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|15645485|ref|NP_207660.1| transcription elongation
factor GreA (greA) [Helicobacter pylori 26695]
(164 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|1GRJ| Grea Transcript Cleavage Factor From Escherichi... 150 5e-38
pdb|1GII|A Chain A, Human Cyclin Dependent Kinase 2 Complex... 27 1.5
pdb|2POR| Porin (Crystal Form B) >gi|443479|pdb|3POR| Po... 26 2.6
pdb|1E1X|A Chain A, Human Cyclin Dependent Kinase 2 Complex... 25 3.4
pdb|1E9H|C Chain C, Thr 160 Phosphorylated Cdk2 - Human Cyc... 25 3.4
pdb|1JST|A Chain A, Phosphorylated Cyclin-Dependent Kinase-... 25 3.4
pdb|1GY3|A Chain A, Pcdk2CYCLIN A IN COMPLEX WITH MGADP, NI... 25 3.4
pdb|1KE5|A Chain A, Cdk2 Complexed With N-Methyl-4-{[(2-Oxo... 25 3.4
pdb|1H1P|A Chain A, Structure Of Human Thr160-Phospho Cdk2C... 25 3.4
pdb|2PIA| Phthalate Dioxygenase Reductase (E.C.1.18.1.) 25 5.8
>pdb|1GRJ| Grea Transcript Cleavage Factor From Escherichia Coli
Length = 158
Score = 150 bits (380), Expect = 5e-38
Identities = 79/157 (50%), Positives = 107/157 (67%), Gaps = 1/157 (0%)
Query: 1 MNKEPMSMHGYNKICAELKQLKEVERPNIVKEIDIARGHGDLKENAEYHAAKEKQRFIEA 60
M PM++ G K+ EL LK V RP I+ I AR HGDLKENAEYHAA+E+Q F E
Sbjct: 1 MQAIPMTLRGAEKLREELDFLKSVRRPEIIAAIAEAREHGDLKENAEYHAAREQQGFCEG 60
Query: 61 RIVDLSEIVANAQVIDPSALAHN-KVSFGSTIKILNLDNDKEFSYTIVGSVESDPAKGLI 119
RI D+ ++NAQVID + + +N +V FG+T+ +LNLD+D+E +Y IVG E+D + LI
Sbjct: 61 RIKDIEAKLSNAQVIDVTKMPNNGRVIFGATVTVLNLDSDEEQTYRIVGDDEADFKQNLI 120
Query: 120 SFGSPIAKSLIGKSKGDAVSIQLPNGESDFEILDIYY 156
S SPIA+ LIGK + D V I+ P GE +FE++ + Y
Sbjct: 121 SVNSPIARGLIGKEEDDVVVIKTPGGEVEFEVIKVEY 157
>pdb|1GII|A Chain A, Human Cyclin Dependent Kinase 2 Complexed With The Cdk4
Inhibitor
pdb|1GIJ|A Chain A, Human Cyclin Dependent Kinase 2 Complexed With The Cdk4
Inhibitor
Length = 298
Score = 26.6 bits (57), Expect = 1.5
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 17 ELKQLKEVERPNIVKEIDIARGHGDLKENAEYHAAKEKQRFIEA 60
E+ LKE+ PNIVK +D+ L E H ++ + F++A
Sbjct: 51 EISLLKELNHPNIVKLLDVIHTENKLYLVFE-HVHQDLKTFMDA 93
>pdb|2POR| Porin (Crystal Form B)
pdb|3POR| Porin (Crystal Form A')
Length = 301
Score = 25.8 bits (55), Expect = 2.6
Identities = 18/68 (26%), Positives = 34/68 (49%), Gaps = 6/68 (8%)
Query: 48 YHAAKEKQRFIEARIVDLSEIVANAQVIDPSALAHNKVS-FGST-----IKILNLDNDKE 101
Y+A E R + DL+ + A A +D A + S FG+T +++L++D +
Sbjct: 200 YYADGELDRDFARAVFDLTPVAAAATAVDHKAYGLSVDSTFGATTVGGYVQVLDIDTIDD 259
Query: 102 FSYTIVGS 109
+Y +G+
Sbjct: 260 VTYYGLGA 267
>pdb|1E1X|A Chain A, Human Cyclin Dependent Kinase 2 Complexed With The
Inhibitor Nu6027
pdb|1E1V|A Chain A, Human Cyclin Dependent Kinase 2 Complexed With The
Inhibitor Nu2058
pdb|1B38|A Chain A, Human Cyclin-Dependent Kinase 2
pdb|1B39|A Chain A, Human Cyclin-Dependent Kinase 2 Phosphorylated On Thr
160
Length = 299
Score = 25.4 bits (54), Expect = 3.4
