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= psy15070
(308 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2E31|A Chain A, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
pdb|2E32|A Chain A, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
pdb|2E32|C Chain C, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
Length = 297
Score = 124 bits (312), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 79/265 (29%), Positives = 130/265 (49%), Gaps = 34/265 (12%)
Query: 28 ILVHMEIRTLL-ASRRVCKKWKSLIETQVLKERAILEGFTRGLTNEDKMNVE---WTTWY 83
+L + L+ A R VC +WK L++ L +L+ GL E + E W +Y
Sbjct: 62 VLAELPATELVQACRLVCLRWKELVDGAPL---WLLKCQQEGLVPEGSADEERDHWQQFY 118
Query: 84 LMLSPNSLFNRNLVKNPCGQDKFNSWEILNNGGNGWKVETPPFGLSQEAQPLPDDTIPSY 143
+ S RNL++NPCG++ W + +GG+GWKVE LP D +
Sbjct: 119 FL----SKRRRNLLRNPCGEEDLEGWSDVEHGGDGWKVEE-----------LPGDNGVEF 163
Query: 144 WTKITKDSKKATSSTNTESCFVTSYGRCSKQQWIDLGKRKTMLDVIERLNPAIVYSEWFC 203
T + + F +S+ C K Q IDL ++++ PAIV +W+
Sbjct: 164 -----------TQDDSVKKYFASSFEWCRKAQVIDLQAEGYWEELLDTTQPAIVVKDWYS 212
Query: 204 RRFDCGGRYDLRVALLNEAKKLLA-YHIHHTDIGENFKWQKVENKFENYPSGVRYILFIH 262
R D G Y+L V LL+E + +LA + + E+ W ++ + F +Y GVR++ F H
Sbjct: 213 GRTDAGSLYELTVRLLSENEDVLAEFATGQVAVPEDGSWMEISHTFIDYGPGVRFVRFEH 272
Query: 263 EGVDSQFWQGHYGPKMTRATVFLIP 287
G DS +W+G +G ++T ++V++ P
Sbjct: 273 GGQDSVYWKGWFGARVTNSSVWVEP 297
>pdb|2E33|A Chain A, Structural Basis For Selection Of Glycosylated Substrate
By Scffbs1 Ubiquitin Ligase
Length = 197
Score = 114 bits (285), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 65/220 (29%), Positives = 110/220 (50%), Gaps = 27/220 (12%)
Query: 69 LTNEDKMNVEWTTWYLMLSPNSLFNRNLVKNPCGQDKFNSWEILNNGGNGWKVETPPFGL 128
+ + D+ W +Y + S RNL++NPCG++ W + +GG+GWKVE P
Sbjct: 4 MGSADEERDHWQQFYFL----SKRRRNLLRNPCGEEDLEGWSDVEHGGDGWKVEELP--G 57
Query: 129 SQEAQPLPDDTIPSYWTKITKDSKKATSSTNTESCFVTSYGRCSKQQWIDLGKRKTMLDV 188
+ DD++ Y F +S+ C K Q IDL ++
Sbjct: 58 DNGVEFTQDDSVKKY--------------------FASSFEWCRKAQVIDLQAEGYWEEL 97
Query: 189 IERLNPAIVYSEWFCRRFDCGGRYDLRVALLNEAKKLLA-YHIHHTDIGENFKWQKVENK 247
++ PAIV +W+ R D G Y+L V LL+E + +LA + + E+ W ++ +
Sbjct: 98 LDTTQPAIVVKDWYSGRTDAGSLYELTVRLLSENEDVLAEFATGQVAVPEDGSWMEISHT 157
Query: 248 FENYPSGVRYILFIHEGVDSQFWQGHYGPKMTRATVFLIP 287
F +Y GVR++ F H G DS +W+G +G ++T ++V++ P
Sbjct: 158 FIDYGPGVRFVRFEHGGQDSVYWKGWFGARVTNSSVWVEP 197
>pdb|1UMH|A Chain A, Structural Basis Of Sugar-Recognizing Ubiquitin Ligase
Length = 184
Score = 113 bits (282), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 61/195 (31%), Positives = 101/195 (51%), Gaps = 23/195 (11%)
Query: 94 RNLVKNPCGQDKFNSWEILNNGGNGWKVETPPFGLSQEAQPLPDDTIPSYWTKITKDSKK 153
RNL++NPCG++ W + +GG+GWKVE P + DD++ Y
Sbjct: 12 RNLLRNPCGEEDLEGWSDVEHGGDGWKVEELP--GDNGVEFTQDDSVKKY---------- 59
Query: 154 ATSSTNTESCFVTSYGRCSKQQWIDLGKRKTMLDVIERLNPAIVYSEWFCRRFDCGGRYD 213
F +S+ C K Q IDL ++++ PAIV +W+ R D G Y+
Sbjct: 60 ----------FASSFEWCRKAQVIDLQAEGYWEELLDTTQPAIVVKDWYSGRTDAGSLYE 109
Query: 214 LRVALLNEAKKLLA-YHIHHTDIGENFKWQKVENKFENYPSGVRYILFIHEGVDSQFWQG 272
L V LL+E + +LA + + E+ W ++ + F +Y GVR++ F H G DS +W+G
Sbjct: 110 LTVRLLSENEDVLAEFATGQVAVPEDGSWMEISHTFIDYGPGVRFVRFEHGGQDSVYWKG 169
Query: 273 HYGPKMTRATVFLIP 287
+G ++T ++V++ P
Sbjct: 170 WFGARVTNSSVWVEP 184
>pdb|2RJ2|A Chain A, Crystal Structure Of The Sugar Recognizing Scf Ubiquitin
Ligase At 1.7 Resolution
Length = 185
Score = 113 bits (282), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 61/195 (31%), Positives = 101/195 (51%), Gaps = 23/195 (11%)
