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|15645174|ref|NP_207344.1| glutamate racemase (glr)
[Helicobacter pylori 26695]
(255 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|1B74|A Chain A, Glutamate Racemase From Aquifex Pyrophi... 161 6e-41
pdb|1QOU|B Chain B, Cen (Centroradialis) Protein From Antir... 26 5.1
pdb|16PK| Phosphoglycerate Kinase From Trypanosoma Brucei... 25 6.7
pdb|1KVT| Udp-Galactose 4-Epimerase Complexed With Udp-Ph... 25 8.7
pdb|1KVS| Udp-Galactose 4-Epimerase Complexed With Udp-Ph... 25 8.7
pdb|1KVQ| Udp-Galactose 4-Epimerase Complexed With Udp-Ph... 25 8.7
pdb|1LRJ|A Chain A, Crystal Structure Of E. Coli Udp-Galact... 25 8.7
pdb|1A9Z| Udp-Galactose 4-Epimerase Mutant S124aY149F COM... 25 8.7
pdb|1LRK|A Chain A, Crystal Structure Of Escherichia Coli U... 25 8.7
>pdb|1B74|A Chain A, Glutamate Racemase From Aquifex Pyrophilus
pdb|1B73|A Chain A, Glutamate Racemase From Aquifex Pyrophilus
Length = 254
Score = 161 bits (408), Expect = 6e-41
Identities = 86/195 (44%), Positives = 125/195 (64%), Gaps = 5/195 (2%)
Query: 1 MKIGVFDSGVGGFSVLKSLLKAQLFDEIIYYGDSARVPYGTKDPTTIKQFGLEALDFFKP 60
MKIG+FDSGVGG +VLK++ +I+Y GD+ARVPYG + TI ++ LE F K
Sbjct: 1 MKIGIFDSGVGGLTVLKAIRNRYRKVDIVYLGDTARVPYGIRSKDTIIRYSLECAGFLKD 60
Query: 61 HQIKLLIVACNTASALALEEMQKHSKIPVVGVIEPSIL-AIKRQVKDKNAPILVLGTKAT 119
+ +++VACNTASA ALE ++K +PV GVIEP + A+K K +N I V+GT AT
Sbjct: 61 KGVDIIVVACNTASAYALERLKKEINVPVFGVIEPGVKEALK---KSRNKKIGVIGTPAT 117
Query: 120 IQSNAYDNALKQQGYLNVSHLATSLFVPLIEESILEGELLETCMRYYFTPLEILPEVVIL 179
++S AY L ++G +V A LF PL EE +LEGE+ + +Y + + +IL
Sbjct: 118 VKSGAYQRKL-EEGGADVFAKACPLFAPLAEEGLLEGEITRKVVEHYLKEFKGKIDTLIL 176
Query: 180 GCTHFPLIAQKIEGY 194
GCTH+PL+ ++I+ +
Sbjct: 177 GCTHYPLLKKEIKKF 191
>pdb|1QOU|B Chain B, Cen (Centroradialis) Protein From Antirrhinum
pdb|1QOU|A Chain A, Cen (Centroradialis) Protein From Antirrhinum
Length = 181
Score = 25.8 bits (55), Expect = 5.1
Identities = 14/59 (23%), Positives = 33/59 (55%), Gaps = 2/59 (3%)
Query: 185 PLIAQKIEGYFMEHFALSTPPLLIHSGDAIVEYLQQNYALKKNA-CAFPKVEFHASGDV 242
PL+ ++ G ++HF + +I++ + ++++ + L +A + P+VE H GD+
Sbjct: 9 PLVIGRVIGDVVDHFTSTVKMSVIYNSNNSIKHVYNGHELFPSAVTSTPRVEVH-GGDM 66
>pdb|16PK| Phosphoglycerate Kinase From Trypanosoma Brucei Bisubstrate Analog
pdb|13PK|A Chain A, Ternary Complex Of Phosphoglycerate Kinase From
Trypanosoma Brucei
pdb|13PK|B Chain B, Ternary Complex Of Phosphoglycerate Kinase From
Trypanosoma Brucei
pdb|13PK|C Chain C, Ternary Complex Of Phosphoglycerate Kinase From
Trypanosoma Brucei
pdb|13PK|D Chain D, Ternary Complex Of Phosphoglycerate Kinase From
Trypanosoma Brucei
Length = 415
Score = 25.4 bits (54), Expect = 6.7
Identities = 34/141 (24%), Positives = 59/141 (41%), Gaps = 16/141 (11%)
Query: 102 RQVKDKNAPILVLGTKATIQ-SNAYDNALKQQGYLNVSHLATSLFVPLIEESILEGELLE 160
++ KD+ A +L + + S+A+ A + AT +P I + G L+E
Sbjct: 139 KKAKDREAMAKILASYGDVYISDAFGTAHRDS--------ATMTGIPKILGNGAAGYLME 190
Query: 161 TCMRYYFTPLEILPE--VVILGCTHFPLIAQKIEGYFMEHFALSTPPLLIHSGDAIVEYL 218
+ Y+ L P V I+G ++ KI+ +++ LLI A
Sbjct: 191 KEISYFAKVLGNPPRPLVAIVGGAK---VSDKIQ--LLDNMLQRIDYLLIGGAMAYTFLK 245
Query: 219 QQNYALKKNACAFPKVEFHAS 239
Q Y++ K+ C K+EF S
Sbjct: 246 AQGYSIGKSKCEESKLEFARS 266
