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|15644635|ref|NP_206803.1| hypothetical protein
[Helicobacter pylori 26695]
(138 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|1BAQ| Antitermination Factor Nusb From Escherichia Co... 69 3e-13
pdb|1EYV|B Chain B, The Crystal Structure Of Nusb From Myco... 58 4e-10
pdb|1JXA|A Chain A, Glucosamine 6-Phosphate Synthase With G... 29 0.17
pdb|1GDO|B Chain B, Glutaminase Domain Of Glucosamine 6-Pho... 29 0.17
pdb|1RPX|A Chain A, D-Ribulose-5-Phosphate 3-Epimerase From... 26 1.9
pdb|1KSI|A Chain A, Crystal Structure Of A Eukaryotic (Pea ... 25 2.5
pdb|1EZV|A Chain A, Structure Of The Yeast Cytochrome Bc1 C... 25 2.5
pdb|1KB9|A Chain A, Yeast Cytochrome Bc1 Complex 25 2.5
pdb|1QQR|C Chain C, Crystal Structure Of Streptokinase Doma... 24 5.5
pdb|1EOV|A Chain A, Free Aspartyl-Trna Synthetase (Asprs) (... 24 5.5
pdb|1G61|A Chain A, Crystal Structure Of M.Jannaschii Eif6 ... 24 5.5
pdb|1ASZ|A Chain A, Aspartyl Trna Synthetase (Asprs) (E.C.6... 24 5.5
pdb|1JWH|A Chain A, Crystal Structure Of Human Protein Kina... 24 5.5
pdb|1RPR|A Chain A, Rop (Repressor Of Primer) (Nmr, 10 Stru... 24 7.2
pdb|1LDJ|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxsk... 24 7.2
pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxsk... 24 7.2
pdb|1C4P|A Chain A, Beta Domain Of Streptokinase >gi|643573... 23 9.3
pdb|1BML|C Chain C, Complex Of The Catalytic Domain Of Huma... 23 9.3
pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product ... 23 9.3
>pdb|1BAQ| Antitermination Factor Nusb From Escherichia Coli, Nmr, 18
Structures
pdb|1EY1|A Chain A, Solution Structure Of Escherichia Coli Nusb
Length = 139
Score = 68.6 bits (166), Expect = 3e-13
Identities = 39/126 (30%), Positives = 67/126 (52%), Gaps = 2/126 (1%)
Query: 2 ATRTQARGAVVELLYAFESGNEEIKKIASSMLEEKKIKNNQLAFALSLFNGVLEKINEID 61
A R +AR V+ LY+++ +I + L E+ +K+ + + L GV +D
Sbjct: 4 AARRRARECAVQALYSWQLSQNDIADVEYQFLAEQDVKDVDVLYFRELLAGVATNTAYLD 63
Query: 62 ALIEPHLKDWDFKRLGSMEKAILRLGAYEIGF-TPTQNPIIINECIELGKLYAEPNTPKF 120
L++P+L + LG +EKA+LR+ YE+ + + INE IEL K + ++ KF
Sbjct: 64 GLMKPYLSRL-LEELGQVEKAVLRIALYELSKRSDVPYKVAINEAIELAKSFGAEDSHKF 122
Query: 121 LNAILD 126
+N +LD
Sbjct: 123 VNGVLD 128
>pdb|1EYV|B Chain B, The Crystal Structure Of Nusb From Mycobacterium
Tuberculosis
pdb|1EYV|A Chain A, The Crystal Structure Of Nusb From Mycobacterium
Tuberculosis
Length = 156
Score = 57.8 bits (138), Expect = 4e-10
Identities = 36/126 (28%), Positives = 63/126 (49%), Gaps = 4/126 (3%)
Query: 4 RTQARGAVVELLYAFESGN---EEIKKIASSMLEEKKIKNNQLAFALSLFNGVLEKINEI 60
R QAR V LL+ E E+ +++ E K + ++ GV E I
