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= 025270
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ICP|A Chain A, Crystal Structure Of Udp-Galactose 4-Epimerase
pdb|3KO8|A Chain A, Crystal Structure Of Udp-Galactose 4-Epimerase
Length = 312
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 91/242 (37%), Gaps = 21/242 (8%)
Query: 2 EFNYAKFKALFRTNNNFRLQRPVADWAKSSGVKQFLFISSAGIYKPADEPPHVEGDVVKP 61
E + + + N N V +WA+ +GV+ +F SS+ +Y AD P E + KP
Sbjct: 74 EVRLSTTEPIVHFNENVVATFNVLEWARQTGVRTVVFASSSTVYGDADVIPTPEEEPYKP 133
Query: 62 --------DAGHVQVEKYISENFSNWASFRPQYMIGSGNNKDCEEWFFDRIVRKRPVP-- 111
AG V Y + R ++G +D I++ R P
Sbjct: 134 ISVYGAAKAAGEVMCATYARLFGVRCLAVRYANVVGPRLRHGV---IYDFIMKLRRNPNV 190
Query: 112 --IPGSGMQFTNIAHVRDLSSMLTLAVENPEAASSNI--FNLVSDRAVTLDGMAKLCAQA 167
+ G G Q + +VRD A + E + N+ + AV + +A++ A+
Sbjct: 191 LEVLGDGTQRKSYLYVRDAVEATLAAWKKFEEMDAPFLALNVGNVDAVRVLDIAQIVAEV 250
Query: 168 AGLPVEIVHYDPKAAGIDAKKAFPFRNMHFYAEPRAAKDILGWRSTTNLPEDLKERFEEY 227
GL EI G + +P + + GWR T E +K+ E+
Sbjct: 251 LGLRPEIRLVPSTPDG----RGWPGDVKYMTLAVTKLMKLTGWRPTMTSAEAVKKTAEDL 306
Query: 228 VK 229
K
Sbjct: 307 AK 308
>pdb|3AW9|A Chain A, Structure Of Udp-Galactose 4-Epimerase Mutant
pdb|3AW9|B Chain B, Structure Of Udp-Galactose 4-Epimerase Mutant
pdb|3AW9|C Chain C, Structure Of Udp-Galactose 4-Epimerase Mutant
Length = 308
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 55/242 (22%), Positives = 91/242 (37%), Gaps = 21/242 (8%)
Query: 2 EFNYAKFKALFRTNNNFRLQRPVADWAKSSGVKQFLFISSAGIYKPADEPPHVEGDVVKP 61
E + + + N N V +WA+ +GV+ +F SS+ +Y AD P E + KP
Sbjct: 70 EVRLSTTEPIVHFNENVVATFNVLEWARQTGVRTVVFASSSTVYGDADVIPTPEEEPYKP 129
Query: 62 --------DAGHVQVEKYISENFSNWASFRPQYMIGSGNNKDCEEWFFDRIVRKRPVP-- 111
AG V Y + R ++G +D I++ R P
Sbjct: 130 ISVYGAAKAAGEVMCATYARLFGVRCLAVRYANVVGPRLRHGV---IYDFIMKLRRNPNV 186
Query: 112 --IPGSGMQFTNIAHVRDLSSMLTLAVENPEAASSNI--FNLVSDRAVTLDGMAKLCAQA 167
+ G G Q + +VRD A + E + N+ + AV + +A++ A+
Sbjct: 187 LEVLGDGTQRKSYLYVRDAVEATLAAWKKFEEMDAPFLALNVGNVDAVRVLDIAQIVAEV 246
Query: 168 AGLPVEIVHYDPKAAGIDAKKAFPFRNMHFYAEPRAAKDILGWRSTTNLPEDLKERFEEY 227
GL EI G + +P + + GWR T E +K+ E+
Sbjct: 247 LGLRPEIRLVPSTPDG----RGWPGDVKYMTLAVTKLMKLTGWRPTMTSAEAVKKTAEDL 302
Query: 228 VK 229
K
Sbjct: 303 AK 304
>pdb|4ID9|A Chain A, Crystal Structure Of A Short-Chain DehydrogenaseREDUCTASE
SUPERFAMILY Protein From Agrobacterium Tumefaciens
(Target Efi-506441) With Bound Nad, Monoclinic Form 1
pdb|4ID9|B Chain B, Crystal Structure Of A Short-Chain DehydrogenaseREDUCTASE
SUPERFAMILY Protein From Agrobacterium Tumefaciens
(Target Efi-506441) With Bound Nad, Monoclinic Form 1
pdb|4IDG|A Chain A, Crystal Structure Of A Short-Chain DehydrogenaseREDUCTASE
SUPERFAMILY Protein From Agrobacterium Tumefaciens
(Target Efi-506441) With Bound Nad, Monoclinic Form 2
