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= 020076
(331 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TX1|A Chain A, X-Ray Crystal Structure Of Listeria Monocytogenes Egd-E
Udp-N- Acetylenolpyruvylglucosamine Reductase (Murb)
Length = 322
Score = 178 bits (451), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 102/285 (35%), Positives = 164/285 (57%), Gaps = 8/285 (2%)
Query: 45 IRRNKLLKDLSTWGIGGPCNYFV--QVFDQSQLVSAIRYCHEHSVRYVVIGKGSNCLFDD 102
I+ N+ L + GG + FV + +++Q V A YCH++ + ++G GSN + D
Sbjct: 37 IKLNEPLSKYTYTKTGGAADVFVMPKTIEEAQEVVA--YCHQNKIPLTILGNGSNLIIKD 94
Query: 103 LGFDGCVI-LNRIEFLERKETGIYRVGSGFRFNSLGMQCCTEGFTGLEFAAGIPGTVGGA 161
G G ++ L+ ++ +ER T I + SG + E +GLEFA GIPG++GGA
Sbjct: 95 GGIRGVILHLDLLQTIERNNTQIVAM-SGAKLIDTAKFALNESLSGLEFACGIPGSIGGA 153
Query: 162 VYMNAGANGQETAGVIDSVDIVTLGGKLQRVSRNDLKFGYRSSSFQDMKDLAAIVAVTFQ 221
++MNAGA G E + V+++ ++T G+L+++ R++LK YR S+ + + +
Sbjct: 154 LHMNAGAYGGEISDVLEAATVLTQTGELKKLKRSELKAAYRFSTIAEKNYIVLDATFSLA 213
Query: 222 LQESTSARRKQREYLDRRRMTQPLGERTAGSVFRNPSDKEVAAAELIERAGLKGFRVGGA 281
L+E + K E R QPL + GSVF+ P A +LI+ +GL+G +GGA
Sbjct: 214 LEEKNLIQAKMDELTAAREAKQPLEYPSCGSVFKRPPGH--FAGKLIQDSGLQGHIIGGA 271
Query: 282 MVSNIHANFFVNTGGSTSRDMLNLIAFVKEKVDQKFGVQLKEEVQ 326
VS HA F VN GG+T+ D +NLIA+V++ V +KF V+L+ EV+
Sbjct: 272 QVSLKHAGFIVNIGGATATDYMNLIAYVQQTVREKFDVELETEVK 316
>pdb|1HSK|A Chain A, Crystal Structure Of S. Aureus Murb
Length = 326
Score = 154 bits (390), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 96/290 (33%), Positives = 150/290 (51%), Gaps = 6/290 (2%)
Query: 45 IRRNKLLKDLSTWGIGGPCNYFVQVFDQSQLVSAIRYCHEHSVRYVVIGKGSNCLFDDLG 104
I+ ++ LK + GG ++++ ++ + ++Y +++ + +G GSN + + G
Sbjct: 31 IKVDEPLKRYTYTKTGGNADFYITPTKNEEVQAVVKYAYQNEIPVTYLGNGSNIIIREGG 90
Query: 105 FDGCVI-LNRIEFLERKETGIYRVGSGFRFNSLGMQCCTEGFTGLEFAAGIPGTVGGAVY 163
G VI L ++ +E + I GSG + TGLEFA GIPG++GGAVY
Sbjct: 91 IRGIVISLLSLDHIEVSDDAII-AGSGAAIIDVSRVARDYALTGLEFACGIPGSIGGAVY 149
Query: 164 MNAGANGQETAGVIDSVDIVTLGGKLQRVSRNDLKFGYRSSSFQDMKDLAAIVAVTFQLQ 223
MNAGA G E ID V G L +++ +L+ YR+S Q + A T
Sbjct: 150 MNAGAYGGEVKDCIDYALCVNEQGSLIKLTTKELELDYRNSIIQKEHLVVLEAAFTLAPG 209
Query: 224 ESTSARRKQREYLDRRRMTQPLGERTAGSVFRNPSDKEVAAAELIERAGLKGFRVGGAMV 283
+ T + K + +RR QPL + GSVF+ P A +LI+ + L+G R+GG V
Sbjct: 210 KMTEIQAKMDDLTERRESKQPLEYPSCGSVFQRPPGH--FAGKLIQDSNLQGHRIGGVEV 267
Query: 284 SNIHANFFVNTGGSTSRDMLNLIAFVKEKVDQKFGVQLKEEVQYF--HPQ 331
S HA F VN T+ D NLI +V++ V +KFG++L EV+ HP+
Sbjct: 268 STKHAGFMVNVDNGTATDYENLIHYVQKTVKEKFGIELNREVRIIGEHPK 317
>pdb|2Q85|A Chain A, Crystal Structure Of E. Coli Mur B Bound To A Naphthyl
Tetronic Acid Inihibitor
pdb|1MBB|A Chain A, Oxidoreductase
pdb|1MBT|A Chain A, Oxidoreductase
Length = 342
Score = 124 bits (310), Expect = 9e-29, Method: Compositional matrix adjust.
