BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15645249|ref|NP_207419.1| protein E (gcpE)
[Helicobacter pylori 26695]
(359 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1JPM|C Chain C, L-Ala-DL-Glu Epimerase >gi|18158850|pdb... 32 0.11
pdb|1XZG| Fusarium Solani Cutinase Mutant With Thr 45 Rep... 30 0.32
pdb|1FHV|A Chain A, Crystal Structure Analysis Of O-Succiny... 27 4.7
pdb|1FSZ| Crystal Structure Of The Cell-Division Protein ... 27 4.7
pdb|1FHU|A Chain A, Crystal Structure Analysis Of O-Succiny... 27 4.7
pdb|1KYA|A Chain A, Active Laccase From Trametes Versicolor... 26 6.1
pdb|1DTN| Mandelate Racemase Mutant D270n Co-Crystallized... 26 8.0
pdb|2OAT|A Chain A, Ornithine Aminotransferase Complexed Wi... 26 8.0
pdb|1EBF|A Chain A, Homoserine Dehydrogenase From S. Cerevi... 26 8.0
pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus ... 26 8.0
pdb|1GVI|A Chain A, Thermus Maltogenic Amylase In Complex W... 26 8.0
pdb|1MDL| Mandelate Racemase Mutant K166r Co-Crystallized... 26 8.0
pdb|1HFU|A Chain A, Type-2 Cu-Depleted Laccase From Coprinu... 26 8.0
pdb|1B4A|A Chain A, Structure Of The Arginine Repressor Fro... 26 8.0
pdb|1MRA| Mandelate Racemase Mutant D270n Co-Crystallized... 26 8.0
pdb|1A65|A Chain A, Type-2 Cu-Depleted Laccase From Coprinu... 26 8.0
pdb|1SMA|A Chain A, Crystal Structure Of A Maltogenic Amyla... 26 8.0
pdb|1GBN|A Chain A, Human Ornithine Aminotransferase Comple... 26 8.0
pdb|1MDR| Mandelate Racemase (E.C.5.1.2.2) 26 8.0
pdb|2MNR| Mandelate Racemase (E.C.5.1.2.2) >gi|443131|pdb... 26 8.0
>pdb|1JPM|C Chain C, L-Ala-DL-Glu Epimerase
pdb|1JPM|A Chain A, L-Ala-DL-Glu Epimerase
pdb|1JPM|B Chain B, L-Ala-DL-Glu Epimerase
pdb|1JPM|D Chain D, L-Ala-DL-Glu Epimerase
Length = 366
Score = 32.0 bits (71), Expect = 0.11
Identities = 26/84 (30%), Positives = 40/84 (46%), Gaps = 7/84 (8%)
Query: 44 IDRLKLAGADLVRVAVSNEKDALA-LKELKKVSPLPLIADIHF---HYKFALIAAQSVDA 99
I +++ AG + V KD LA LK++ + P++AD F ++ +S D
Sbjct: 205 IRKMEDAGLGIELVEQPVHKDDLAGLKKVTDATDTPIMADESVFTPRQAFEVLQTRSADL 264
Query: 100 IRIN---PGNIGSKEKIKAVVDAC 120
I I G I EKI A+ +AC
Sbjct: 265 INIKLMKAGGISGAEKINAMAEAC 288
>pdb|1XZG| Fusarium Solani Cutinase Mutant With Thr 45 Replaced By Ala
Length = 214
Score = 30.4 bits (67), Expect = 0.32
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 6/48 (12%)
Query: 193 VIYPFHLGVTEAGNL------FSSSIKSAMALGGLLMEGIGDTMRVSI 234
VI+ + G TEAGNL +S+++SA G+ ++G+G R ++
Sbjct: 34 VIFIYARGSTEAGNLGTLGPSIASNLESAFGKDGVWIQGVGGAYRATL 81
>pdb|1FHV|A Chain A, Crystal Structure Analysis Of O-Succinylbenzoate Synthase
From E. Coli Complexed With Mg And Osb
Length = 323
Score = 26.6 bits (57), Expect = 4.7
Identities = 13/31 (41%), Positives = 18/31 (57%)
Query: 89 FALIAAQSVDAIRINPGNIGSKEKIKAVVDA 119
FA +A + V A+ I P GS EK++ V A
Sbjct: 224 FAFVAEEGVRAVVIKPTLTGSLEKVREQVQA 254
>pdb|1FSZ| Crystal Structure Of The Cell-Division Protein Ftsz At 2.8a
Resolution
Length = 372
