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|15645476|ref|NP_207651.1| phosphoheptose isomerase
(gmhA) [Helicobacter pylori 26695]
(192 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|1JEO|A Chain A, Crystal Structure Of The Hypothetical P... 30 0.23
pdb|1FDO| Oxidized Form Of Formate Dehydrogenase H From E... 29 0.40
pdb|1A6D|A Chain A, Thermosome From T. Acidophilum >gi|4699... 27 2.0
pdb|1E9I|D Chain D, Enolase From E.Coli >gi|16975437|pdb|1E... 27 2.0
pdb|1H5S|C Chain C, Thymidylyltransferase Complexed With Tmp 27 2.0
pdb|1H5S|B Chain B, Thymidylyltransferase Complexed With Tmp 26 3.4
pdb|1DJ3|A Chain A, Structures Of Adenylosuccinate Syntheta... 26 3.4
pdb|1C7B|B Chain B, Deoxy Rhb1.0 (Recombinant Hemoglobin) >... 25 4.4
pdb|1H5T|B Chain B, Thymidylyltransferase Complexed With Th... 25 4.4
pdb|1PGJ|A Chain A, X-Ray Structure Of 6-Phosphogluconate D... 25 4.4
pdb|1H5S|D Chain D, Thymidylyltransferase Complexed With Tmp 25 4.4
pdb|1H5T|C Chain C, Thymidylyltransferase Complexed With Th... 25 4.4
pdb|1H5S|A Chain A, Thymidylyltransferase Complexed With Tmp 25 4.4
pdb|1EP7|A Chain A, Crystal Structure Of Wt Thioredoxin H F... 25 5.8
pdb|1EP8|A Chain A, Crystal Structure Of A Mutated Thioredo... 25 5.8
pdb|1J5X|A Chain A, Crystal Structure Of Conserved Hypothet... 25 5.8
pdb|1CMY|B Chain B, Hemoglobin Ypsilanti (Carbon Monoxy For... 25 7.5
pdb|1GW5|A Chain A, Ap2 Clathrin Adaptor Core 25 7.5
pdb|1L8A|A Chain A, E. Coli Pyruvate Dehydrogenase >gi|2221... 24 9.8
pdb|1BUW|B Chain B, Crystal Structure Of S-Nitroso-Nitrosyl... 24 9.8
>pdb|1JEO|A Chain A, Crystal Structure Of The Hypothetical Protein Mj1247 From
Methanococcus Jannaschii At 2.0 A Resolution Infers A
Molecular Function Of 3-Hexulose-6-Phosphate Isomerase
Length = 180
Score = 29.6 bits (65), Expect = 0.23
Identities = 14/39 (35%), Positives = 25/39 (63%)
Query: 110 KNDVLIGISTSGNSKNVLKAYEKAKDLEMKTLSLAGRDG 148
K+D+LI IS SG +++VL +KAK++ +++ G
Sbjct: 82 KDDLLILISGSGRTESVLTVAKKAKNINNNIIAIVXEXG 120
>pdb|1FDO| Oxidized Form Of Formate Dehydrogenase H From E. Coli
pdb|1FDI| Oxidized Form Of Formate Dehydrogenase H From E. Coli Complexed
With The Inhibitor Nitrite
pdb|1AA6| Reduced Form Of Formate Dehydrogenase H From E. Coli
Length = 715
Score = 28.9 bits (63), Expect = 0.40
Identities = 11/42 (26%), Positives = 26/42 (61%)
Query: 76 SAISLNTDISALTAIANDYGYEEVFARQVEALGVKNDVLIGI 117
S S+ + +AL A+A++ GY ++ + LG++++ L+ +
Sbjct: 587 SCRSMTGNCAALAALADEPGYAQINTEDAKRLGIEDEALVWV 628
>pdb|1A6D|A Chain A, Thermosome From T. Acidophilum
pdb|1A6E|A Chain A, Thermosome - Mg-Adp-Alf3 Complex
Length = 545
Score = 26.6 bits (57), Expect = 2.0
Identities = 31/143 (21%), Positives = 60/143 (41%), Gaps = 20/143 (13%)