Identities = 101/331 (30%), Positives = 155/331 (46%), Gaps = 53/331 (16%)
Query: 48 NKLLKDLSTWGIGGPCNYFVQVFDQSQLVSAIRYCHEHSVRYVVIGKGSNCLFDDLGFDG 107
N LK +T+GI + V D+ QL++A +Y +++G+GSN LF + + G
Sbjct: 2 NHSLKPWNTFGIDHNAQHIVCAEDEQQLLNAWQYATAEGQPVLILGEGSNVLFLE-DYRG 60
Query: 108 CVILNRI---EFLERKETGIYRVGSGFRFNSLGMQCCTEGFTGLEFAAGIPGTVGGAVYM 164
VI+NRI E + + VG+G ++ L EG GLE A IPG VG +
Sbjct: 61 TVIINRIKGIEIHDEPDAWYLHVGAGENWHRLVKYTLQEGMPGLENLALIPGCVGSSPIQ 120
Query: 165 NAGANG---QETAGVIDSVDIVTLGGKLQRVSRNDLKFGYRSSSFQ-DMKDLAAIVAVTF 220
N GA G Q +DSV++ T GK R++ + +FGYR S F+ + +D AIVAV
Sbjct: 121 NIGAYGVELQRVCAYVDSVELAT--GKQVRLTAKECRFGYRDSIFKHEYQDRFAIVAVGL 178
Query: 221 QLQ---------------ESTSARRKQRE----YLDRRRMTQPLGERTAGSVFRNP---- 257
+L + T+ +Q ++ ++ P AGS F+NP
Sbjct: 179 RLPKEWQPVLTYGDLTRLDPTTVTPQQVFNAVCHMRTTKLPDPKVNGNAGSFFKNPVVSA 238
Query: 258 ------------------SDKEV--AAAELIERAGLKGFRVGGAMVSNIHANFFVNTGGS 297
+D V AA LI++ LKG ++GGA V A +N +
Sbjct: 239 ETAKALLSQFPTAPNYPQADGSVKLAAGWLIDQCQLKGMQIGGAAVHRQQALVLINEDNA 298
Query: 298 TSRDMLNLIAFVKEKVDQKFGVQLKEEVQYF 328
S D++ L V++KV +KF V L+ EV++
Sbjct: 299 KSEDVVQLAHHVRQKVGEKFNVWLEPEVRFI 329
>pdb|2MBR|A Chain A, Murb Wild Type, Complex With Enolpyruvyl-Udp-N-
Acetylglucosamine
Length = 340
Score = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 100/328 (30%), Positives = 154/328 (46%), Gaps = 53/328 (16%)
Query: 51 LKDLSTWGIGGPCNYFVQVFDQSQLVSAIRYCHEHSVRYVVIGKGSNCLFDDLGFDGCVI 110
LK +T+GI + V D+ QL++A +Y +++G+GSN LF + + G VI
Sbjct: 3 LKPWNTFGIDHNAQHIVCAEDEQQLLNAWQYATAEGQPVLILGEGSNVLFLE-DYRGTVI 61
Query: 111 LNRI---EFLERKETGIYRVGSGFRFNSLGMQCCTEGFTGLEFAAGIPGTVGGAVYMNAG 167
+NRI E + + VG+G ++ L EG GLE A IPG VG + N G
Sbjct: 62 INRIKGIEIHDEPDAWYLHVGAGENWHRLVKYTLQEGMPGLENLALIPGCVGSSPIQNIG 121
Query: 168 ANG---QETAGVIDSVDIVTLGGKLQRVSRNDLKFGYRSSSFQ-DMKDLAAIVAVTFQLQ 223
A G Q +DSV++ T GK R++ + +FGYR S F+ + +D AIVAV +L
Sbjct: 122 AYGVELQRVCAYVDSVELAT--GKQVRLTAKECRFGYRDSIFKHEYQDRFAIVAVGLRLP 179
Query: 224 ---------------ESTSARRKQRE----YLDRRRMTQPLGERTAGSVFRNP------- 257
+ T+ +Q ++ ++ P AGS F+NP
Sbjct: 180 KEWQPVLTYGDLTRLDPTTVTPQQVFNAVCHMRTTKLPDPKVNGNAGSFFKNPVVSAETA 239
Query: 258 ---------------SDKEV--AAAELIERAGLKGFRVGGAMVSNIHANFFVNTGGSTSR 300
+D V AA LI++ LKG ++GGA V A +N + S
Sbjct: 240 KALLSQFPTAPNYPQADGSVKLAAGWLIDQCQLKGMQIGGAAVHRQQALVLINEDNAKSE 299
Query: 301 DMLNLIAFVKEKVDQKFGVQLKEEVQYF 328
D++ L V++KV +KF V L+ EV++
Sbjct: 300 DVVQLAHHVRQKVGEKFNVWLEPEVRFI 327
>pdb|1UXY|A Chain A, Murb Mutant With Ser 229 Replaced By Ala, Complex With
Enolpyruvyl-Udp-N-Acetylglucosamine
Length = 340
Score = 122 bits (305), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 99/328 (30%), Positives = 154/328 (46%), Gaps = 53/328 (16%)