Sbjct: 10 RHQARKRAVALLFEAEVRGISAAEVVDTRAALAEAKPDIARLHPYTAAVARGVSEHAAHI 69
Query: 61 DALIEPHLKDWDFKRLGSMEKAILRLGAYE-IGFTPTQNPIIINECIELGKLYAEPNTPK 119
D LI HL+ W RL ++++AILR+ +E + P++++E ++L K + ++P
Sbjct: 70 DDLITAHLRGWTLDRLPAVDRAILRVSVWELLHAADVPEPVVVDEAVQLAKELSTDDSPG 129
Query: 120 FLNAIL 125
F+N +L
Sbjct: 130 FVNGVL 135
>pdb|1JXA|A Chain A, Glucosamine 6-Phosphate Synthase With Glucose 6-Phosphate
pdb|1JXA|B Chain B, Glucosamine 6-Phosphate Synthase With Glucose 6-Phosphate
pdb|1JXA|C Chain C, Glucosamine 6-Phosphate Synthase With Glucose 6-Phosphate
Length = 608
Score = 29.3 bits (64), Expect = 0.17
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 5/48 (10%)
Query: 57 INEIDALIEPHLKDWDFKRLGSMEKAILRL-----GAYEIGFTPTQNP 99
++E D + HL +W+ K+ G++ +A+LR GAY +++P
Sbjct: 119 VSETDTEVIAHLVNWELKQGGTLREAVLRAIPQLRGAYGTVIMDSRHP 166
>pdb|1GDO|B Chain B, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With Glutamate
pdb|1GDO|D Chain D, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With Glutamate
pdb|1GMS|C Chain C, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With L-Glu Hydroxamate
pdb|1GMS|G Chain G, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With L-Glu Hydroxamate
pdb|1GDO|A Chain A, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With Glutamate
pdb|1GDO|C Chain C, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With Glutamate
pdb|1GMS|A Chain A, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With L-Glu Hydroxamate
pdb|1GMS|E Chain E, Glutaminase Domain Of Glucosamine 6-Phosphate Synthase
Complexed With L-Glu Hydroxamate
Length = 240
Score = 29.3 bits (64), Expect = 0.17
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 5/48 (10%)
Query: 57 INEIDALIEPHLKDWDFKRLGSMEKAILRL-----GAYEIGFTPTQNP 99
++E D + HL +W+ K+ G++ +A+LR GAY +++P
Sbjct: 119 VSETDTEVIAHLVNWELKQGGTLREAVLRAIPQLRGAYGTVIMDSRHP 166
>pdb|1RPX|A Chain A, D-Ribulose-5-Phosphate 3-Epimerase From Solanum Tuberosum
Chloroplasts
pdb|1RPX|B Chain B, D-Ribulose-5-Phosphate 3-Epimerase From Solanum Tuberosum
Chloroplasts
pdb|1RPX|C Chain C, D-Ribulose-5-Phosphate 3-Epimerase From Solanum Tuberosum
Chloroplasts
Length = 230
Score = 25.8 bits (55), Expect = 1.9
Identities = 22/94 (23%), Positives = 43/94 (45%), Gaps = 18/94 (19%)
Query: 54 LEKINEIDALIEPHLKDWDFKRLGSMEKAILRLGAYEI-------GFTP--TQNPIIINE 104
++K ++ D ++ P + +F +LG KAI + G I F P T P++++
Sbjct: 3 VDKFSKSDIIVSPSILSANFSKLGEQVKAIEQAGCDWIHVDVMDGRFVPNITIGPLVVDS 62
Query: 105 C-------IELGKLYAEPN--TPKFLNAILDSLS 129
+++ + EP+ P F+ A D +S
Sbjct: 63 LRPITDLPLDVHLMIVEPDQRVPDFIKAGADIVS 96
>pdb|1KSI|A Chain A, Crystal Structure Of A Eukaryotic (Pea Seedling)
