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|15645837|ref|NP_208015.1| hypothetical protein
[Helicobacter pylori 26695]
(110 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|1KER|B Chain B, The Crystal Structure Of Dtdp-D-Glucose... 28 0.19
pdb|1C25| Human Cdc25a Catalytic Domain 27 0.33
pdb|1VHR|A Chain A, Human Vh1-Related Dual-Specificity Phos... 27 0.43
pdb|1NF1|A Chain A, The Gap Related Domain Of Neurofibromin 25 0.95
pdb|1GCX|A Chain A, Crystal Structure Of Family B Dna Polym... 25 1.2
pdb|1FEU|D Chain D, Crystal Structure Of Ribosomal Protein ... 25 1.6
pdb|1KWP|A Chain A, Crystal Structure Of Mapkap2 >gi|241587... 24 2.8
pdb|1AQ0|A Chain A, Barley 1,3-1,4-Beta-Glucanase In Monocl... 24 2.8
pdb|1M7X|A Chain A, The X-Ray Crystallographic Structure Of... 23 3.6
pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog Fr... 23 3.6
pdb|1QD1|B Chain B, The Crystal Structure Of The Formiminot... 23 3.6
pdb|1C3R|A Chain A, Crystal Structure Of An Hdac Homolog Co... 23 3.6
pdb|1TGO|A Chain A, Thermostable B Type Dna Polymerase From... 23 4.7
pdb|1THF|D Chain D, Cyclase Subunit Of Imidazoleglycerolpho... 23 6.2
pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein... 23 6.2
pdb|1QO2|A Chain A, Crystal Structure Of N-((5'-Phosphoribo... 23 6.2
pdb|1GPW|C Chain C, Structural Evidence For Ammonia Tunneli... 23 6.2
pdb|1D5A|A Chain A, Crystal Structure Of An Archaebacterial... 22 8.0
pdb|1DJN|A Chain A, Structural And Biochemical Characteriza... 22 8.0
pdb|1AM4|A Chain A, Complex Between Cdc42hs.Gmppnp And P50 ... 22 8.0
pdb|1DJQ|A Chain A, Structural And Biochemical Characteriza... 22 8.0
pdb|2NGR|B Chain B, Transition State Complex For Gtp Hydrol... 22 8.0
pdb|1QQC|A Chain A, Crystal Structure Of An Archaebacterial... 22 8.0
pdb|1GRN|B Chain B, Crystal Structure Of The Cdc42CDC42GAPA... 22 8.0
pdb|1RGP| Gtpase-Activation Domain From Rhogap 22 8.0
>pdb|1KER|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-D-Glucose Bound
pdb|1KEP|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-Xylose Bound
pdb|1KEP|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-Xylose Bound
pdb|1KET|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Thymidine
Diphosphate Bound
pdb|1KET|B Chain B, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Thymidine
Diphosphate Bound
pdb|1KER|A Chain A, The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase
(Rmlb) From Streptococcus Suis With Dtdp-D-Glucose Bound
Length = 348
Score = 27.7 bits (60), Expect = 0.19
Identities = 17/46 (36%), Positives = 26/46 (55%), Gaps = 3/46 (6%)
Query: 45 EKLADFLSQHKDKKVLLHCRAG---RRALDAAKSMHELGYTPYYLE 87
E + + + Q KD + RAG R A+DA+K ELG+TP + +
Sbjct: 265 ELILEKMGQPKDAYDHVTDRAGHDLRYAIDASKLRDELGWTPQFTD 310
>pdb|1C25| Human Cdc25a Catalytic Domain
Length = 161
Score = 26.9 bits (58), Expect = 0.33
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 9/55 (16%)
Query: 16 DFIVVDVRELDEYEELHLPNATLISVNDQEKLADFL-------SQHKDKKVLLHC 63
+F+++D R EYE H+ A ++++ +E++ DFL + K V+ HC
Sbjct: 44 EFVIIDCRYPYEYEGGHIKGA--VNLHMEEEVEDFLLKKPIVPTDGKRVIVVFHC 96
>pdb|1VHR|A Chain A, Human Vh1-Related Dual-Specificity Phosphatase