pdb|4IDG|B Chain B, Crystal Structure Of A Short-Chain DehydrogenaseREDUCTASE
SUPERFAMILY Protein From Agrobacterium Tumefaciens
(Target Efi-506441) With Bound Nad, Monoclinic Form 2
Length = 347
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 52/247 (21%), Positives = 96/247 (38%), Gaps = 57/247 (23%)
Query: 17 NFRLQRPVADWAKSSGVKQFLFISSAGIYKPADEP---PHVEGDVVKPDAGHVQVEKYIS 73
N R + D A ++GV++F+F SS +Y P + P P E + P++ + + K +
Sbjct: 102 NVEGTRRLLDAASAAGVRRFVFASSGEVY-PENRPEFLPVTEDHPLCPNSPY-GLTKLLG 159
Query: 74 EN---FSNWASFRPQYMIGSGNNKDCEEW-----------FFDR---------------- 103
E F + ++ + +D E FF R
Sbjct: 160 EELVRFHQRSGAMETVILRFSHTQDATELLDEDSFFSGPRFFLRPRIHQQQNFGNAAIAE 219
Query: 104 IVRKRPVPIPG-------SGMQF-TNIAHVRDLSSMLTLAVENPEAASSNIFNLVSDRAV 155
+++ R + P +G F +I RD+ + + LA+++PEAA FNL +D
Sbjct: 220 LLQSRDIGEPSHILARNENGRPFRMHITDTRDMVAGILLALDHPEAAGGT-FNLGADEPA 278
Query: 156 TLDGMAKLCAQAAGLPVEIVHYDPKAAGIDAKKAFPFRNMHFYAEPRAAKDILGWRSTTN 215
+ A GLP+ V FP ++++ ++ LG+ +
Sbjct: 279 DFAALLPKIAALTGLPIVTVD-------------FPGDGVYYHTSNERIRNTLGFEAEWT 325
Query: 216 LPEDLKE 222
+ L+E
Sbjct: 326 MDRMLEE 332
>pdb|3RU9|A Chain A, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RU9|B Chain B, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RU9|C Chain C, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RU9|D Chain D, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUA|A Chain A, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUA|B Chain B, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUA|C Chain C, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUA|D Chain D, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUD|A Chain A, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUD|B Chain B, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUD|C Chain C, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUD|D Chain D, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUE|A Chain A, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUE|B Chain B, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUE|S Chain S, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUE|BB Chain b, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUF|A Chain A, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUF|B Chain B, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUF|S Chain S, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUF|BB Chain b, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUH|A Chain A, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUH|B Chain B, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUH|C Chain C, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
pdb|3RUH|D Chain D, Alternative Analogs As Viable Substrates Of Udp-Hexose
4-Epimerases
Length = 351