Copper-Containing Amine Oxidase At 2.2a Resolution
pdb|1KSI|B Chain B, Crystal Structure Of A Eukaryotic (Pea Seedling)
Copper-Containing Amine Oxidase At 2.2a Resolution
Length = 642
Score = 25.4 bits (54), Expect = 2.5
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 70 DWDFKRLGSMEKAILRLGAYEIGFTPTQNPIIINECIELGKL 111
DW+FK GS++ +I G EI T ++ I E + GKL
Sbjct: 387 DWEFKASGSIKPSIALSGILEIKGTNIKHKDEIKEDLH-GKL 427
>pdb|1EZV|A Chain A, Structure Of The Yeast Cytochrome Bc1 Complex Co-
Crystallized With An Antibody Fv-Fragment
pdb|1KYO|A Chain A, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KYO|L Chain L, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
Length = 430
Score = 25.4 bits (54), Expect = 2.5
Identities = 23/79 (29%), Positives = 35/79 (44%), Gaps = 10/79 (12%)
Query: 12 VELLYAFESGNEEIKKIASSMLEEKKIKNNQLAFALSLFNGVLEKINEIDALIEPHLKDW 71
++L +ESGN A+ + E IK ++L+ E +IDA+ +K W
Sbjct: 345 LQLGQLYESGNPV--NDANLLGAEVLIKGSKLSLG--------EAFKKIDAITVKDVKAW 394
Query: 72 DFKRLGSMEKAILRLGAYE 90
KRL + AI G E
Sbjct: 395 AGKRLWDQDIAIAGTGQIE 413
>pdb|1KB9|A Chain A, Yeast Cytochrome Bc1 Complex
Length = 431
Score = 25.4 bits (54), Expect = 2.5
Identities = 23/79 (29%), Positives = 35/79 (44%), Gaps = 10/79 (12%)
Query: 12 VELLYAFESGNEEIKKIASSMLEEKKIKNNQLAFALSLFNGVLEKINEIDALIEPHLKDW 71
++L +ESGN A+ + E IK ++L+ E +IDA+ +K W
Sbjct: 346 LQLGQLYESGNPV--NDANLLGAEVLIKGSKLSLG--------EAFKKIDAITVKDVKAW 395
Query: 72 DFKRLGSMEKAILRLGAYE 90
KRL + AI G E
Sbjct: 396 AGKRLWDQDIAIAGTGQIE 414
>pdb|1QQR|C Chain C, Crystal Structure Of Streptokinase Domain B
pdb|1QQR|D Chain D, Crystal Structure Of Streptokinase Domain B
pdb|1QQR|A Chain A, Crystal Structure Of Streptokinase Domain B
pdb|1QQR|B Chain B, Crystal Structure Of Streptokinase Domain B
Length = 138
Score = 24.3 bits (51), Expect = 5.5
Identities = 9/31 (29%), Positives = 20/31 (64%)
Query: 37 KIKNNQLAFALSLFNGVLEKINEIDALIEPH 67
++KN + A+ ++ +G+ E+IN D + E +
Sbjct: 94 RVKNREQAYRINKKSGLNEEINNTDLISEKY 124
>pdb|1EOV|A Chain A, Free Aspartyl-Trna Synthetase (Asprs) (E.C. 6.1.1.12) From
Yeast
Length = 487
Score = 24.3 bits (51), Expect = 5.5
Identities = 24/114 (21%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 23 EEIKKIASSMLEEKKIKNNQLAFALSLFNGVLEKINEIDALIEPHLKDWDFKRL----GS 78
+E K +L ++ N + A F + ++ + I L++ + + K + GS
Sbjct: 30 DEAKDSDKEVLFRARVHNTRQQGATLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGS 89
Query: 79 M--EKAILRLGAYEIGFTPTQNPIIINECIELGKLYAEPNTPKFLNAILDSLSK 130
+ E +L G + P ++ + N I + K+Y TP+ L +L+ S+
Sbjct: 90 LNLESIVLVRGIVKKVDEPIKSATVQNLEIHITKIYTISETPEALPILLEDASR 143
