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|15646117|ref|NP_208299.1| ferrodoxin-like protein
[Helicobacter pylori 26695]
(458 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|1XER| Structure Of Ferredoxin 34 0.039
pdb|1H98|A Chain A, New Insights Into Thermostability Of Ba... 32 0.20
pdb|1JB0|C Chain C, Crystal Structure Of Photosystem I: A P... 31 0.25
pdb|1EU3|A Chain A, Crystal Structure Of The Superantigen S... 30 0.43
pdb|1KQF|B Chain B, Formate Dehydrogenase N From E. Coli >g... 30 0.74
pdb|1H7X|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) F... 30 0.74
pdb|1GTH|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) F... 30 0.74
pdb|1F6M|C Chain C, Crystal Structure Of A Complex Between ... 29 1.3
pdb|1K0T|A Chain A, Nmr Solution Structure Of Unbound, Oxid... 29 1.3
pdb|1HFE|L Chain L, 1.6 A Resolution Structure Of The Fe-On... 29 1.3
pdb|2TIR| Thioredoxin Mutant With Lys 36 Replaced By Glu ... 28 2.8
pdb|1XOB|A Chain A, Thioredoxin (Reduced Dithio Form), Nmr,... 28 2.8
pdb|1XOB| Thioredoxin (Reduced Dithio Form), Nmr, 20 Stru... 28 2.8
pdb|1CLF| Clostridium Pasteurianum Ferredoxin 27 3.7
pdb|1QUW|A Chain A, Solution Structure Of The Thioredoxin F... 27 6.3
pdb|1BLU| Structure Of The 2[4fe-4s] Ferredoxin From Chro... 27 6.3
pdb|1THO| Thioredoxin Mutant With Arg Inserted Between Gl... 27 6.3
>pdb|1XER| Structure Of Ferredoxin
Length = 103
Score = 33.9 bits (76), Expect = 0.039
Identities = 18/41 (43%), Positives = 23/41 (55%), Gaps = 5/41 (12%)
Query: 229 YNNQGHLFPLPPKKRSPENE--CVNCLHCVQVCP-THIDIR 266
Y+ GH P KK P NE C+ C+ CV VCP ID++
Sbjct: 63 YDTPGH--PASEKKADPVNEQACIFCMACVNVCPVAAIDVK 101
>pdb|1H98|A Chain A, New Insights Into Thermostability Of Bacterial
Ferredoxins: High Resolution Crystal Structure Of The
Seven-Iron Ferredoxin From Thermus Thermophilus
Length = 78
Score = 31.6 bits (70), Expect = 0.20
Identities = 18/51 (35%), Positives = 21/51 (40%), Gaps = 5/51 (9%)
Query: 255 CVQVCPTHIDIRKGLQL-----ECINCLECVDACTITMAKFNRPSLIQWSS 300
CV+VCP G Q ECI+C CV AC + QW S
Sbjct: 16 CVEVCPVECIYDGGDQFYIHPEECIDCGACVPACPVNAIYPEEDVPEQWKS 66
>pdb|1JB0|C Chain C, Crystal Structure Of Photosystem I: A Photosynthetic
Reaction Center And Core Antenna System From
Cyanobacteria
Length = 80
Score = 31.2 bits (69), Expect = 0.25
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 13/48 (27%)
Query: 249 CVNCLHCVQVCPTHI------DIRKGLQL-------ECINCLECVDAC 283
C+ C CV+ CPT + D K Q+ +C+ C C AC
Sbjct: 10 CIGCTQCVRACPTDVLEMVPWDGCKAGQIASSPRTEDCVGCKRCETAC 57
>pdb|1EU3|A Chain A, Crystal Structure Of The Superantigen Smez-2 (Zinc Bound)
From Streptococcus Pyogenes
pdb|1EU3|B Chain B, Crystal Structure Of The Superantigen Smez-2 (Zinc Bound)
From Streptococcus Pyogenes
pdb|1ET6|B Chain B, Crystal Structure Of The Superantigen Smez-2 From
Streptococcus Pyogenes
