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= 020041
(332 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OMX|A Chain A, Crystal Structure Of Mouse Alpha-1,4-N-
Acetylhexosaminyltransferase (Extl2)
pdb|1OMX|B Chain B, Crystal Structure Of Mouse Alpha-1,4-N-
Acetylhexosaminyltransferase (Extl2)
pdb|1OMZ|A Chain A, Crystal Structure Of Mouse Alpha-1,4-N-
Acetylhexosaminyltransferase (Extl2) In Complex With
Udpgalnac
pdb|1OMZ|B Chain B, Crystal Structure Of Mouse Alpha-1,4-N-
Acetylhexosaminyltransferase (Extl2) In Complex With
Udpgalnac
pdb|1ON6|A Chain A, Crystal Structure Of Mouse Alpha-1,4-N-
Acetylhexosaminotransferase (Extl2) In Complex With
Udpglcnac
pdb|1ON6|B Chain B, Crystal Structure Of Mouse Alpha-1,4-N-
Acetylhexosaminotransferase (Extl2) In Complex With
Udpglcnac
pdb|1ON8|A Chain A, Crystal Structure Of Mouse
Alpha-1,4-N-Acetylhexosaminyltransferase (Extl2) With
Udp And Glcuab(1-3)galb(1-O)-Naphthalenelmethanol An
Acceptor Substrate Analog
pdb|1ON8|B Chain B, Crystal Structure Of Mouse
Alpha-1,4-N-Acetylhexosaminyltransferase (Extl2) With
Udp And Glcuab(1-3)galb(1-O)-Naphthalenelmethanol An
Acceptor Substrate Analog
Length = 293
Score = 126 bits (316), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 85/266 (31%), Positives = 130/266 (48%), Gaps = 31/266 (11%)
Query: 66 SSSPGKGYAILMNTWKRYDLLKQSIAHYAKCPGLDSIHLVWS---EPDPPSDSLQIFLQH 122
S S + ++M T+ R DLL + + HY P L + +VW+ E P
Sbjct: 23 SKSALDSFTLIMQTYNRTDLLLRLLNHYQAVPSLHKVIVVWNNVGEKGPEE--------- 73
Query: 123 IIRKNSRNGRQVELKFDINTEDSLNNRFKEIKDLKADAVFSIDDDIIFPCHSVKFAFDVW 182
NS + + F T + + NR + +++ +AV +DDD + + FAF +W
Sbjct: 74 --LWNSLGPHPIPVIFKPQTANKMRNRLQVFPEVETNAVLMVDDDTLISAQDLVFAFSIW 131
Query: 183 RSAPDQMVGFVPRKVCVESKEGKDYYSYCGWWSVWWTG-----TYSMVLSKASFFHKKYL 237
+ PDQ++GFVPRK V + G YSY G + + G YSMVL ASFF+ KYL
Sbjct: 132 QQFPDQIIGFVPRK-HVSTSSG--IYSYGG-FELQTPGPGNGDQYSMVLIGASFFNSKYL 187
Query: 238 RLYTNEMPTSIKEFVTENRNCEDIAMSFLVANVTDAP------PIWVKGKIYEI-GSTGI 290
L+ + P ++ + E +NC+DIAM+FLV T P PI + E G +G+
Sbjct: 188 ELFQKQ-PAAVHALIDETQNCDDIAMNFLVTRHTGKPSGIFVKPINMVNLEKETNGYSGM 246
Query: 291 STLGGHSEKRTQCLNRFAAEFGRMPL 316
H +R+ C+N+ + MPL
Sbjct: 247 WHRAEHFLQRSYCINKLVNIYDGMPL 272
>pdb|1EAH|1 Chain 1, Pv2l Complexed With Antiviral Agent Sch48973
Length = 301
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 84 DLLKQSIAHYAKCPGLDSIHLVWSEPDPPSDSLQIFLQHIIRKNSRNGRQVELKF 138
D AH + P L ++ + P PSD++Q +H+I+K +R+ VE F
Sbjct: 29 DTQSSGPAHSKETPALTAVETGATNPLVPSDTVQT--RHVIQKRTRSESTVESFF 81
>pdb|3EPF|1 Chain 1, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 2
Length = 278
Score = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 84 DLLKQSIAHYAKCPGLDSIHLVWSEPDPPSDSLQIFLQHIIRKNSRNGRQVELKF 138