pdb|1VHR|B Chain B, Human Vh1-Related Dual-Specificity Phosphatase
Length = 184
Score = 26.6 bits (57), Expect = 0.43
Identities = 12/25 (48%), Positives = 17/25 (68%), Gaps = 3/25 (12%)
Query: 45 EKLADFLSQ---HKDKKVLLHCRAG 66
E+ ADF+ Q K+ +VL+HCR G
Sbjct: 102 ERAADFIDQALAQKNGRVLVHCREG 126
>pdb|1NF1|A Chain A, The Gap Related Domain Of Neurofibromin
Length = 333
Score = 25.4 bits (54), Expect = 0.95
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 5/30 (16%)
Query: 42 NDQEKLADFLSQHKDKKVLLHCRAGRRALD 71
N+QEK+ +LS ++D K + GRR D
Sbjct: 295 NNQEKIGQYLSSNRDHKAV-----GRRPFD 319
>pdb|1GCX|A Chain A, Crystal Structure Of Family B Dna Polymerase From
Hyperthermophilic Archaeon Pyrococcus Kodakaraensis Kod1
Length = 774
Score = 25.0 bits (53), Expect = 1.2
Identities = 8/12 (66%), Positives = 11/12 (91%)
Query: 94 EKYGFRMVYDDT 105
EKYGF+++Y DT
Sbjct: 530 EKYGFKVIYSDT 541
>pdb|1FEU|D Chain D, Crystal Structure Of Ribosomal Protein Tl5, One Of The Ctc
Family Proteins, Complexed With A Fragment Of 5s Rrna.
pdb|1FEU|A Chain A, Crystal Structure Of Ribosomal Protein Tl5, One Of The Ctc
Family Proteins, Complexed With A Fragment Of 5s Rrna
Length = 206
Score = 24.6 bits (52), Expect = 1.6
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 5/50 (10%)
Query: 4 DYAISLEEVNFNDFIVVDVRELDEYEELH-----LPNATLISVNDQEKLA 48
D + + N +FI VDV L+ + LH LP ++V+ +E +A
Sbjct: 123 DILVKVSPRNIPEFIEVDVSGLEIGDSLHASDLKLPPGVELAVSPEETIA 172
>pdb|1KWP|A Chain A, Crystal Structure Of Mapkap2
pdb|1KWP|B Chain B, Crystal Structure Of Mapkap2
Length = 400
Score = 23.9 bits (50), Expect = 2.8
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 6/27 (22%)
Query: 81 YTPYYLEGNVYDFEKYGFRMVYDDTCD 107
YTPYY+ V EK YD +CD
Sbjct: 225 YTPYYVAPEVLGPEK------YDKSCD 245
>pdb|1AQ0|A Chain A, Barley 1,3-1,4-Beta-Glucanase In Monoclinic Space Group
pdb|1AQ0|B Chain B, Barley 1,3-1,4-Beta-Glucanase In Monoclinic Space Group
pdb|1GHR| 1,3-1,4-Beta-Glucanase (E.C.3.2.1.73) (1,3-1,4-Beta-D-Glucan
4-Glucanohydrolase, Isoenzyme E2)
Length = 306
Score = 23.9 bits (50), Expect = 2.8
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 75 SMHELGYTPYYLEGNVYDFEKYGFRMVYDDTCD 107
S ++GY + G V YG++ ++D T D
Sbjct: 180 SAMDMGYALFNASGTVVRDGAYGYQNLFDTTVD 212
>pdb|1M7X|A Chain A, The X-Ray Crystallographic Structure Of Branching Enzyme
pdb|1M7X|B Chain B, The X-Ray Crystallographic Structure Of Branching Enzyme
pdb|1M7X|C Chain C, The X-Ray Crystallographic Structure Of Branching Enzyme
pdb|1M7X|D Chain D, The X-Ray Crystallographic Structure Of Branching Enzyme
Length = 617
Score = 23.5 bits (49), Expect = 3.6
Identities = 10/19 (52%), Positives = 12/19 (62%)
Query: 74 KSMHELGYTPYYLEGNVYD 92
K+MHEL + PY E V D
Sbjct: 503 KAMHELDFDPYGFEWLVVD 521
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 23.5 bits (49), Expect = 3.6
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 12 VNFNDFIVVDVRELDEYEELHLPNATLISVNDQEKLADFLSQ 53
+N N+F+ + L+ +E+ P L+ + L D+LS+
Sbjct: 226 LNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSK 267
>pdb|1QD1|B Chain B, The Crystal Structure Of The Formiminotransferase Domain
Of Formiminotransferase-Cyclodeaminase.