pdb|1ET6|A Chain A, Crystal Structure Of The Superantigen Smez-2 From
Streptococcus Pyogenes
Length = 210
Score = 30.4 bits (67), Expect = 0.43
Identities = 21/59 (35%), Positives = 31/59 (51%), Gaps = 5/59 (8%)
Query: 334 TSFKKERMLLDINRNSDLY--ELRSSGYVDNDYVFLFHNTDNKDHEFYFKVLGQKDIQI 390
+S+K R++ N NSD Y +L GY D + +F + DNK F +G DI+I
Sbjct: 153 SSYKSGRLVFHTNDNSDKYSFDLFYVGYRDKESIFKVYK-DNK--SFNIDKIGHLDIEI 208
>pdb|1KQF|B Chain B, Formate Dehydrogenase N From E. Coli
pdb|1KQG|B Chain B, Formate Dehydrogenase N From E. Coli
Length = 294
Score = 29.6 bits (65), Expect = 0.74
Identities = 16/67 (23%), Positives = 28/67 (40%), Gaps = 4/67 (5%)
Query: 249 CVNCLHCVQVCPTHIDIRKGLQLECINCLECVDACTITMAKFNRPSLIQWSSTNAINTRQ 308
C+ C +C+ CP +I C CVD ++ P+ ++ T AI+
Sbjct: 133 CIGCGYCIAGCPFNIPRLNKEDNRVYKCTLCVDRVSVG----QEPACVKTCPTGAIHFGT 188
Query: 309 KVHLVRL 315
K ++ L
Sbjct: 189 KKEMLEL 195
>pdb|1H7X|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And
5-Fluorouracil
pdb|1H7X|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And
5-Fluorouracil
pdb|1H7X|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And
5-Fluorouracil
pdb|1H7X|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex Of A Mutant Enzyme (C671a), Nadph And
5-Fluorouracil
Length = 1025
Score = 29.6 bits (65), Expect = 0.74
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 9/47 (19%)
Query: 242 KRSPENECVNCLHCVQVCPTHIDIR------KGLQLECINCLECVDA 282
KR+P+ NC HC ++ DI+ +G E + CL+C DA
Sbjct: 42 KRNPDK---NCFHCEKLENNFDDIKHTTLGERGALREAMRCLKCADA 85
Score = 26.2 bits (56), Expect = 8.2
Identities = 11/30 (36%), Positives = 15/30 (49%), Gaps = 5/30 (16%)
Query: 242 KRSPENECVNCLHCVQV-----CPTHIDIR 266
+R E + CL C CPTH+DI+
Sbjct: 69 ERGALREAMRCLKCADAPCQKSCPTHLDIK 98
>pdb|1GTH|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
pdb|1GTH|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
pdb|1H7W|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1H7W|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1GT8|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1H7W|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1H7W|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig
pdb|1GTH|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
pdb|1GTE|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
pdb|1GTH|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And 5-Iodouracil
pdb|1GT8|D Chain D, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1GTE|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
pdb|1GT8|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1GT8|C Chain C, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Ternary
Complex With Nadph And Uracil-4-Acetic Acid
pdb|1GTE|A Chain A, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
pdb|1GTE|B Chain B, Dihydropyrimidine Dehydrogenase (Dpd) From Pig, Binary
Complex With 5-Iodouracil