D AH + P L ++ + P PSD++Q +H+I+K +R+ VE F
Sbjct: 6 DTQSSGPAHSKETPALTAVETGATNPLVPSDTVQT--RHVIQKRTRSESTVESFF 58
>pdb|1VBC|1 Chain 1, Poliovirus (Type 3, Sabin Strain) (P3SABIN, P3LEON12A(1)
B) Complexed With R77975
pdb|1VBB|1 Chain 1, Poliovirus (type 3, Sabin Strain) (p3/sabin,
P3/leon/12a(1) B) Complexed With R80633
pdb|1VBA|1 Chain 1, Poliovirus (type 3, Sabin Strain) (p3/sabin,
P3/leon/12a(1) B) Complexed With R78206
Length = 300
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 91 AHYAKCPGLDSIHLVWSEPDPPSDSLQIFLQHIIRKNSRNGRQVELKF 138
AH + P L ++ + P PSD++Q +H++++ SR+ +E F
Sbjct: 34 AHSKEVPALTAVETGATNPLAPSDTVQT--RHVVQRRSRSESTIESFF 79
>pdb|3EPD|1 Chain 1, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 3
Length = 279
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 84 DLLKQSIAHYAKCPGLDSIHLVWSEPDPPSDSLQIFLQHIIRKNSRNGRQVELKF 138
D AH + P L ++ + P PSD++Q +H++++ SR+ +E F
Sbjct: 6 DTKASGPAHSKEVPALTAVETGATNPLAPSDTVQT--RHVVQRRSRSESTIESFF 58
>pdb|1PIV|1 Chain 1, Binding Of The Antiviral Drug Win51711 To The Sabin Strain
Of Type 3 Poliovirus: Structural Comparison With Drug
Binding In Rhinovirus 14
pdb|1PVC|1 Chain 1, Refinement Of The Sabin Strain Of Type 3 Poliovirus At 2.4
Angstroms And The Crystal Structures Of Its Variants At
2.9 Angstroms Resolution
Length = 301
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 91 AHYAKCPGLDSIHLVWSEPDPPSDSLQIFLQHIIRKNSRNGRQVELKF 138
AH + P L ++ + P PSD++Q +H++++ SR+ +E F
Sbjct: 35 AHSKEVPALTAVETGATNPLAPSDTVQT--RHVVQRRSRSESTIESFF 80
>pdb|1VBE|1 Chain 1, Poliovirus (Type 3, Sabin Strain, Mutant 242-H2) Complexed
With R78206
Length = 300
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 91 AHYAKCPGLDSIHLVWSEPDPPSDSLQIFLQHIIRKNSRNGRQVELKF 138
AH + P L ++ + P PSD++Q +H++++ SR+ +E F
Sbjct: 34 AHSKEVPALTAVETGATNPLAPSDTVQT--RHVVQRRSRSESTIESFF 79
>pdb|3H7V|A Chain A, Crystal Structure Of O-Succinylbenzoate Synthase From
Thermosynechococcus Elongatus Bp-1 Complexed With Mg In
The Active Site
Length = 330
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 171 PCHSVKFAFDVWRSAP 186
PCH++ F D WRSAP
Sbjct: 290 PCHALGFGVDRWRSAP 305
>pdb|2OZT|A Chain A, Crystal Structure Of O-Succinylbenzoate Synthase From
Thermosynechococcus Elongatus Bp-1
Length = 332
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 171 PCHSVKFAFDVWRSAP 186
PCH++ F D WRSAP
Sbjct: 292 PCHALGFGVDRWRSAP 307
>pdb|2B91|A Chain A, Crystal Structure Of The Interleukin-4 Variant F82dr85a
Length = 129
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 1/70 (1%)
Query: 261 IAMSFLVANVTDAPPIWVKGKIYEIGSTGISTLGGHSEKRTQCLNRFAAEFGRMPLVPTS 320
+ V ++ A + + + +T + H EK T+CL A +F R +
Sbjct: 23 LCTELTVTDIFAASKNTTEKETFCRAATVLRQFYSHHEKDTRCLGATAQQFHRHKQLIRD 82
Query: 321 MKAVDSRRMW 330
+KA+D R +W