>pdb|1KVT| Udp-Galactose 4-Epimerase Complexed With Udp-Phenol
Length = 338
Score = 25.0 bits (53), Expect = 8.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 6 FDSGVGGFSVLKSLLKAQLFDEIIY------YGDSARVPYGTKDPTTIKQ 49
+D+ V G L S ++A I+ YGD+ ++PY PT Q
Sbjct: 97 YDNNVNGTLRLISAMRAANVKNFIFSSVATVYGDNPKIPYVESFPTGTPQ 146
>pdb|1KVS| Udp-Galactose 4-Epimerase Complexed With Udp-Phenol
Length = 338
Score = 25.0 bits (53), Expect = 8.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 6 FDSGVGGFSVLKSLLKAQLFDEIIY------YGDSARVPYGTKDPTTIKQ 49
+D+ V G L S ++A I+ YGD+ ++PY PT Q
Sbjct: 97 YDNNVNGTLRLISAMRAANVKNFIFSSTATVYGDNPKIPYVESFPTGTPQ 146
>pdb|1KVQ| Udp-Galactose 4-Epimerase Complexed With Udp-Phenol
Length = 338
Score = 25.0 bits (53), Expect = 8.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 6 FDSGVGGFSVLKSLLKAQLFDEIIY------YGDSARVPYGTKDPTTIKQ 49
+D+ V G L S ++A I+ YGD+ ++PY PT Q
Sbjct: 97 YDNNVNGTLRLISAMRAANVKNFIFSSAATVYGDNPKIPYVESFPTGTPQ 146
>pdb|1LRJ|A Chain A, Crystal Structure Of E. Coli Udp-Galactose 4-Epimerase
Complexed With Udp-N-Acetylglucosamine
pdb|1UDB| Structure Of Udp-Galactose-4-Epimerase Complexed With
Udp-4-Deoxy-4-Fluoro-Alpha-D-Glucose
pdb|1UDA| Structure Of Udp-Galactose-4-Epimerase Complexed With
Udp-4-Deoxy-4-Fluoro-Alpha-D-Galactose
pdb|1NAH| Udp-Galactose 4-Epimerase From Escherichia Coli, Reduced
pdb|1XEL| Udp-Galactose 4-Epimerase From Escherichia Coli
pdb|1NAI| Udp-Galactose 4-Epimerase From Escherichia Coli, Oxidized
Length = 338
Score = 25.0 bits (53), Expect = 8.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 6 FDSGVGGFSVLKSLLKAQLFDEIIY------YGDSARVPYGTKDPTTIKQ 49
+D+ V G L S ++A I+ YGD+ ++PY PT Q
Sbjct: 97 YDNNVNGTLRLISAMRAANVKNFIFSSSATVYGDNPKIPYVESFPTGTPQ 146
>pdb|1A9Z| Udp-Galactose 4-Epimerase Mutant S124aY149F COMPLEXED WITH
Udp-Galactose
Length = 338
Score = 25.0 bits (53), Expect = 8.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 6 FDSGVGGFSVLKSLLKAQLFDEIIY------YGDSARVPYGTKDPTTIKQ 49
+D+ V G L S ++A I+ YGD+ ++PY PT Q
Sbjct: 97 YDNNVNGTLRLISAMRAANVKNFIFSSAATVYGDNPKIPYVESFPTGTPQ 146
>pdb|1LRK|A Chain A, Crystal Structure Of Escherichia Coli Udp-Galactose 4-
Epimerase Mutant Y299c Complexed With Udp-N-
Acetylglucosamine
pdb|1LRL|A Chain A, Crystal Structure Of Udp-Galactose 4-Epimerase Mutant
Y299c Complexed With Udp-Glucose
Length = 338
Score = 25.0 bits (53), Expect = 8.7
Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 6 FDSGVGGFSVLKSLLKAQLFDEIIY------YGDSARVPYGTKDPTTIKQ 49
+D+ V G L S ++A I+ YGD+ ++PY PT Q
Sbjct: 97 YDNNVNGTLRLISAMRAANVKNFIFSSSATVYGDNPKIPYVESFPTGTPQ 146
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
0.321 0.139 0.404
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,452,873
Number of Sequences: 13198
Number of extensions: 54553
Number of successful extensions: 175
Number of sequences better than 10.0: 9
Number of HSP's better than 10.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 172
Number of HSP's gapped (non-prelim): 9
length of query: 255
length of database: 2,899,336
effective HSP length: 86
effective length of query: 169
effective length of database: 1,764,308
effective search space: 298168052
effective search space used: 298168052
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: 53 (25.0 bits)