Query: 24 LQEALKQSVHL---LIETLENQGKILICGNGGSASDAQHFAAELTGRYKLERKGLSAIS- 79
+Q+ L Q + ++E ++ G ++ G AQH+ A+ G Y + R S +
Sbjct: 262 IQDFLNQETNTFKQMVEKIKKSGANVVLCQKGIDDVAQHYLAK-EGIYAVRRVKKSDMEK 320
Query: 80 --------LNTDISALTAIANDYGYEEVFARQVE------ALGVKNDVLIGISTSGNSKN 125
+ TD+ LT E V R++ +G KN + I G + +
Sbjct: 321 LAKATGAKIVTDLDDLTPSVLGEA-ETVEERKIGDDRMTFVMGCKNPKAVSILIRGGTDH 379
Query: 126 VLKAYEKAKDLEMKTLSLAGRDG 148
V+ E+A + ++ +++ DG
Sbjct: 380 VVSEVERALNDAIRVVAITKEDG 402
>pdb|1E9I|D Chain D, Enolase From E.Coli
pdb|1E9I|A Chain A, Enolase From E.Coli
pdb|1E9I|B Chain B, Enolase From E.Coli
pdb|1E9I|C Chain C, Enolase From E.Coli
Length = 431
Score = 26.6 bits (57), Expect = 2.0
Identities = 25/107 (23%), Positives = 44/107 (40%), Gaps = 15/107 (14%)
Query: 43 GKILICGNGGSASDAQ---HFAAELTGRYK-------LERKGLSAISLNTDI--SALTAI 90
GK ++ G G A ++ HF ELT +Y L+ + T + + +
Sbjct: 255 GKYVLAGEGNKAFTSEEFTHFLEELTKQYPIVSIEDGLDESDWDGFAYQTKVLGDKIQLV 314
Query: 91 ANDYGYE--EVFARQVEALGVKNDVLIGISTSGNSKNVLKAYEKAKD 135
+D ++ +E G+ N +LI + G+ L A + AKD
Sbjct: 315 GDDLFVTNTKILKEGIEK-GIANSILIKFNQIGSLTETLAAIKMAKD 360
>pdb|1H5S|C Chain C, Thymidylyltransferase Complexed With Tmp
Length = 586
Score = 26.6 bits (57), Expect = 2.0
Identities = 38/142 (26%), Positives = 56/142 (38%), Gaps = 27/142 (19%)
Query: 49 GNGGSASDAQHFAAELTGRYKLE---------RKGLSAISLNTDISALTAIANDYG-YEE 98
G S +A +F A + R L+ RKG + + A+ I N+YG Y
Sbjct: 228 GTHQSLIEASNFIATIEERQGLKVSCPEEIAFRKGFIDVEQVRKL-AVPLIKNNYGQYLY 286
Query: 99 VFARQVEALGVKNDVLIGIS-------TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDGGK 150
+ K +L G S T SK +L Y+K + TL LAG
Sbjct: 287 KMTKDSNMKMRKGIILAGGSGTRLYPVTMAVSKQLLPIYDKPMIYYPLSTLMLAG----- 341
Query: 151 MKPLSDMALIVPSDDTPRIQEM 172
+ D+ +I DTPR Q++
Sbjct: 342 ---IRDILIISTPQDTPRFQQL 360
Score = 25.4 bits (54), Expect = 4.4
Identities = 18/55 (32%), Positives = 26/55 (46%), Gaps = 9/55 (16%)
Query: 119 TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDGGKMKPLSDMALIVPSDDTPRIQEM 172
T SK +L Y+K + TL LAG + D+ +I DTPR Q++
Sbjct: 21 TMAVSKQLLPIYDKPMIYYPLSTLMLAG--------IRDILIISTPQDTPRFQQL 67
>pdb|1H5S|B Chain B, Thymidylyltransferase Complexed With Tmp
Length = 586
Score = 25.8 bits (55), Expect = 3.4
Identities = 38/144 (26%), Positives = 59/144 (40%), Gaps = 31/144 (21%)
Query: 49 GNGGSASDAQHFAAELTGRYKLE---------RKGLSAISLNTDISALTAIANDYGYEEV 99
G S +A +F A + R L+ RKG + + A+ I N+YG +
Sbjct: 228 GTHQSLIEASNFIATIEERQGLKVSCPEEIAFRKGFIDVEQVRKL-AVPLIKNNYG--QY 284
Query: 100 FARQVEALGVK---NDVLIGIS-------TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDG 148
+Q + +K +L G S T SK +L Y+K + TL LAG
Sbjct: 285 LYKQTKDSNMKMRKGIILAGGSGTRLYPVTMAVSKQLLPIYDKPMIYYPLSTLMLAG--- 341