Length = 1025
Score = 29.6 bits (65), Expect = 0.74
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 9/47 (19%)
Query: 242 KRSPENECVNCLHCVQVCPTHIDIR------KGLQLECINCLECVDA 282
KR+P+ NC HC ++ DI+ +G E + CL+C DA
Sbjct: 42 KRNPDK---NCFHCEKLENNFDDIKHTTLGERGALREAMRCLKCADA 85
Score = 26.2 bits (56), Expect = 8.2
Identities = 11/30 (36%), Positives = 15/30 (49%), Gaps = 5/30 (16%)
Query: 242 KRSPENECVNCLHCVQV-----CPTHIDIR 266
+R E + CL C CPTH+DI+
Sbjct: 69 ERGALREAMRCLKCADAPCQKSCPTHLDIK 98
>pdb|1F6M|C Chain C, Crystal Structure Of A Complex Between Thioredoxin
Reductase, Thioredoxin, And The Nadp+ Analog, Aadp+
pdb|1F6M|D Chain D, Crystal Structure Of A Complex Between Thioredoxin
Reductase, Thioredoxin, And The Nadp+ Analog, Aadp+
pdb|1F6M|G Chain G, Crystal Structure Of A Complex Between Thioredoxin
Reductase, Thioredoxin, And The Nadp+ Analog, Aadp+
pdb|1F6M|H Chain H, Crystal Structure Of A Complex Between Thioredoxin
Reductase, Thioredoxin, And The Nadp+ Analog, Aadp+
Length = 108
Score = 28.9 bits (63), Expect = 1.3
Identities = 14/54 (25%), Positives = 24/54 (43%)
Query: 87 WCGWACPQTFLRVLYRDVIETKIFKLHKKISNKQESPKNTPSYKIRKVLSVLLF 140
W W P + + ++ + KL N ++P P Y IR + ++LLF
Sbjct: 28 WAEWCGPSKMIAPILDEIADEYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLF 81
>pdb|1K0T|A Chain A, Nmr Solution Structure Of Unbound, Oxidized Photosystem I
Subunit Psac, Containing [4fe-4s] Clusters Fa And Fb
Length = 80
Score = 28.9 bits (63), Expect = 1.3
Identities = 14/48 (29%), Positives = 20/48 (41%), Gaps = 13/48 (27%)
Query: 249 CVNCLHCVQVCPTHI------DIRKGLQL-------ECINCLECVDAC 283
C+ C CV+ CP + D K Q+ +C+ C C AC
Sbjct: 10 CIGCTQCVRACPLDVLEMVPWDGCKAGQIASSPRTEDCVGCKRCETAC 57
>pdb|1HFE|L Chain L, 1.6 A Resolution Structure Of The Fe-Only Hydrogenase From
Desulfovibrio Desulfuricans
pdb|1HFE|M Chain M, 1.6 A Resolution Structure Of The Fe-Only Hydrogenase From
Desulfovibrio Desulfuricans
Length = 421
Score = 28.9 bits (63), Expect = 1.3
Identities = 16/52 (30%), Positives = 21/52 (39%), Gaps = 21/52 (40%)
Query: 246 ENECVNCLHCVQVCPT--------------HIDIRKGLQLECINCLECVDAC 283
E +C+ C C Q CPT HI+ CINC +C+ C
Sbjct: 32 EAKCIGCDTCSQYCPTAAIFGEMGEPHSIPHIE-------ACINCGQCLTHC 76
>pdb|2TIR| Thioredoxin Mutant With Lys 36 Replaced By Glu (K36e)
Length = 108
Score = 27.7 bits (60), Expect = 2.8
Identities = 14/54 (25%), Positives = 24/54 (43%)
Query: 87 WCGWACPQTFLRVLYRDVIETKIFKLHKKISNKQESPKNTPSYKIRKVLSVLLF 140
W W P + + ++ + KL N ++P P Y IR + ++LLF
Sbjct: 28 WAEWCGPCEMIAPILDEIADEYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLF 81
>pdb|1XOB|A Chain A, Thioredoxin (Reduced Dithio Form), Nmr, 20 Structures
pdb|1XOA| Thioredoxin (Oxidized Disulfide Form), Nmr, 20 Structures
Length = 108
Score = 27.7 bits (60), Expect = 2.8
Identities = 14/54 (25%), Positives = 24/54 (43%)