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 45/216 (20%), Positives = 88/216 (40%), Gaps = 20/216 (9%)
Query: 28 AKSSGVKQFLFISSAGIYKPADEPPHVEGDVVKPDAGHVQVEKYISENFS-------NWA 80
AK++ V+ F + +S+ Y P VE ++ P + + V KY++E ++ +
Sbjct: 138 AKNAQVQSFTYAASSSTYGDHPALPKVEENIGNPLSPYA-VTKYVNEIYAQVYARTYGFK 196
Query: 81 SFRPQYMIGSGNNKDCEEWFFDRI-------VRKRPVPIPGSGMQFTNIAHVRDLSSMLT 133
+ +Y G +D + I ++ V I G G + ++ ++ M
Sbjct: 197 TIGLRYFNVFGRRQDPNGAYAAVIPKWTAAMLKGDDVYINGDGETSRDFCYIDNVIQMNI 256
Query: 134 LAVENPEAASSNIFNLVSDRAVTLDGMAKLCAQAAGLPVEIVHYDPKAAGIDAKKAFPFR 193
L+ ++A NI+N+ TL+ ++ L I H D + ++ R
Sbjct: 257 LSALAKDSAKDNIYNVAVGDRTTLNELSGYIYDELNL---IHHIDKLSIKYREFRSGDVR 313
Query: 194 NMHFYAEPRAAKDILGWRSTTNLPEDLKERFEEYVK 229
H A+ A D+L +R + E L+ YV+
Sbjct: 314 --HSQADVTKAIDLLKYRPNIKIREGLRLSMPWYVR 347
>pdb|3RU7|A Chain A, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RU7|B Chain B, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RU7|C Chain C, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RU7|D Chain D, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
Length = 351
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 45/216 (20%), Positives = 88/216 (40%), Gaps = 20/216 (9%)
Query: 28 AKSSGVKQFLFISSAGIYKPADEPPHVEGDVVKPDAGHVQVEKYISENFS-------NWA 80
AK++ V+ F + +S+ Y P VE ++ P + + V KY++E ++ +
Sbjct: 132 AKNAQVQSFTYAASSSTYGDHPALPKVEENIGNPLSPYA-VTKYVNEIYAQVYARTYGFK 190
Query: 81 SFRPQYMIGSGNNKDCEEWFFDRI-------VRKRPVPIPGSGMQFTNIAHVRDLSSMLT 133
+ +Y G +D + I ++ V I G G + ++ ++ M
Sbjct: 191 TIGLRYFNVFGRRQDPNGAYAAVIPKWTAAMLKGDDVYINGDGETSRDFCYIDNVIQMNI 250
Query: 134 LAVENPEAASSNIFNLVSDRAVTLDGMAKLCAQAAGLPVEIVHYDPKAAGIDAKKAFPFR 193
L+ ++A NI+N+ TL+ ++ L I H D + ++ R
Sbjct: 251 LSALAKDSAKDNIYNVAVGDRTTLNELSGYIYDELNL---IHHIDKLSIKYREFRSGDVR 307
Query: 194 NMHFYAEPRAAKDILGWRSTTNLPEDLKERFEEYVK 229
H A+ A D+L +R + E L+ YV+
Sbjct: 308 --HSQADVTKAIDLLKYRPNIKIREGLRLSMPWYVR 341
>pdb|3LU1|A Chain A, Crystal Structure Analysis Of Wbgu: A Udp-Galnac
4-Epimerase
pdb|3LU1|B Chain B, Crystal Structure Analysis Of Wbgu: A Udp-Galnac
4-Epimerase
pdb|3LU1|C Chain C, Crystal Structure Analysis Of Wbgu: A Udp-Galnac
4-Epimerase
pdb|3LU1|D Chain D, Crystal Structure Analysis Of Wbgu: A Udp-Galnac
4-Epimerase
Length = 364
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 45/216 (20%), Positives = 88/216 (40%), Gaps = 20/216 (9%)
Query: 28 AKSSGVKQFLFISSAGIYKPADEPPHVEGDVVKPDAGHVQVEKYISENFS-------NWA 80
AK++ V+ F + +S+ Y P VE ++ P + + V KY++E ++ +
Sbjct: 151 AKNAQVQSFTYAASSSTYGDHPALPKVEENIGNPLSPYA-VTKYVNEIYAQVYARTYGFK 209
Query: 81 SFRPQYMIGSGNNKDCEEWFFDRI-------VRKRPVPIPGSGMQFTNIAHVRDLSSMLT 133
+ +Y G +D + I ++ V I G G + ++ ++ M
Sbjct: 210 TIGLRYFNVFGRRQDPNGAYAAVIPKWTAAMLKGDDVYINGDGETSRDFCYIDNVIQMNI 269
Query: 134 LAVENPEAASSNIFNLVSDRAVTLDGMAKLCAQAAGLPVEIVHYDPKAAGIDAKKAFPFR 193