Score = 26.6 bits (57), Expect = 4.7
Identities = 23/74 (31%), Positives = 37/74 (49%), Gaps = 11/74 (14%)
Query: 158 NAKLLEDLDFTNFKISLKASDVIRTIEAYRMLRPLVIYPFHLGVTEAG--NLFSSSIKSA 215
N KL E + K++ K +D + I A + L L+ T+ G N+ + +K+
Sbjct: 192 NEKLFEIVPNMPLKLAFKVADEV-LINAVKGLVELI--------TKDGLINVDFADVKAV 242
Query: 216 MALGGLLMEGIGDT 229
M GGL M GIG++
Sbjct: 243 MNNGGLAMIGIGES 256
>pdb|1FHU|A Chain A, Crystal Structure Analysis Of O-Succinylbenzoate Synthase
From E. Coli
Length = 320
Score = 26.6 bits (57), Expect = 4.7
Identities = 13/31 (41%), Positives = 18/31 (57%)
Query: 89 FALIAAQSVDAIRINPGNIGSKEKIKAVVDA 119
FA +A + V A+ I P GS EK++ V A
Sbjct: 221 FAFVAEEGVRAVVIKPTLTGSLEKVREQVQA 251
>pdb|1KYA|A Chain A, Active Laccase From Trametes Versicolor Complexed With
2,5- Xylidine
pdb|1KYA|B Chain B, Active Laccase From Trametes Versicolor Complexed With
2,5- Xylidine
pdb|1KYA|C Chain C, Active Laccase From Trametes Versicolor Complexed With
2,5- Xylidine
pdb|1KYA|D Chain D, Active Laccase From Trametes Versicolor Complexed With
2,5- Xylidine
Length = 499
Score = 26.2 bits (56), Expect = 6.1
Identities = 11/47 (23%), Positives = 21/47 (44%)
Query: 219 GGLLMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGINWISCP 265
G L+ +GD ++++ L N + + G ++G NW P
Sbjct: 33 GPLITGNMGDRFQLNVIDNLTNHTMLKSTSIHWHGFFQKGTNWADGP 79
>pdb|1DTN| Mandelate Racemase Mutant D270n Co-Crystallized With
(S)-Atrolactate
Length = 359
Score = 25.8 bits (55), Expect = 8.0
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 222 LMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGINWISCPT 266
+ + +GD + + + + V AI R +EG+ WI PT
Sbjct: 182 IRQAVGDDFGIMV--DYNQSLDVPAAIKRSQALQQEGVTWIEEPT 224
>pdb|2OAT|A Chain A, Ornithine Aminotransferase Complexed With
5-Fluoromethylornithine
pdb|2OAT|B Chain B, Ornithine Aminotransferase Complexed With
5-Fluoromethylornithine
pdb|2OAT|C Chain C, Ornithine Aminotransferase Complexed With
5-Fluoromethylornithine
pdb|1OAT|A Chain A, Ornithine Aminotransferase
pdb|1OAT|B Chain B, Ornithine Aminotransferase
pdb|1OAT|C Chain C, Ornithine Aminotransferase
Length = 439
Score = 25.8 bits (55), Expect = 8.0
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 123 KNIPIRIGVNAGSLEKQFDQKYGPTPKGMVESALYNAKLL 162
K +P+ GV AG + +K+G T KG+ + Y AK++
Sbjct: 135 KVLPMNTGVEAGETACKLARKWGYTVKGIQK---YKAKIV 171
>pdb|1EBF|A Chain A, Homoserine Dehydrogenase From S. Cerevisiae Complex With
Nad+
pdb|1EBF|B Chain B, Homoserine Dehydrogenase From S. Cerevisiae Complex With
Nad+
pdb|1EBU|A Chain A, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|B Chain B, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|C Chain C, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|D Chain D, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
Length = 358
Score = 25.8 bits (55), Expect = 8.0
Identities = 18/48 (37%), Positives = 26/48 (53%), Gaps = 2/48 (4%)
Query: 162 LEDLDFTNFKISLKASDVIRTIEAYRMLRPLVIYPFHLG--VTEAGNL 207
