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|15645854|ref|NP_208032.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(190 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|1EX2|A Chain A, Crystal Structure Of Bacillus Subtilis ... 40 2e-04
pdb|1G64|B Chain B, The Three-Dimensional Structure Of Atp:... 35 0.007
pdb|1G5R|A Chain A, The Three-Dimensional Structure Of Atp:... 32 0.046
pdb|1IRU|D Chain D, Crystal Structure Of The Mammalian 20s ... 30 0.23
pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNAR... 27 1.5
pdb|1B8I|B Chain B, Structure Of The Homeotic UbxEXDDNA TER... 26 2.5
pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx... 26 3.3
pdb|1KEW|A Chain A, The Crystal Structure Of Dtdp-D-Glucose... 25 5.7
pdb|1LP3|A Chain A, The Atomic Structure Of Adeno-Associate... 25 5.7
pdb|1DL6|A Chain A, Solution Structure Of Human Tfiib N-Ter... 25 5.7
pdb|1HBN|B Chain B, Methyl-Coenzyme M Reductase >gi|1582679... 25 7.4
pdb|1MGP|A Chain A, Hypothetical Protein Tm841 From Thermot... 24 9.7
>pdb|1EX2|A Chain A, Crystal Structure Of Bacillus Subtilis Maf Protein
pdb|1EX2|B Chain B, Crystal Structure Of Bacillus Subtilis Maf Protein
pdb|1EXC|A Chain A, Crystal Structure Of B. Subtilis Maf Protein Complexed
With D-(Utp)
pdb|1EXC|B Chain B, Crystal Structure Of B. Subtilis Maf Protein Complexed
With D-(Utp)
Length = 189
Score = 40.0 bits (92), Expect = 2e-04
Identities = 40/180 (22%), Positives = 74/180 (40%), Gaps = 1/180 (0%)
Query: 3 LILGSQSSTRANLLKEHGIKFEQKALYFDEESLKTTDPREFVYLACKGKLEKAKELLANN 62
LIL SQS R LL + + +E+ + P E V K K KA L +
Sbjct: 5 LILASQSPRRKELLDLLQLPYSIIVSEVEEKLNRNFSPEENVQWLAKQKA-KAVADLHPH 63
Query: 63 CAIVVADSVVSVGNRMQRKAKNKQEALEFLKRQNGHEIEVLTCSALISPVLEWLDLSVFR 122
++ AD++V + K ++++EA L+R +G V+T ++ +
Sbjct: 64 AIVIGADTMVCLDGECLGKPQDQEEAASMLRRLSGRSHSVITAVSIQAENHSETFYDKTE 123
Query: 123 ARLKAFDPSEIEKYLESGLWQESAGCVRLEDFHKPYIKSSSENLSVGLGLNVEGLLGALK 182
+ EI Y+E+ + AG ++ ++K + +GL + + AL+
Sbjct: 124 VAFWSLSEEEIWTYIETKEPMDKAGAYGIQGRGALFVKKIDGDYYSVMGLPISKTMRALR 183
>pdb|1G64|B Chain B, The Three-Dimensional Structure Of Atp:corrinoid
Adenosyltransferase From Salmonella Typhimurium.
CobalaminATP TERNARY COMPLEX
pdb|1G64|A Chain A, The Three-Dimensional Structure Of Atp:corrinoid
Adenosyltransferase From Salmonella Typhimurium.