L+ ++A NI+N+ TL+ ++ L I H D + ++ R
Sbjct: 270 LSALAKDSAKDNIYNVAVGDRTTLNELSGYIYDELNL---IHHIDKLSIKYREFRSGDVR 326
Query: 194 NMHFYAEPRAAKDILGWRSTTNLPEDLKERFEEYVK 229
H A+ A D+L +R + E L+ YV+
Sbjct: 327 --HSQADVTKAIDLLKYRPNIKIREGLRLSMPWYVR 360
>pdb|1ORR|A Chain A, Crystal Structure Of Cdp-tyvelose 2-epimerase Complexed
With Nad And Cdp
pdb|1ORR|B Chain B, Crystal Structure Of Cdp-tyvelose 2-epimerase Complexed
With Nad And Cdp
pdb|1ORR|C Chain C, Crystal Structure Of Cdp-tyvelose 2-epimerase Complexed
With Nad And Cdp
pdb|1ORR|D Chain D, Crystal Structure Of Cdp-tyvelose 2-epimerase Complexed
With Nad And Cdp
Length = 347
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 5/56 (8%)
Query: 99 WFFDRIVR-----KRPVPIPGSGMQFTNIAHVRDLSSMLTLAVENPEAASSNIFNL 149
WF + V +P I G+G Q ++ H D+ S+ A+ N N FN+
Sbjct: 211 WFCQKAVEIKNGINKPFTISGNGKQVRDVLHAEDMISLYFTALANVSKIRGNAFNI 266
>pdb|3RUC|A Chain A, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUC|B Chain B, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUC|C Chain C, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
pdb|3RUC|D Chain D, Specific Recognition Of N-Acetylated Substrates And Domain
Flexibility In Wbgu: A Udp-Galnac 4-Epimerase
Length = 351
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 44/216 (20%), Positives = 87/216 (40%), Gaps = 20/216 (9%)
Query: 28 AKSSGVKQFLFISSAGIYKPADEPPHVEGDVVKPDAGHVQVEKYISENFS-------NWA 80
AK++ V+ F + +S+ Y P VE ++ P + + V KY++E ++ +
Sbjct: 138 AKNAQVQSFTYAASSSTYGDHPALPKVEENIGNPLSPYA-VTKYVNEIYAQVYARTYGFK 196
Query: 81 SFRPQYMIGSGNNKDCEEWFFDRI-------VRKRPVPIPGSGMQFTNIAHVRDLSSMLT 133
+ +Y G +D + I ++ V I G G + ++ ++ M
Sbjct: 197 TIGLRYFNVFGRRQDPNGAYAAVIPKWTAAMLKGDDVYINGDGETSRDFCYIDNVIQMNI 256
Query: 134 LAVENPEAASSNIFNLVSDRAVTLDGMAKLCAQAAGLPVEIVHYDPKAAGIDAKKAFPFR 193
L+ ++A NI+N+ TL+ ++ L I H D + ++ R
Sbjct: 257 LSALAKDSAKDNIYNVAVGDRTTLNELSGYIYDELNL---IHHIDKLSIKYREFRSGDVR 313
Query: 194 NMHFYAEPRAAKDILGWRSTTNLPEDLKERFEEYVK 229
A+ A D+L +R + E L+ YV+
Sbjct: 314 ASQ--ADVTKAIDLLKYRPNIKIREGLRLSMPWYVR 347
>pdb|1AK0|A Chain A, P1 Nuclease In Complex With A Substrate Analog
Length = 270
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 50 EPPHVEGDVVKPDAGHVQVEKYISENFSNWASFRPQYMIGSGNNKDCEEW 99
+P H E V + +V + Y S+W ++ PQ +IG D E W
Sbjct: 123 QPLHDEAYAVGGNKINVTFDGYHDNLHSDWDTYMPQKLIGGHALSDAESW 172
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 0.135 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,989,360
Number of Sequences: 62578
Number of extensions: 340066
Number of successful extensions: 758
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 750
Number of HSP's gapped (non-prelim): 17
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
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: 50 (23.9 bits)