Query: 94 RNLVKNPCGQDKFNSWEILNNGGNGWKVETPPFGLSQEAQPLPDDTIPSYWTKITKDSKK 153
RNL++NPCG++ W + +GG+GWKVE P + DD++ Y
Sbjct: 13 RNLLRNPCGEEDLEGWSDVEHGGDGWKVEELP--GDGNVEFTQDDSVKKY---------- 60
Query: 154 ATSSTNTESCFVTSYGRCSKQQWIDLGKRKTMLDVIERLNPAIVYSEWFCRRFDCGGRYD 213
F +S+ C K Q IDL ++++ PAIV +W+ R D G Y+
Sbjct: 61 ----------FASSFEWCRKAQVIDLQAEGYWEELLDTTQPAIVVKDWYSGRTDAGSLYE 110
Query: 214 LRVALLNEAKKLLA-YHIHHTDIGENFKWQKVENKFENYPSGVRYILFIHEGVDSQFWQG 272
L V LL+E + +LA + + E+ W ++ + F +Y GVR++ F H G DS +W+G
Sbjct: 111 LTVRLLSENEDVLAEFATGQVAVPEDGSWMEISHTFIDYGPGVRFVRFEHGGQDSVYWKG 170
Query: 273 HYGPKMTRATVFLIP 287
+G ++T ++V++ P
Sbjct: 171 WFGARVTNSSVWVEP 185
>pdb|1UMI|A Chain A, Structural Basis Of Sugar-Recognizing Ubiquitin Ligase
Length = 184
Score = 110 bits (274), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 60/195 (30%), Positives = 100/195 (51%), Gaps = 23/195 (11%)
Query: 94 RNLVKNPCGQDKFNSWEILNNGGNGWKVETPPFGLSQEAQPLPDDTIPSYWTKITKDSKK 153
RNL++NP G++ W + +GG+GWKVE P + DD++ Y
Sbjct: 12 RNLLRNPAGEEDLEGWSDVEHGGDGWKVEELP--GDNGVEFTQDDSVKKY---------- 59
Query: 154 ATSSTNTESCFVTSYGRCSKQQWIDLGKRKTMLDVIERLNPAIVYSEWFCRRFDCGGRYD 213
F +S+ C K Q IDL ++++ PAIV +W+ R D G Y+
Sbjct: 60 ----------FASSFEWCRKAQVIDLQAEGYWEELLDTTQPAIVVKDWYSGRTDAGSLYE 109
Query: 214 LRVALLNEAKKLLA-YHIHHTDIGENFKWQKVENKFENYPSGVRYILFIHEGVDSQFWQG 272
L V LL+E + +LA + + E+ W ++ + F +Y GVR++ F H G DS +W+G
Sbjct: 110 LTVRLLSENEDVLAEFATGQVAVPEDGSWMEISHTFIDYGPGVRFVRFEHGGQDSVYWKG 169
Query: 273 HYGPKMTRATVFLIP 287
+G ++T ++V++ P
Sbjct: 170 WFGARVTNSSVWVEP 184
>pdb|2VC9|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With 2-Acetamido-1,2-Dideoxynojirmycin
pdb|2VCA|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Beta-N-Acetyl-D-Glucosamine
pdb|2VCB|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
In Complex With Pugnac
pdb|2VCC|A Chain A, Family 89 Glycoside Hydrolase From Clostridium Perfringens
Length = 891
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 207 DCGGRYDL-RVALLNEAKKLLAYHIHHTDIGENF 239
D GG Y+L ++ + N+ + + Y+I+ ++ GENF
Sbjct: 45 DLGGIYELSKIEIFNKDEAVYKYNIYASEDGENF 78
>pdb|4A4A|A Chain A, Cpgh89 (E483q, E601q), From Clostridium Perfringens, In
Complex With Its Substrate Glcnac-Alpha-1,4-Galactose
Length = 914
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 207 DCGGRYDL-RVALLNEAKKLLAYHIHHTDIGENF 239
D GG Y+L ++ + N+ + + Y+I+ ++ GENF
Sbjct: 68 DLGGIYELSKIEIFNKDEAVYKYNIYASEDGENF 101
>pdb|3OQQ|A Chain A, Crystal Structure Of A Putative Lipoprotein
(Bacova_00967) From Bacteroides Ovatus At 2.08 A
Resolution
Length = 435
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 38/88 (43%), Gaps = 11/88 (12%)
Query: 1 NNSLGEIDPFNGSKLNGVYFPDEVLEVILVHMEI-----RTL-----LASRRVCKKWKSL 50
N+ G +DP N S L VY E L+ ++ RTL A +V K+ ++
Sbjct: 8 NDGSGTVDPVNASTLVNVYSDKSGSEASLLVGDVLVKDSRTLTLNVPAACEKVYXKYNTV 67
Query: 51 IETQVLKERAILEGFTRGLTNEDKMNVE 78
T+ KE A L +RG+ N E
Sbjct: 68 SGTEATKEFA-LSPVSRGVDQSTGFNFE 94
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
0.319 0.136 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,559,610
Number of Sequences: 62578
Number of extensions: 460080
Number of successful extensions: 1014
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 991
Number of HSP's gapped (non-prelim): 16
length of query: 308
length of database: 14,973,337
effective HSP length: 99
effective length of query: 209
effective length of database: 8,778,115
effective search space: 1834626035
effective search space used: 1834626035
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)