+E D+++ SLK SD + +I+ R P+VI G VT AG L
Sbjct: 301 IEKYDYSHPFASLKGSDNVISIKTKRYTNPVVIQGAGAGAAVTAAGVL 348
>pdb|1HQM|D Chain D, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 1265
Score = 25.8 bits (55), Expect = 8.0
Identities = 20/86 (23%), Positives = 35/86 (40%), Gaps = 1/86 (1%)
Query: 212 IKSAMALGGLLMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGINW-ISCPTCGRI 270
I+ + GL+ + G+T V + + V + G K G + + G +
Sbjct: 776 IRQLCGMRGLMQKPSGETFEVPVRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYL 835
Query: 271 EANLVDMAIKVEKRLSHIKTPLDISV 296
LVD+A ++ R + T ISV
Sbjct: 836 TRKLVDVAHEIVVREADCGTTKYISV 861
>pdb|1GVI|A Chain A, Thermus Maltogenic Amylase In Complex With Beta-Cd
pdb|1GVI|B Chain B, Thermus Maltogenic Amylase In Complex With Beta-Cd
Length = 588
Score = 25.8 bits (55), Expect = 8.0
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 96 SVDAIRINPGNIGSKEKIKAVVDACKEKNIPIRI 129
+ D I+P + G KE +K +V C EK I + +
Sbjct: 209 TADYFEIDP-HFGDKETLKTLVKRCHEKGIRVML 241
>pdb|1MDL| Mandelate Racemase Mutant K166r Co-Crystallized With (R)-Mandelate
Length = 359
Score = 25.8 bits (55), Expect = 8.0
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 222 LMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGINWISCPT 266
+ + +GD + + + + V AI R +EG+ WI PT
Sbjct: 182 IRQAVGDDFGIMV--DYNQSLDVPAAIKRSQALQQEGVTWIEEPT 224
>pdb|1HFU|A Chain A, Type-2 Cu-Depleted Laccase From Coprinus Cinereus At 1.68
A Resolution
Length = 503
Score = 25.8 bits (55), Expect = 8.0
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 200 GVTEAGNLFSSSIKSAMALGGLLMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGI 259
G T AG L + G L+ G D +++ +L+N + + G + G
Sbjct: 20 GFTRAGILVNG------VHGPLIRGGKNDNFELNVVNDLDNPTMLRPTSIHWHGLFQRGT 73
Query: 260 NW 261
NW
Sbjct: 74 NW 75
>pdb|1B4A|A Chain A, Structure Of The Arginine Repressor From Bacillus
Stearothermophilus
pdb|1B4A|B Chain B, Structure Of The Arginine Repressor From Bacillus
Stearothermophilus
pdb|1B4A|C Chain C, Structure Of The Arginine Repressor From Bacillus
Stearothermophilus
pdb|1B4A|D Chain D, Structure Of The Arginine Repressor From Bacillus
Stearothermophilus
pdb|1B4A|E Chain E, Structure Of The Arginine Repressor From Bacillus
Stearothermophilus
pdb|1B4A|F Chain F, Structure Of The Arginine Repressor From Bacillus
Stearothermophilus
Length = 149
Score = 25.8 bits (55), Expect = 8.0
Identities = 20/69 (28%), Positives = 35/69 (49%), Gaps = 14/69 (20%)
Query: 36 DIESTKNQIDRLKLAGADLVRVAVSNEKDALALKELKKVSPLPLIADIHFHYKFALIAAQ 95
DIE+ +DRL+ AG ++ + VS + +KE++ V + + YK++L + Q
Sbjct: 18 DIETQDELVDRLREAGFNVTQATVSRD-----IKEMQLVK----VPMANGRYKYSLPSDQ 68
Query: 96 SVDAIRINP 104
R NP
Sbjct: 69 -----RFNP 72
>pdb|1MRA| Mandelate Racemase Mutant D270n Co-Crystallized With
(S)-Atrolactate
Length = 359
Score = 25.8 bits (55), Expect = 8.0
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 222 LMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGINWISCPT 266