Query: 149 GKMKPLSDMALIVPSDDTPRIQEM 172
+ D+ +I DTPR Q++
Sbjct: 342 -----IRDILIISTPQDTPRFQQL 360
Score = 25.4 bits (54), Expect = 4.4
Identities = 18/55 (32%), Positives = 26/55 (46%), Gaps = 9/55 (16%)
Query: 119 TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDGGKMKPLSDMALIVPSDDTPRIQEM 172
T SK +L Y+K + TL LAG + D+ +I DTPR Q++
Sbjct: 21 TMAVSKQLLPIYDKPMIYYPLSTLMLAG--------IRDILIISTPQDTPRFQQL 67
>pdb|1DJ3|A Chain A, Structures Of Adenylosuccinate Synthetase From Triticum
Aestivum And Arabidopsis Thaliana
pdb|1DJ3|B Chain B, Structures Of Adenylosuccinate Synthetase From Triticum
Aestivum And Arabidopsis Thaliana
Length = 442
Score = 25.8 bits (55), Expect = 3.4
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 15 EALEKSLEGLQEALKQSVHLLIETLENQGKILICGNGGSAS 55
E +K E L+ + +VH+L E++ + KIL+ GG A+
Sbjct: 205 ERYKKFAERLEPFIADTVHVLNESIRQKKKILV--EGGQAT 243
>pdb|1C7B|B Chain B, Deoxy Rhb1.0 (Recombinant Hemoglobin)
pdb|1C7B|D Chain D, Deoxy Rhb1.0 (Recombinant Hemoglobin)
pdb|1C7C|B Chain B, Deoxy Rhb1.1 (Recombinant Hemoglobin)
pdb|1C7C|D Chain D, Deoxy Rhb1.1 (Recombinant Hemoglobin)
pdb|1C7D|B Chain B, Deoxy Rhb1.2 (Recombinant Hemoglobin)
pdb|1C7D|D Chain D, Deoxy Rhb1.2 (Recombinant Hemoglobin)
pdb|1ABW|B Chain B, Deoxy Rhb1.1 (Recombinant Hemoglobin)
pdb|1ABW|D Chain D, Deoxy Rhb1.1 (Recombinant Hemoglobin)
pdb|1ABY|B Chain B, Cyanomet Rhb1.1 (Recombinant Hemoglobin)
pdb|1ABY|D Chain D, Cyanomet Rhb1.1 (Recombinant Hemoglobin)
Length = 146
Score = 25.4 bits (54), Expect = 4.4
Identities = 17/55 (30%), Positives = 24/55 (42%), Gaps = 6/55 (10%)
Query: 11 LAHKEALEKSLEGLQEALKQSVHLLIETLENQGKILICGNGGSASDAQHFAAELT 65
LAH + L+ + L E +H+ E GK+L+C A HF E T
Sbjct: 75 LAHLDNLKGTFATLSELHCDKLHVDPENFRLLGKVLVC------VLAHHFGKEFT 123
>pdb|1H5T|B Chain B, Thymidylyltransferase Complexed With
Thymidylyldiphosphate-Glucose
pdb|1H5R|B Chain B, Thymidylyltransferase Complexed With Thimidine And
Glucose-1-Phospate
Length = 293
Score = 25.4 bits (54), Expect = 4.4
Identities = 18/55 (32%), Positives = 26/55 (46%), Gaps = 9/55 (16%)
Query: 119 TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDGGKMKPLSDMALIVPSDDTPRIQEM 172
T SK +L Y+K + TL LAG + D+ +I DTPR Q++
Sbjct: 21 TMAVSKQLLPIYDKPMIYYPLSTLMLAG--------IRDILIISTPQDTPRFQQL 67
>pdb|1PGJ|A Chain A, X-Ray Structure Of 6-Phosphogluconate Dehydrogenase From
The Protozoan Parasite T. Brucei
pdb|1PGJ|B Chain B, X-Ray Structure Of 6-Phosphogluconate Dehydrogenase From
The Protozoan Parasite T. Brucei
Length = 478
Score = 25.4 bits (54), Expect = 4.4
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 104 VEALGVKNDVLIGISTSGNSKNVLKAYEKAKDLEMKTLSLAGRDG 148
+ A+G+ ND + + SKN LK+Y D+ + +DG
Sbjct: 206 LRAMGLNNDEVAAVLEDWKSKNFLKSY--MLDISIAAARAKDKDG 248