CobalaminATP TERNARY COMPLEX
pdb|1G5T|A Chain A, The Three-Dimensional Structure Of Atp:corrinoid
Adenosyltransferase From Salmonella Typhimurium. Apo-Atp
Form
Length = 196
Score = 34.7 bits (78), Expect = 0.007
Identities = 34/131 (25%), Positives = 58/131 (43%), Gaps = 9/131 (6%)
Query: 1 MELILGSQSSTRANLLKEHGIKFEQKALYFDEESLKTTDPREFVYLACKGKLEKAKELLA 60
++ I G+ + NLL+ HG++F+ A F E T RE AC + K +LA
Sbjct: 62 VQFIKGTWPNGERNLLEPHGVEFQVMATGFTWE----TQNREADTAACMAVWQHGKRMLA 117
Query: 61 NNCA-IVVADSVVSVGNRMQRKAKNKQEALEFLKRQNGHEIEVLTCSALISPVLEWLD-L 118
+ +VV D + + + +E + L + GH+ ++T +L+ D +
Sbjct: 118 DPLLDMVVLDELTYM---VAYDYLPLEEVISALNARPGHQTVIITGRGCHRDILDLADTV 174
Query: 119 SVFRARLKAFD 129
S R AFD
Sbjct: 175 SELRPVKHAFD 185
>pdb|1G5R|A Chain A, The Three-Dimensional Structure Of Atp:corrinoid
Adenosyltransferase From Salmonella Typhimurium. Apo
Form
Length = 196
Score = 32.0 bits (71), Expect = 0.046
Identities = 34/132 (25%), Positives = 56/132 (41%), Gaps = 11/132 (8%)
Query: 1 MELILGSQSSTRANLLKEHGIKFEQKALYFDEESLKTTDPREFVYLACKGKLEKAKELLA 60
++ I G+ + NLL+ HG++F+ A F E T RE AC + K LA
Sbjct: 62 VQFIKGTWPNGERNLLEPHGVEFQVXATGFTWE----TQNREADTAACXAVWQHGKRXLA 117
Query: 61 NNCAIVVADSVV--SVGNRMQRKAKNKQEALEFLKRQNGHEIEVLTCSALISPVLEWLD- 117
+ + D VV + + +E + L + GH+ ++T +L+ D
Sbjct: 118 D----PLLDXVVLDELTYXVAYDYLPLEEVISALNARPGHQTVIITGRGCHRDILDLADT 173
Query: 118 LSVFRARLKAFD 129
+S R AFD
Sbjct: 174 VSELRPVKHAFD 185
>pdb|1IRU|D Chain D, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
pdb|1IRU|R Chain R, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
Length = 248
Score = 29.6 bits (65), Expect = 0.23
Identities = 24/71 (33%), Positives = 35/71 (48%), Gaps = 9/71 (12%)
Query: 76 NRMQRKAKNKQEALEFLKRQNGHEIEVLTCSALISPVLEW-------LDLSVFRA--RLK 126
N + R AK+ +E LE E + LT +I +LE ++L+V R LK
Sbjct: 159 NAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQSGGKNIELAVMRRDQSLK 218
Query: 127 AFDPSEIEKYL 137
+P EIEKY+
Sbjct: 219 ILNPEEIEKYV 229
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 26.9 bits (58), Expect = 1.5
Identities = 17/60 (28%), Positives = 30/60 (49%)
Query: 25 QKALYFDEESLKTTDPREFVYLACKGKLEKAKELLANNCAIVVADSVVSVGNRMQRKAKN 84
+K F++++ + + + +L+ E+AKE LA C I V+ GN+ R KN
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKN 62
>pdb|1B8I|B Chain B, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 63
Score = 26.2 bits (56), Expect = 2.5
Identities = 17/60 (28%), Positives = 29/60 (48%)
Query: 25 QKALYFDEESLKTTDPREFVYLACKGKLEKAKELLANNCAIVVADSVVSVGNRMQRKAKN 84
+K F +++ + + + +L+ E+AKE LA C I V+ GN+ R KN
Sbjct: 3 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYKKN 62
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 25.8 bits (55), Expect = 3.3
Identities = 14/32 (43%), Positives = 17/32 (52%)
Query: 53 EKAKELLANNCAIVVADSVVSVGNRMQRKAKN 84
E+AKE LA C I V+ GN+ R KN
Sbjct: 33 EEAKEELAKKCGITVSQVSNWFGNKRIRYKKN 64
>pdb|1KEW|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Salmonella Enterica Serovar Typhimurium With
Thymidine Diphosphate Bound
pdb|1KEW|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Salmonella Enterica Serovar Typhimurium With
Thymidine Diphosphate Bound
pdb|1KEU|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Salmonella Enterica Serovar Typhimurium With
Dtdp-D-Glucose Bound
pdb|1KEU|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Salmonella Enterica Serovar Typhimurium With