pdb|1QD1|A Chain A, The Crystal Structure Of The Formiminotransferase Domain
Of Formiminotransferase-Cyclodeaminase
Length = 325
Score = 23.5 bits (49), Expect = 3.6
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 89 NVYDFEKYGFRMVYDDTC 106
N+ DFE G V+++TC
Sbjct: 236 NLLDFEVTGLHTVFEETC 253
>pdb|1C3R|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With
Trichostatin A
pdb|1C3R|B Chain B, Crystal Structure Of An Hdac Homolog Complexed With
Trichostatin A
pdb|1C3S|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With Saha
Length = 375
Score = 23.5 bits (49), Expect = 3.6
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 12 VNFNDFIVVDVRELDEYEELHLPNATLISVNDQEKLADFLSQ 53
+N N+F+ + L+ +E+ P L+ + L D+LS+
Sbjct: 226 LNDNEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSK 267
>pdb|1TGO|A Chain A, Thermostable B Type Dna Polymerase From Thermococcus
Gorgonarius
Length = 773
Score = 23.1 bits (48), Expect = 4.7
Identities = 9/22 (40%), Positives = 16/22 (71%), Gaps = 1/22 (4%)
Query: 85 YLEGNVYDFE-KYGFRMVYDDT 105
Y+E + + E K+GF+++Y DT
Sbjct: 520 YIETTIREIEEKFGFKVLYADT 541
>pdb|1THF|D Chain D, Cyclase Subunit Of Imidazoleglycerolphosphate Synthase
From Thermotoga Maritima
Length = 253
Score = 22.7 bits (47), Expect = 6.2
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 4 DYAISLEEVNFNDFIVVDVRELDEYEELHLPNATL 38
D A++ +F + +DVREL EY + H N L
Sbjct: 219 DAALAASVFHFRE---IDVRELKEYLKKHGVNVRL 250
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 22.7 bits (47), Expect = 6.2
Identities = 11/54 (20%), Positives = 26/54 (47%), Gaps = 2/54 (3%)
Query: 39 ISVNDQEKLADFLSQHKDKKV--LLHCRAGRRALDAAKSMHELGYTPYYLEGNV 90
+ VN+ E+ K+K+ L+ C+ R + A + ++G+ + G++
Sbjct: 219 VEVNENERFEALCRLLKNKEFYGLVFCKTKRDTKELASXLRDIGFKAGAIHGDL 272
>pdb|1QO2|A Chain A, Crystal Structure Of N-((5'-Phosphoribosyl)-Formimino)-5-
Aminoimidazol-4-Carboxamid Ribonucleotid Isomerase (Ec
3.1.3.15, Hisa)
pdb|1QO2|B Chain B, Crystal Structure Of N-((5'-Phosphoribosyl)-Formimino)-5-
Aminoimidazol-4-Carboxamid Ribonucleotid Isomerase (Ec
3.1.3.15, Hisa)
Length = 241
Score = 22.7 bits (47), Expect = 6.2
Identities = 14/48 (29%), Positives = 25/48 (51%), Gaps = 7/48 (14%)
Query: 45 EKLADFLSQHKDKKVLLHCRAGRRALDAAKSMHELGYTPYYLEGNVYD 92
EKL++F ++H + G R+LD A+ + +LGY + V +
Sbjct: 67 EKLSEF-AEH------IQIGGGIRSLDYAEKLRKLGYRRQIVSSKVLE 107
>pdb|1GPW|C Chain C, Structural Evidence For Ammonia Tunneling Across The
(BetaALPHA)8 BARREL OF THE IMIDAZOLE GLYCEROL PHOSPHATE
Synthase Bienzyme Complex.
pdb|1GPW|A Chain A, Structural Evidence For Ammonia Tunneling Across The
(BetaALPHA)8 BARREL OF THE IMIDAZOLE GLYCEROL PHOSPHATE
Synthase Bienzyme Complex.