>pdb|1H5S|D Chain D, Thymidylyltransferase Complexed With Tmp
Length = 293
Score = 25.4 bits (54), Expect = 4.4
Identities = 18/55 (32%), Positives = 26/55 (46%), Gaps = 9/55 (16%)
Query: 119 TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDGGKMKPLSDMALIVPSDDTPRIQEM 172
T SK +L Y+K + TL LAG + D+ +I DTPR Q++
Sbjct: 21 TMAVSKQLLPIYDKPMIYYPLSTLMLAG--------IRDILIISTPQDTPRFQQL 67
>pdb|1H5T|C Chain C, Thymidylyltransferase Complexed With
Thymidylyldiphosphate-Glucose
pdb|1H5T|D Chain D, Thymidylyltransferase Complexed With
Thymidylyldiphosphate-Glucose
pdb|1H5R|A Chain A, Thymidylyltransferase Complexed With Thimidine And
Glucose-1-Phospate
pdb|1H5T|A Chain A, Thymidylyltransferase Complexed With
Thymidylyldiphosphate-Glucose
pdb|1H5R|C Chain C, Thymidylyltransferase Complexed With Thimidine And
Glucose-1-Phospate
pdb|1H5R|D Chain D, Thymidylyltransferase Complexed With Thimidine And
Glucose-1-Phospate
Length = 293
Score = 25.4 bits (54), Expect = 4.4
Identities = 18/55 (32%), Positives = 26/55 (46%), Gaps = 9/55 (16%)
Query: 119 TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDGGKMKPLSDMALIVPSDDTPRIQEM 172
T SK +L Y+K + TL LAG + D+ +I DTPR Q++
Sbjct: 21 TMAVSKQLLPIYDKPMIYYPLSTLMLAG--------IRDILIISTPQDTPRFQQL 67
>pdb|1H5S|A Chain A, Thymidylyltransferase Complexed With Tmp
Length = 293
Score = 25.4 bits (54), Expect = 4.4
Identities = 18/55 (32%), Positives = 26/55 (46%), Gaps = 9/55 (16%)
Query: 119 TSGNSKNVLKAYEKAKDL-EMKTLSLAGRDGGKMKPLSDMALIVPSDDTPRIQEM 172
T SK +L Y+K + TL LAG + D+ +I DTPR Q++
Sbjct: 21 TMAVSKQLLPIYDKPMIYYPLSTLMLAG--------IRDILIISTPQDTPRFQQL 67
>pdb|1EP7|A Chain A, Crystal Structure Of Wt Thioredoxin H From Chlamydomonas
Reinhardtii
pdb|1EP7|B Chain B, Crystal Structure Of Wt Thioredoxin H From Chlamydomonas
Reinhardtii
pdb|1TOF| Thioredoxin H (Oxidized Form), Nmr, 23 Structures
Length = 112
Score = 25.0 bits (53), Expect = 5.8
Identities = 15/41 (36%), Positives = 20/41 (48%)
Query: 78 ISLNTDISALTAIANDYGYEEVFARQVEALGVKNDVLIGIS 118
I L D+ A+ A+A G + V GVK D L+G S
Sbjct: 58 IFLKVDVDAVAAVAEAAGITAMPTFHVYKDGVKADDLVGAS 98
>pdb|1EP8|A Chain A, Crystal Structure Of A Mutated Thioredoxin, D30a, From
Chlamydomonas Reinhardtii
pdb|1EP8|B Chain B, Crystal Structure Of A Mutated Thioredoxin, D30a, From
Chlamydomonas Reinhardtii
Length = 112
Score = 25.0 bits (53), Expect = 5.8
Identities = 15/41 (36%), Positives = 20/41 (48%)
Query: 78 ISLNTDISALTAIANDYGYEEVFARQVEALGVKNDVLIGIS 118
I L D+ A+ A+A G + V GVK D L+G S
Sbjct: 58 IFLKVDVDAVAAVAEAAGITAMPTFHVYKDGVKADDLVGAS 98
>pdb|1J5X|A Chain A, Crystal Structure Of Conserved Hypothetical Protein
(Tm0813) From Thermotoga Maritima At 1.8 A Resolution
Length = 342