Dtdp-D-Glucose Bound
pdb|1G1A|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb)from Salmonella Enterica Serovar Typhimurium
pdb|1G1A|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb)from Salmonella Enterica Serovar Typhimurium
pdb|1G1A|C Chain C, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb)from Salmonella Enterica Serovar Typhimurium
pdb|1G1A|D Chain D, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb)from Salmonella Enterica Serovar Typhimurium
Length = 361
Score = 25.0 bits (53), Expect = 5.7
Identities = 15/62 (24%), Positives = 28/62 (44%), Gaps = 4/62 (6%)
Query: 81 KAKNKQEALEFLKRQNGHEIEVLTCSALISPVLEWLDLSVFRARLKAFDPSEIEKYLESG 140
KA + +E + ++ + GH+ + IS L W L F + ++ +E YL +
Sbjct: 283 KATSYREQITYVADRPGHDRRYAIDAGKISRELGWKPLETFESGIR----KTVEWYLANT 338
Query: 141 LW 142
W
Sbjct: 339 QW 340
>pdb|1LP3|A Chain A, The Atomic Structure Of Adeno-Associated Virus (Aav-2), A
Vector For Human Gene Therapy
Length = 519
Score = 25.0 bits (53), Expect = 5.7
Identities = 14/38 (36%), Positives = 20/38 (51%), Gaps = 7/38 (18%)
Query: 3 LILGSQSSTRANLLKEHGIKFEQKALYFDEESLKTTDP 40
LI G Q S + N+ E K + DEE ++TT+P
Sbjct: 324 LIFGKQGSEKTNVDIE-------KVMITDEEEIRTTNP 354
>pdb|1DL6|A Chain A, Solution Structure Of Human Tfiib N-Terminal Domain
Length = 58
Score = 25.0 bits (53), Expect = 5.7
Identities = 9/32 (28%), Positives = 19/32 (59%)
Query: 54 KAKELLANNCAIVVADSVVSVGNRMQRKAKNK 85
+A +++ C +VV D V+ VG+ + + +K
Sbjct: 27 RAGDMICPECGLVVGDRVIDVGSEWRTFSNDK 58
>pdb|1HBN|B Chain B, Methyl-Coenzyme M Reductase
pdb|1HBN|E Chain E, Methyl-Coenzyme M Reductase
pdb|1MRO|B Chain B, Methyl-Coenzyme M Reductase
pdb|1MRO|E Chain E, Methyl-Coenzyme M Reductase
pdb|1HBO|B Chain B, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
pdb|1HBO|E Chain E, Methyl-Coenzyme M Reductase Mcr-Red1-Silent
pdb|1HBM|B Chain B, Methyl-Coenzyme M Reductase Enzyme Product Complex
pdb|1HBM|E Chain E, Methyl-Coenzyme M Reductase Enzyme Product Complex
pdb|1HBU|B Chain B, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
In Complex With Coenzyme M
pdb|1HBU|E Chain E, Methyl-Coenzyme M Reductase In The Mcr-Red1-Silent State
In Complex With Coenzyme M
Length = 442
Score = 24.6 bits (52), Expect = 7.4
Identities = 15/52 (28%), Positives = 26/52 (49%), Gaps = 1/52 (1%)
Query: 132 EIEKYLESG-LWQESAGCVRLEDFHKPYIKSSSENLSVGLGLNVEGLLGALK 182
+++ Y + G L +E L P IKS + + + +N+EG+ ALK
Sbjct: 6 KVDLYDDRGNLVEEQVPLEALSPLRNPAIKSIVQGIKRTVAVNLEGIENALK 57
>pdb|1MGP|A Chain A, Hypothetical Protein Tm841 From Thermotoga Maritima
Reveals Fatty Acid Binding Function
Length = 313
Score = 24.3 bits (51), Expect = 9.7
Identities = 14/39 (35%), Positives = 19/39 (47%)
Query: 151 LEDFHKPYIKSSSENLSVGLGLNVEGLLGALKLGAKLSS 189
+EDF K Y+K E+ V L L + L A L+S
Sbjct: 93 VEDFKKRYLKYKEEDYDVVLVLTLSSKLSGTYNSAVLAS 131
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
0.315 0.133 0.369
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 985,257
Number of Sequences: 13198
Number of extensions: 36005
Number of successful extensions: 79
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 71
Number of HSP's gapped (non-prelim): 12
length of query: 190
length of database: 2,899,336
effective HSP length: 83
effective length of query: 107
effective length of database: 1,803,902
effective search space: 193017514
effective search space used: 193017514
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)