+ + +GD + + + + V AI R +EG+ WI PT
Sbjct: 182 IRQAVGDDFGIMV--DYNQSLDVPAAIKRSQALQQEGVTWIEEPT 224
>pdb|1A65|A Chain A, Type-2 Cu-Depleted Laccase From Coprinus Cinereus
Length = 504
Score = 25.8 bits (55), Expect = 8.0
Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 6/62 (9%)
Query: 200 GVTEAGNLFSSSIKSAMALGGLLMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGI 259
G T AG L + G L+ G D +++ +L+N + + G + G
Sbjct: 20 GFTRAGILVNG------VHGPLIRGGKNDNFELNVVNDLDNPTMLRPTSIHWHGLFQRGT 73
Query: 260 NW 261
NW
Sbjct: 74 NW 75
>pdb|1SMA|A Chain A, Crystal Structure Of A Maltogenic Amylase
pdb|1SMA|B Chain B, Crystal Structure Of A Maltogenic Amylase
Length = 588
Score = 25.8 bits (55), Expect = 8.0
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 96 SVDAIRINPGNIGSKEKIKAVVDACKEKNIPIRI 129
+ D I+P + G KE +K +V C EK I + +
Sbjct: 209 TADYFEIDP-HFGDKETLKTLVKRCHEKGIRVML 241
>pdb|1GBN|A Chain A, Human Ornithine Aminotransferase Complexed With The
Neurotoxin Gabaculine
pdb|1GBN|B Chain B, Human Ornithine Aminotransferase Complexed With The
Neurotoxin Gabaculine
pdb|1GBN|C Chain C, Human Ornithine Aminotransferase Complexed With The
Neurotoxin Gabaculine
pdb|2CAN|A Chain A, Human Ornithine Aminotransferase Complexed With L-Canaline
pdb|2CAN|B Chain B, Human Ornithine Aminotransferase Complexed With L-Canaline
pdb|2CAN|C Chain C, Human Ornithine Aminotransferase Complexed With L-Canaline
Length = 402
Score = 25.8 bits (55), Expect = 8.0
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 123 KNIPIRIGVNAGSLEKQFDQKYGPTPKGMVESALYNAKLL 162
K +P+ GV AG + +K+G T KG+ + Y AK++
Sbjct: 98 KVLPMNTGVEAGETACKLARKWGYTVKGIQK---YKAKIV 134
>pdb|1MDR| Mandelate Racemase (E.C.5.1.2.2)
Length = 359
Score = 25.8 bits (55), Expect = 8.0
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 222 LMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGINWISCPT 266
+ + +GD + + + + V AI R +EG+ WI PT
Sbjct: 182 IRQAVGDDFGIMV--DYNQSLDVPAAIKRSQALQQEGVTWIEEPT 224
>pdb|2MNR| Mandelate Racemase (E.C.5.1.2.2)
pdb|1MNS| Mandelate Racemase (E.C.5.1.2.2)
Length = 357
Score = 25.8 bits (55), Expect = 8.0
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 222 LMEGIGDTMRVSITGELENEIKVARAILRHSGRLKEGINWISCPT 266
+ + +GD + + + + V AI R +EG+ WI PT
Sbjct: 180 IRQAVGDDFGIMV--DYNQSLDVPAAIKRSQALQQEGVTWIEEPT 222
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.318 0.136 0.374
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,850,103
Number of Sequences: 13198
Number of extensions: 73031
Number of successful extensions: 343
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 339
Number of HSP's gapped (non-prelim): 21
length of query: 359
length of database: 2,899,336
effective HSP length: 89
effective length of query: 270
effective length of database: 1,724,714
effective search space: 465672780
effective search space used: 465672780
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)