Score = 25.0 bits (53), Expect = 5.8
Identities = 12/45 (26%), Positives = 23/45 (50%)
Query: 118 STSGNSKNVLKAYEKAKDLEMKTLSLAGRDGGKMKPLSDMALIVP 162
S +GN+ VL A + K +T+ + + ++ SD+ L+ P
Sbjct: 108 SRTGNTTEVLLANDVLKKRNHRTIGITIEEESRLAKESDLPLVFP 152
>pdb|1CMY|B Chain B, Hemoglobin Ypsilanti (Carbon Monoxy Form)
pdb|1CMY|D Chain D, Hemoglobin Ypsilanti (Carbon Monoxy Form)
Length = 146
Score = 24.6 bits (52), Expect = 7.5
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 6/55 (10%)
Query: 11 LAHKEALEKSLEGLQEALKQSVHLLIETLENQGKILICGNGGSASDAQHFAAELT 65
LAH + L+ + L E +H+ E G +L+C A HF E T
Sbjct: 75 LAHLDNLKGTFATLSELHCDKLHVYPENFRLLGNVLVC------VLAHHFGKEFT 123
>pdb|1GW5|A Chain A, Ap2 Clathrin Adaptor Core
Length = 621
Score = 24.6 bits (52), Expect = 7.5
Identities = 33/140 (23%), Positives = 57/140 (40%), Gaps = 35/140 (25%)
Query: 9 EFLAHKE------ALEK-----SLEGLQEALKQSVHLLIETLENQGKILICGNGGSA--- 54
+FL H+E ALE S E EA+K + +I L+ + + +
Sbjct: 336 QFLQHRETNLRYLALESMCTLASSEFSHEAVKTHIETVINALKTERDVSVRQRAVDLLYA 395
Query: 55 ----SDAQHFAAEL-----TGRYKLERKGLSAISLNTD------------ISALTAIAND 93
S+AQ AE+ T Y + + + +++ + I L IA D
Sbjct: 396 MCDRSNAQQIVAEMLSYLETADYSIREEIVLKVAILAEKYAVDYTWYVDTILNLIRIAGD 455
Query: 94 YGYEEVFARQVEALGVKNDV 113
Y EEV+ R ++ + ++DV
Sbjct: 456 YVSEEVWYRVIQIVINRDDV 475
>pdb|1L8A|A Chain A, E. Coli Pyruvate Dehydrogenase
pdb|1L8A|B Chain B, E. Coli Pyruvate Dehydrogenase
Length = 886
Score = 24.3 bits (51), Expect = 9.8
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 22 EGLQEALKQSVHLLIETLE-NQGKILICGNGGSASDAQHFAAELTGRY 68
EG +E +++ ++ L ET+E ++GK+ + G+G + A L Y
Sbjct: 703 EGAEEGIRKGIYKL-ETIEGSKGKVQLLGSGSILRHVREAAEILAKDY 749
>pdb|1BUW|B Chain B, Crystal Structure Of S-Nitroso-Nitrosyl Human Hemoglobin A
pdb|1BUW|D Chain D, Crystal Structure Of S-Nitroso-Nitrosyl Human Hemoglobin A
Length = 146
Score = 24.3 bits (51), Expect = 9.8
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 6/55 (10%)
Query: 11 LAHKEALEKSLEGLQEALKQSVHLLIETLENQGKILICGNGGSASDAQHFAAELT 65
LAH + L+ + L E +H+ E G +L+C A HF E T
Sbjct: 75 LAHLDNLKGTFATLSELHXDKLHVDPENFRLLGNVLVC------VLAHHFGKEFT 123
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
0.316 0.134 0.367
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,029,367
Number of Sequences: 13198
Number of extensions: 39659
Number of successful extensions: 115
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 103
Number of HSP's gapped (non-prelim): 24
length of query: 192
length of database: 2,899,336
effective HSP length: 83
effective length of query: 109
effective length of database: 1,803,902
effective search space: 196625318
effective search space used: 196625318
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)