Sbjct: 83 LKALD-RNLW 91
>pdb|2R0K|H Chain H, Protease Domain Of Hgfa With Inhibitor Fab58
Length = 225
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 134 VELKFDINTEDSLNNRFKEIKDLKADAVFSIDDDIIFPCHSVKFAFDVW 182
V+ +F I+ + S N + ++ L+A+ D + + S +F+FD W
Sbjct: 64 VKGRFTISADTSKNTAYLQMNSLRAE-----DTAVYYCARSARFSFDYW 107
>pdb|3S34|H Chain H, Structure Of The 1121b Fab Fragment
pdb|3S36|H Chain H, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
pdb|3S37|H Chain H, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 221
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 28/49 (57%), Gaps = 6/49 (12%)
Query: 134 VELKFDINTEDSLNNRFKEIKDLKADAVFSIDDDIIFPCHSVKFAFDVW 182
V+ +F I+ +++ N+ + ++ L+A+ D ++ C V AFD+W
Sbjct: 64 VKGRFTISRDNAKNSLYLQMNSLRAE------DTAVYYCARVTDAFDIW 106
>pdb|3HZ3|A Chain A, Lactobacillus Reuteri N-Terminally Truncated Glucansucrase
Gtf180(D1025n)-Sucrose Complex
Length = 1039
Score = 28.9 bits (63), Expect = 4.2, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 13/73 (17%)
Query: 216 VWWTGTYSMVLSKASFFHKKYLRLYTNEMPTSIKEFVTENRNCEDIAMSFLVANVTDAPP 275
VWW T + ++ Y++ Y N +P S+ F T+ + E S LV
Sbjct: 111 VWWPNTVTQA------YYLNYMKQYGNLLPASLPSFSTDADSAELNHYSELVQQN----- 159
Query: 276 IWVKGKIYEIGST 288
++ +I E GST
Sbjct: 160 --IEKRISETGST 170
>pdb|3KLK|A Chain A, Crystal Structure Of Lactobacillus Reuteri N-Terminally
Truncated Glucansucrase Gtf180 In Triclinic Apo- Form
Length = 1039
Score = 28.9 bits (63), Expect = 4.4, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 13/73 (17%)
Query: 216 VWWTGTYSMVLSKASFFHKKYLRLYTNEMPTSIKEFVTENRNCEDIAMSFLVANVTDAPP 275
VWW T + ++ Y++ Y N +P S+ F T+ + E S LV
Sbjct: 111 VWWPNTVTQA------YYLNYMKQYGNLLPASLPSFSTDADSAELNHYSELVQQN----- 159
Query: 276 IWVKGKIYEIGST 288
++ +I E GST
Sbjct: 160 --IEKRISETGST 170
>pdb|1GFF|1 Chain 1, The Atomic Structure Of The Degraded Procapsid Particle Of
The Bacteriophage G4: Induced Structural Changes In The
Presence Of Calcium Ions And Functional Implications
Length = 426
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 36/90 (40%), Gaps = 7/90 (7%)
Query: 211 CGWWSVWWTGTY-SMVLSKASFFHKKYLRLYTNEMPTSIKEFVT----ENRNCEDIAMSF 265
GW S + GT S L F H+ YL +Y N + +T N ED
Sbjct: 101 SGWDSAAYLGTIPSSTLKVPKFLHQGYLNIYNNYFKPPWSDDLTYANPSNMPSEDYKWGV 160
Query: 266 LVANVTD--APPIWVKGKIYEIGSTGISTL 293
VAN+ P+ + E +TG ST+
Sbjct: 161 RVANLKSIWTAPLPPDTRTSENMTTGTSTI 190
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
0.322 0.136 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,916,874
Number of Sequences: 62578
Number of extensions: 403163
Number of successful extensions: 897
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 889
Number of HSP's gapped (non-prelim): 17
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)