Query: 51 LKDLSTWGIGGPCNYFVQVFDQSQLVSAIRYCHEHSVRYVVIGKGSNCLFDDLGFDGCVI 110
LK +T+GI + V D+ QL++A +Y +++G+GSN LF + + G VI
Sbjct: 3 LKPWNTFGIDHNAQHIVCAEDEQQLLNAWQYATAEGQPVLILGEGSNVLFLE-DYRGTVI 61
Query: 111 LNRI---EFLERKETGIYRVGSGFRFNSLGMQCCTEGFTGLEFAAGIPGTVGGAVYMNAG 167
+NRI E + + VG+G ++ L EG GLE A IPG VG + N G
Sbjct: 62 INRIKGIEIHDEPDAWYLHVGAGENWHRLVKYTLQEGMPGLENLALIPGCVGSSPIQNIG 121
Query: 168 ANG---QETAGVIDSVDIVTLGGKLQRVSRNDLKFGYRSSSFQ-DMKDLAAIVAVTFQLQ 223
A G Q +DSV++ T GK R++ + +FGYR S F+ + +D AIVAV +L
Sbjct: 122 AYGVELQRVCAYVDSVELAT--GKQVRLTAKECRFGYRDSIFKHEYQDRFAIVAVGLRLP 179
Query: 224 ---------------ESTSARRKQRE----YLDRRRMTQPLGERTAGSVFRNP------- 257
+ T+ +Q ++ ++ P AG+ F+NP
Sbjct: 180 KEWQPVLTYGDLTRLDPTTVTPQQVFNAVCHMRTTKLPDPKVNGNAGAFFKNPVVSAETA 239
Query: 258 ---------------SDKEV--AAAELIERAGLKGFRVGGAMVSNIHANFFVNTGGSTSR 300
+D V AA LI++ LKG ++GGA V A +N + S
Sbjct: 240 KALLSQFPTAPNYPQADGSVKLAAGWLIDQCQLKGMQIGGAAVHRQQALVLINEDNAKSE 299
Query: 301 DMLNLIAFVKEKVDQKFGVQLKEEVQYF 328
D++ L V++KV +KF V L+ EV++
Sbjct: 300 DVVQLAHHVRQKVGEKFNVWLEPEVRFI 327
>pdb|3I99|A Chain A, The Crystal Structure Of The
Udp-N-Acetylenolpyruvoylglucosamine Reductase From The
Vibrio Cholerae O1 Biovar Tor
Length = 357
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 89/304 (29%), Positives = 140/304 (46%), Gaps = 65/304 (21%)
Query: 81 YCHEH--SVRYVVIGKGSNCLFDDLGFDGCVILNRIEFLERKETGIYR---VGSGFRFNS 135
YC S+ ++IGKGSN LF + G +++NR+ +E ++ Y V G + S
Sbjct: 47 YCSAEWASLPKLIIGKGSNXLFT-CHYTGXIVVNRLNGIEHQQDDDYHRLHVAGGEDWPS 105
Query: 136 LGMQCCTEGFTGLEFAAGIPGTVGGAVYMNAGANGQETAGVIDSVDIVTL-GGKLQRVSR 194
L C +G GLE A IPG G A N GA G E V D V+ + L G ++R++
Sbjct: 106 LVSWCVEQGIGGLENLALIPGCAGSAPIQNIGAYGVEFKDVCDYVEYLCLETGTVKRLTX 165
Query: 195 NDLKFGYRSSSFQ---------------------------DMKDLAAIVAVTFQLQESTS 227
+ +FGYR S F+ +KDL++ A+ Q +
Sbjct: 166 EECQFGYRDSIFKHQLYQKAVVTAVGLKFAKAWQPIIQYGPLKDLSSDCAIHDVYQRVCA 225
Query: 228 ARRKQREYLDRRRMTQPLGERTAGSVFRNPSDKE-----------------------VAA 264
R + ++ P AGS F+NP + VAA
Sbjct: 226 TRXE--------KLPDPAVXGNAGSFFKNPVISQQAFARLQIEHPDVVAYPAEQGVKVAA 277
Query: 265 AELIERAGLKGFRVGGAMVSNIHANFFVNTGGSTSRDMLNLIAFVKEKVDQKFGVQLKEE 324
LI++AGLKG ++GGA V A VNTG ++++D+L L A ++++V +G++L+ E
Sbjct: 278 GWLIDQAGLKGHQIGGAKVHPKQALVIVNTGDASAQDVLXLAADIQQRVFNCYGIELEHE 337
Query: 325 VQYF 328
V++
Sbjct: 338 VRFI 341
>pdb|2GQT|A Chain A, Crystal Structure Of Udp-N-Acetylenolpyruvylglucosamine
Reductase (Murb) From Thermus Caldophilus
pdb|2GQU|A Chain A, Crystal Structure Of Udp-N-Acetylenolpyruvylglucosamine
Reductase (Murb) From Thermus Caldophilus
Length = 268