>pdb|1G61|A Chain A, Crystal Structure Of M.Jannaschii Eif6
pdb|1G61|B Chain B, Crystal Structure Of M.Jannaschii Eif6
Length = 228
Score = 24.3 bits (51), Expect = 5.5
Identities = 15/50 (30%), Positives = 26/50 (52%)
Query: 22 NEEIKKIASSMLEEKKIKNNQLAFALSLFNGVLEKINEIDALIEPHLKDW 71
+EE+ +I + + E N ++ + + G L N+ ALI P LKD+
Sbjct: 78 DEELDRIKNFLKENNLDLNVEIIKSKNTALGNLILTNDKGALISPELKDF 127
>pdb|1ASZ|A Chain A, Aspartyl Trna Synthetase (Asprs) (E.C.6.1.1.12) Complexed
With Transfer Ribonucleic Acid (Trnaasp) And Atp
pdb|1ASZ|B Chain B, Aspartyl Trna Synthetase (Asprs) (E.C.6.1.1.12) Complexed
With Transfer Ribonucleic Acid (Trnaasp) And Atp
pdb|1ASY|A Chain A, Aspartyl Trna Synthetase (Asprs) (E.C.6.1.1.12) Complexed
With Transfer Ribonucleic Acid (Trnaasp)
pdb|1ASY|B Chain B, Aspartyl Trna Synthetase (Asprs) (E.C.6.1.1.12) Complexed
With Transfer Ribonucleic Acid (Trnaasp)
Length = 490
Score = 24.3 bits (51), Expect = 5.5
Identities = 24/114 (21%), Positives = 50/114 (43%), Gaps = 6/114 (5%)
Query: 23 EEIKKIASSMLEEKKIKNNQLAFALSLFNGVLEKINEIDALIEPHLKDWDFKRL----GS 78
+E K +L ++ N + A F + ++ + I L++ + + K + GS
Sbjct: 33 DEAKDSDKEVLFRARVHNTRQQGATLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGS 92
Query: 79 M--EKAILRLGAYEIGFTPTQNPIIINECIELGKLYAEPNTPKFLNAILDSLSK 130
+ E +L G + P ++ + N I + K+Y TP+ L +L+ S+
Sbjct: 93 LNLESIVLVRGIVKKVDEPIKSATVQNLEIHITKIYTISETPEALPILLEDASR 146
>pdb|1JWH|A Chain A, Crystal Structure Of Human Protein Kinase Ck2 Holoenzyme
pdb|1JWH|B Chain B, Crystal Structure Of Human Protein Kinase Ck2 Holoenzyme
Length = 337
Score = 24.3 bits (51), Expect = 5.5
Identities = 31/138 (22%), Positives = 59/138 (42%), Gaps = 18/138 (13%)
Query: 4 RTQARGAVVELLYAFE-SGNEEIKKIASSMLEEKKIKNNQLAFA--------LSLFNGVL 54
R RG E+ A + NE++ +++KKIK ++L + V
Sbjct: 43 RKLGRGKYSEVFEAINITNNEKVVVKILKPVKKKKIKREIKILENLRGGPNIITLADIVK 102
Query: 55 EKINEIDALIEPHLKDWDFKRLGSMEKAILRLGAYEIGFTPTQNPIIINECIELGKLYAE 114
+ ++ AL+ H+ + DFK+L L Y+I F + ++ C +G ++ +
Sbjct: 103 DPVSRTPALVFEHVNNTDFKQL------YQTLTDYDIRFYMYEILKALDYCHSMGIMHRD 156
Query: 115 PNTPKFLNAILDSLSKKL 132
K N ++D +KL
Sbjct: 157 ---VKPHNVMIDHEHRKL 171
>pdb|1RPR|A Chain A, Rop (Repressor Of Primer) (Nmr, 10 Structures)
pdb|1RPR|B Chain B, Rop (Repressor Of Primer) (Nmr, 10 Structures)
pdb|1ROP|A Chain A, Rop: ColE1 Repressor Of Primer
Length = 63
Score = 23.9 bits (50), Expect = 7.2
Identities = 12/31 (38%), Positives = 18/31 (57%)
Query: 32 MLEEKKIKNNQLAFALSLFNGVLEKINEIDA 62
M +++K N F S +LEK+NE+DA
Sbjct: 1 MTKQEKTALNMARFIRSQTLTLLEKLNELDA 31
>pdb|1LDJ|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 23.9 bits (50), Expect = 7.2
