYER-----VSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSA 56
++ FG DSI K Y++ V L+ +P++ +GP+ DL+ D + D + A
Sbjct: 166 EECQFGYRDSIFKHQLYQKAVVTAVGLKFAKAWQPIIQYGPLKDLSSDCAIHDVYQRVCA 225
Query: 57 PHPRR 61
+
Sbjct: 226 TRXEK 230
>pdb|1KSA|A Chain A, Crystal Structure Of The Bacteriochlorophyll A Protein
From Chlorobium Tepidum
pdb|1KSA|B Chain B, Crystal Structure Of The Bacteriochlorophyll A Protein
From Chlorobium Tepidum
pdb|3BSD|A Chain A, Light Harvesting Protein From Rc Of Chlorobium Tepidum
Length = 366
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 9 GDSISKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSAPHPRRRNQEKFR 68
G + + + + L H G + F A L + L K + +++AP R +N E++R
Sbjct: 281 GGGLRRILNHPLIPLVHHGMVGKFNNFNVDAQL-KVVLPKGYKIRYAAPQYRSQNLEEYR 339
Query: 69 WSS 71
WS
Sbjct: 340 WSG 342
>pdb|3ENI|A Chain A, Crystal Structure Of The Fenna-Matthews-Olson Protein From
Chlorobaculum Tepidum
pdb|3ENI|C Chain C, Crystal Structure Of The Fenna-Matthews-Olson Protein From
Chlorobaculum Tepidum
Length = 365
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 9 GDSISKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDFPDKFSAPHPRRRNQEKFR 68
G + + + + L H G + F A L + L K + +++AP R +N E++R
Sbjct: 280 GGGLRRILNHPLIPLVHHGMVGKFNNFNVDAQL-KVVLPKGYKIRYAAPQYRSQNLEEYR 338
Query: 69 WSS 71
WS
Sbjct: 339 WSG 341
>pdb|3BQH|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Oxidized Form)
Length = 193
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 8 FGDSISKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDF 50
+ + +K P+YE VS RH G V + L+ D +L+ F
Sbjct: 32 YANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLSLDDILQYF 74
>pdb|3BQE|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Reduced Form)
Length = 194
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 8 FGDSISKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDF 50
+ + +K P+YE VS RH G V + L+ D +L+ F
Sbjct: 33 YANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLSLDDILQYF 75
>pdb|3BQF|A Chain A, Structure Of The Central Domain (Msra) Of Neisseria
Meningitidis Pilb (Complex With A Substrate)
Length = 194
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 8 FGDSISKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDF 50
+ + +K P+YE VS RH G V + L+ D +L+ F
Sbjct: 33 YANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLSLDDILQYF 75
>pdb|3BQG|A Chain A, Structure Of The Central Domain (msra) Of Neisseria
Meningitidis Pilb (sulfenic Acid Form)
Length = 194
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 8 FGDSISKFPAYERVSLRHPGFIRPVVLFGPVADLARDKLLKDF 50
+ + +K P+YE VS RH G V + L+ D +L+ F
Sbjct: 33 YANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLSLDDILQYF 75
>pdb|2VZ8|A Chain A, Crystal Structure Of Mammalian Fatty Acid Synthase
pdb|2VZ8|B Chain B, Crystal Structure Of Mammalian Fatty Acid Synthase
pdb|2VZ9|A Chain A, Crystal Structure Of Mammalian Fatty Acid Synthase In
Complex With Nadp
pdb|2VZ9|B Chain B, Crystal Structure Of Mammalian Fatty Acid Synthase In
Complex With Nadp
Length = 2512
Score = 26.9 bits (58), Expect = 4.9, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 23/52 (44%)
Query: 60 RRRNQEKFRWSSFFNSLTKVSATCLTSYGFYVDLLFGSNRSDDLDSNPRVYT 111
R R Q W SF +++ +S G Y+ F S R D + ++YT
Sbjct: 1019 RGRLQWNDSWVSFLDAMLHMSILAPGQLGLYLPTRFTSIRIDPVTHRQKLYT 1070
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 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,346,353
Number of Sequences: 62578
Number of extensions: 216233
Number of successful extensions: 412
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 396
Number of HSP's gapped (non-prelim): 17
length of query: 160
length of database: 14,973,337
effective HSP length: 91
effective length of query: 69
effective length of database: 9,278,739
effective search space: 640232991
effective search space used: 640232991
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)