pdb|1GPW|E Chain E, Structural Evidence For Ammonia Tunneling Across The
(BetaALPHA)8 BARREL OF THE IMIDAZOLE GLYCEROL PHOSPHATE
Synthase Bienzyme Complex
Length = 253
Score = 22.7 bits (47), Expect = 6.2
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 4 DYAISLEEVNFNDFIVVDVRELDEYEELHLPNATL 38
D A++ +F + +DVREL EY + H N L
Sbjct: 219 DAALAASVFHFRE---IDVRELKEYLKKHGVNVRL 250
>pdb|1D5A|A Chain A, Crystal Structure Of An Archaebacterial Dna Polymerase
D.Tok. Deposition Of Second Native Structure At 2.4
Angstro
Length = 733
Score = 22.3 bits (46), Expect = 8.0
Identities = 9/22 (40%), Positives = 16/22 (71%), Gaps = 1/22 (4%)
Query: 85 YLEGNVYDFE-KYGFRMVYDDT 105
Y+E + + E K+GF+++Y DT
Sbjct: 520 YIETTMREIEEKFGFKVLYADT 541
>pdb|1DJN|A Chain A, Structural And Biochemical Characterization Of Recombinant
Wild Type Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|1DJN|B Chain B, Structural And Biochemical Characterization Of Recombinant
Wild Type Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|2TMD|A Chain A, Trimethylamine Dehydrogenase (E.C.1.5.99.7)
pdb|2TMD|B Chain B, Trimethylamine Dehydrogenase (E.C.1.5.99.7)
Length = 729
Score = 22.3 bits (46), Expect = 8.0
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 53 QHKDKKVLLHCRAGRRALDAAKSMHELGYT 82
Q K+K +L AG +AA+ + E GYT
Sbjct: 385 QTKNKDSVLIVGAGPSGSEAARVLMESGYT 414
>pdb|1AM4|A Chain A, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H.
Sapiens)
pdb|1AM4|B Chain B, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H.
Sapiens)
pdb|1AM4|C Chain C, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H.
Sapiens)
Length = 199
Score = 22.3 bits (46), Expect = 8.0
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 24 ELDEYEELHLPNATL 38
+ D+Y ELHLP L
Sbjct: 72 DFDQYNELHLPAVIL 86
>pdb|1DJQ|A Chain A, Structural And Biochemical Characterization Of Recombinant
C30a Mutant Of Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
pdb|1DJQ|B Chain B, Structural And Biochemical Characterization Of Recombinant
C30a Mutant Of Trimethylamine Dehydrogenase From
Methylophilus Methylotrophus (Sp. W3a1)
Length = 729
Score = 22.3 bits (46), Expect = 8.0
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 53 QHKDKKVLLHCRAGRRALDAAKSMHELGYT 82
Q K+K +L AG +AA+ + E GYT
Sbjct: 385 QTKNKDSVLIVGAGPSGSEAARVLMESGYT 414
>pdb|2NGR|B Chain B, Transition State Complex For Gtp Hydrolysis By Cdc42:
Comparisons Of The High Resolution Structures For Cdc42
Bound To The Active And Catalytically Compromised Forms
Of The Cdc42-Gap
Length = 234
Score = 22.3 bits (46), Expect = 8.0
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 24 ELDEYEELHLPNATL 38
+ D+Y ELHLP L
Sbjct: 99 DFDQYNELHLPAVIL 113
>pdb|1QQC|A Chain A, Crystal Structure Of An Archaebacterial Dna Polymerase
D.Tok
Length = 773
Score = 22.3 bits (46), Expect = 8.0
Identities = 9/22 (40%), Positives = 16/22 (71%), Gaps = 1/22 (4%)
Query: 85 YLEGNVYDFE-KYGFRMVYDDT 105
Y+E + + E K+GF+++Y DT
Sbjct: 520 YIETTMREIEEKFGFKVLYADT 541
>pdb|1GRN|B Chain B, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX
Length = 203
Score = 22.3 bits (46), Expect = 8.0
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 24 ELDEYEELHLPNATL 38
+ D+Y ELHLP L
Sbjct: 68 DFDQYNELHLPAVIL 82
>pdb|1RGP| Gtpase-Activation Domain From Rhogap
Length = 242
Score = 22.3 bits (46), Expect = 8.0
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 24 ELDEYEELHLPNATL 38
+ D+Y ELHLP L
Sbjct: 107 DFDQYNELHLPAVIL 121
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
0.319 0.139 0.402
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 673,029
Number of Sequences: 13198
Number of extensions: 24837
Number of successful extensions: 70
Number of sequences better than 10.0: 25
Number of HSP's better than 10.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 51
Number of HSP's gapped (non-prelim): 26
length of query: 110
length of database: 2,899,336
effective HSP length: 86
effective length of query: 24
effective length of database: 1,764,308
effective search space: 42343392
effective search space used: 42343392
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)