Identities = 18/81 (22%), Positives = 36/81 (44%), Gaps = 17/81 (20%)
Query: 15 LYAFESGNEEIKKIASSMLEEKKI--------------KNNQLAFALSLFNGVLEKINEI 60
+Y ES +E+ + +L EK + KN L +L + + + + E+
Sbjct: 261 VYLHESTQDELARKCEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGLGEL 320
Query: 61 DALIEPHLKDWDFKRLGSMEK 81
L+E H+ + + L ++EK
Sbjct: 321 KKLLETHIHN---QGLAAIEK 338
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 23.9 bits (50), Expect = 7.2
Identities = 18/81 (22%), Positives = 36/81 (44%), Gaps = 17/81 (20%)
Query: 15 LYAFESGNEEIKKIASSMLEEKKI--------------KNNQLAFALSLFNGVLEKINEI 60
+Y ES +E+ + +L EK + KN L +L + + + + E+
Sbjct: 263 VYLHESTQDELARKCEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGLGEL 322
Query: 61 DALIEPHLKDWDFKRLGSMEK 81
L+E H+ + + L ++EK
Sbjct: 323 KKLLETHIHN---QGLAAIEK 340
>pdb|1C4P|A Chain A, Beta Domain Of Streptokinase
pdb|1C4P|B Chain B, Beta Domain Of Streptokinase
pdb|1C4P|C Chain C, Beta Domain Of Streptokinase
pdb|1C4P|D Chain D, Beta Domain Of Streptokinase
Length = 137
Score = 23.5 bits (49), Expect = 9.3
Identities = 9/30 (30%), Positives = 19/30 (63%)
Query: 38 IKNNQLAFALSLFNGVLEKINEIDALIEPH 67
+KN + A+ ++ +G+ E+IN D + E +
Sbjct: 97 VKNREQAYEINKKSGLNEEINNTDLISEKY 126
>pdb|1BML|C Chain C, Complex Of The Catalytic Domain Of Human Plasmin And
Streptokinase
pdb|1BML|D Chain D, Complex Of The Catalytic Domain Of Human Plasmin And
Streptokinase
Length = 362
Score = 23.5 bits (49), Expect = 9.3
Identities = 9/30 (30%), Positives = 19/30 (63%)
Query: 38 IKNNQLAFALSLFNGVLEKINEIDALIEPH 67
+KN + A+ ++ +G+ E+IN D + E +
Sbjct: 234 VKNREQAYEINKKSGLNEEINNTDLISEKY 263
>pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product From E.Coli
pdb|1HRU|B Chain B, The Structure Of The Yrdc Gene Product From E.Coli
Length = 188
Score = 23.5 bits (49), Expect = 9.3
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 113 AEPNTPKFLNAILDSLSKKLTQKPL 137
A TP++L DSL+ ++T PL
Sbjct: 99 APATTPRWLTGRFDSLAVRVTDHPL 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 0.135 0.372
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 738,038
Number of Sequences: 13198
Number of extensions: 27597
Number of successful extensions: 81
Number of sequences better than 10.0: 19
Number of HSP's better than 10.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 65
Number of HSP's gapped (non-prelim): 19
length of query: 138
length of database: 2,899,336
effective HSP length: 79
effective length of query: 59
effective length of database: 1,856,694
effective search space: 109544946
effective search space used: 109544946
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: 49 (23.5 bits)