Score = 107 bits (266), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 95/271 (35%), Positives = 133/271 (49%), Gaps = 18/271 (6%)
Query: 42 LKFIRRNK-LLKDLSTWGIGGPCNYFVQVFDQSQLVSAIRYCHEHSVRYVVIGKGSNCLF 100
++F+R + LLKD +T G+GGP + V + +L A Y V+G GSN L
Sbjct: 1 MEFMRVERVLLKDYTTLGVGGPAELWT-VETREELKRAT------EAPYRVLGNGSNLLV 53
Query: 101 DDLGFDGCVILNRIEFLERKETGIYRVGSGFRFNSLGMQCCTEGFTGLEFAAGIPGTVGG 160
D G VI EF G VG+G L + G +GLE GIP VGG
Sbjct: 54 LDEGVPERVIRLAGEFQTYDLKGW--VGAGTLLPLLVQEAARAGLSGLEGLLGIPAQVGG 111
Query: 161 AVYMNAGANGQETAGVIDSVDIVTLGGKLQRVSRNDLKFGYRSSSFQDMKDLAAIVAVTF 220
AV MNAG E A +++V++ G +L FGYR S + + V
Sbjct: 112 AVKMNAGTRFGEMADALEAVEVFH-DGAFHVYCPEELGFGYRKSH---LPPGGIVTRVRL 167
Query: 221 QLQESTSARRKQR-EYLDRRRMTQPLGERTAGSVFRNPSDKEVAAAELIERAGLKGFRVG 279
+L+E +R +DR R QP ++AG F+NP + +A LI+ GLKG RVG
Sbjct: 168 KLKERPKEEILRRMAEVDRARKGQP-KRKSAGCAFKNPPGQ--SAGRLIDERGLKGLRVG 224
Query: 280 GAMVSNIHANFFVNTGGSTSRDMLNLIAFVK 310
AM+S H NF VN G + ++D+L L+ V+
Sbjct: 225 DAMISLEHGNFIVNLGQARAKDVLELVRRVQ 255
>pdb|2VFR|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2): Native
Enzyme
pdb|2VFS|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Xylitol
pdb|2VFT|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Sorbitol
pdb|2VFU|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Mannitol
pdb|2VFV|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Sulphite
Length = 422
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 42/189 (22%), Positives = 77/189 (40%), Gaps = 18/189 (9%)
Query: 48 NKLLKDLSTWGIGGPCNYFVQVFDQSQLVSAIRYCHEHSVRYVVIGKGSNCLFDDLGF-- 105
++ + D++ G Y + + + A+R S R V+G G + F+++
Sbjct: 2 SEFMSDITVTNWAGNITYTAKELLRPHSLDALRALVADSARVRVLGSGHS--FNEIAEPG 59
Query: 106 DGCVILNRIEFLERKETGI----YRVGSGFRFNSLGMQCCTEGFTGLEFAAGIP-----G 156
DG V+L+ + RVG G R+ L G L A +P G
Sbjct: 60 DGGVLLSLAGLPSVVDVDTAARTVRVGGGVRYAELARVVHARGL-ALPNMASLPHISVAG 118
Query: 157 TVGGAVYMNAGANGQETAGVIDSVDIVTLGGKLQRVSRNDLKFGYRSSSFQDMKDLAAIV 216
+V + + NG A V+ V++VT G ++R D +FG + + L +
Sbjct: 119 SVATGTHGSGVGNGS-LASVVREVELVTADGSTVVIARGDERFG---GAVTSLGALGVVT 174
Query: 217 AVTFQLQES 225
++T L+ +
Sbjct: 175 SLTLDLEPA 183
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 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,681,259
Number of Sequences: 62578
Number of extensions: 405237
Number of successful extensions: 937
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 910
Number of HSP's gapped (non-prelim): 11
length of query: 331
length of database: 14,973,337
effective HSP length: 99
effective length of query: 232
effective length of database: 8,778,115
effective search space: 2036522680
effective search space used: 2036522680
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)