Query: 87 WCGWACPQTFLRVLYRDVIETKIFKLHKKISNKQESPKNTPSYKIRKVLSVLLF 140
W W P + + ++ + KL N ++P P Y IR + ++LLF
Sbjct: 28 WAEWCGPCKMIAPILDEIADEYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLF 81
>pdb|1XOB| Thioredoxin (Reduced Dithio Form), Nmr, 20 Structures
pdb|2TRX|A Chain A, Thioredoxin
pdb|2TRX|B Chain B, Thioredoxin
pdb|1T7P|B Chain B, T7 Dna Polymerase Complexed To Dna PrimerTEMPLATE,A
Nucleoside Triphosphate, And Its Processivity Factor
Thioredoxin
Length = 108
Score = 27.7 bits (60), Expect = 2.8
Identities = 14/54 (25%), Positives = 24/54 (43%)
Query: 87 WCGWACPQTFLRVLYRDVIETKIFKLHKKISNKQESPKNTPSYKIRKVLSVLLF 140
W W P + + ++ + KL N ++P P Y IR + ++LLF
Sbjct: 28 WAEWCGPCKMIAPILDEIADEYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLF 81
>pdb|1CLF| Clostridium Pasteurianum Ferredoxin
Length = 55
Score = 27.3 bits (59), Expect = 3.7
Identities = 13/45 (28%), Positives = 21/45 (45%), Gaps = 7/45 (15%)
Query: 247 NECVNCLHCVQVCPTHIDIRKGLQL------ECINCLECVDACTI 285
+ CV+C C CP + I +G + CI+C C + C +
Sbjct: 6 DSCVSCGACASECPVNA-ISQGDSIFVIDADTCIDCGNCANVCPV 49
>pdb|1QUW|A Chain A, Solution Structure Of The Thioredoxin From Bacillus
Acidocaldarius
Length = 105
Score = 26.6 bits (57), Expect = 6.3
Identities = 12/54 (22%), Positives = 23/54 (42%)
Query: 87 WCGWACPQTFLRVLYRDVIETKIFKLHKKISNKQESPKNTPSYKIRKVLSVLLF 140
W W P + + + E K+ N E+P+ T + I + +++LF
Sbjct: 25 WAAWCGPCRMMAPVLEEFAEAHADKVTVAKLNVDENPETTSQFGIMSIPTLILF 78
>pdb|1BLU| Structure Of The 2[4fe-4s] Ferredoxin From Chromatium Vinosum
Length = 82
Score = 26.6 bits (57), Expect = 6.3
Identities = 16/51 (31%), Positives = 23/51 (44%), Gaps = 13/51 (25%)
Query: 247 NECVNCLHCVQVCP---------THIDIRKGLQLECINCLE---CVDACTI 285
+EC+NC C CP T++ I L EC+ E CV+ C +
Sbjct: 6 DECINCDVCEPECPNGAISQGDETYV-IEPSLCTECVGHYETSQCVEVCPV 55
>pdb|1THO| Thioredoxin Mutant With Arg Inserted Between Gly 33 And Pro 34
(33r34)
Length = 109
Score = 26.6 bits (57), Expect = 6.3
Identities = 15/54 (27%), Positives = 25/54 (45%), Gaps = 2/54 (3%)
Query: 87 WCGWACPQTFLRVLYRDVIETKIFKLHKKISNKQESPKNTPSYKIRKVLSVLLF 140
WCG C + + ++ + KL N ++P P Y IR + ++LLF
Sbjct: 31 WCGRPCKM--IAPILDEIADEYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLF 82
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
0.327 0.142 0.432
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,465,663
Number of Sequences: 13198
Number of extensions: 97542
Number of successful extensions: 332
Number of sequences better than 10.0: 17
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 307
Number of HSP's gapped (non-prelim): 31
length of query: 458
length of database: 2,899,336
effective HSP length: 91
effective length of query: 367
effective length of database: 1,698,318
effective search space: 623282706
effective search space used: 623282706
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (26.2 bits)