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 17 ELKQLKEVERPNIVKEIDI 35
E+ LKE+ PNIVK +D+
Sbjct: 52 EISLLKELNHPNIVKLLDV 70
>pdb|1E9H|C Chain C, Thr 160 Phosphorylated Cdk2 - Human Cyclin A3 Complex
With The Inhibitor Indirubin-5-Sulphonate Bound
pdb|1E9H|A Chain A, Thr 160 Phosphorylated Cdk2 - Human Cyclin A3 Complex
With The Inhibitor Indirubin-5-Sulphonate Bound
Length = 297
Score = 25.4 bits (54), Expect = 3.4
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 17 ELKQLKEVERPNIVKEIDI 35
E+ LKE+ PNIVK +D+
Sbjct: 52 EISLLKELNHPNIVKLLDV 70
>pdb|1JST|A Chain A, Phosphorylated Cyclin-Dependent Kinase-2 Bound To Cyclin
A
pdb|1JST|C Chain C, Phosphorylated Cyclin-Dependent Kinase-2 Bound To Cyclin
A
pdb|1FQ1|B Chain B, Crystal Structure Of Kinase Associated Phosphatase (Kap)
In Complex With Phospho-Cdk2
pdb|1JSU|A Chain A, P27(Kip1)CYCLIN ACDK2 COMPLEX
Length = 298
Score = 25.4 bits (54), Expect = 3.4
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 17 ELKQLKEVERPNIVKEIDI 35
E+ LKE+ PNIVK +D+
Sbjct: 51 EISLLKELNHPNIVKLLDV 69
>pdb|1GY3|A Chain A, Pcdk2CYCLIN A IN COMPLEX WITH MGADP, NITRATE AND PEPTIDE
Substrate
pdb|1GY3|C Chain C, Pcdk2CYCLIN A IN COMPLEX WITH MGADP, NITRATE AND PEPTIDE
Substrate
pdb|1QMZ|A Chain A, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex
pdb|1QMZ|C Chain C, Phosphorylated Cdk2-Cyclyin A-Substrate Peptide Complex
Length = 299
Score = 25.4 bits (54), Expect = 3.4
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 17 ELKQLKEVERPNIVKEIDI 35
E+ LKE+ PNIVK +D+
Sbjct: 52 EISLLKELNHPNIVKLLDV 70
>pdb|1KE5|A Chain A, Cdk2 Complexed With N-Methyl-4-{[(2-Oxo-1,2-Dihydro-3h-
Indol-3-Ylidene)methyl]amino}benzenesulfonamide
pdb|1KE6|A Chain A, Cyclin-Dependent Kinase 2 (Cdk2) Complexed With
N-Methyl-{4-
[2-(7-Oxo-6,7-Dihydro-8h-[1,3]thiazolo[5,4-E]indol-8-
Ylidene)hydrazino]phenyl}methanesulfonamide
pdb|1KE7|A Chain A, Cyclin-Dependent Kinase 2 (Cdk2) Complexed With
3-{[(2,2-
Dioxido-1,
3-Dihydro-2-Benzothien-5-Yl)amino]methylene}-5-
(1,3-Oxazol-5-Yl)-1,3-Dihydro-2h-Indol-2-One
pdb|1KE8|A Chain A, Cyclin-Dependent Kinase 2 (Cdk2) Complexed With
4-{[(2-Oxo-
1,2-Dihydro-3h-Indol-3-Ylidene)methyl]amino}-N-(1,3-
Thiazol-2-Yl)benzenesulfonamide
pdb|1KE9|A Chain A, Cyclin-Dependent Kinase 2 (Cdk2) Complexed With 3-{[4-
({[amino(Imino)methyl]aminosulfonyl)anilino]methylene}-
2- Oxo-2,3-Dihydro-1h-Indole
pdb|1FIN|A Chain A, Cyclin A - Cyclin-Dependent Kinase 2 Complex
pdb|1FIN|C Chain C, Cyclin A - Cyclin-Dependent Kinase 2 Complex
pdb|1FVV|C Chain C, The Structure Of Cdk2CYCLIN A IN COMPLEX WITH AN
OXINDOLE Inhibitor
pdb|1FVV|A Chain A, The Structure Of Cdk2CYCLIN A IN COMPLEX WITH AN
OXINDOLE Inhibitor
pdb|1HCL| Human Cyclin-Dependent Kinase 2
pdb|1HCK| Human Cyclin-Dependent Kinase 2
pdb|1F5Q|A Chain A, Crystal Structure Of Murine Gamma Herpesvirus Cyclin
Complexed To Human Cyclin Dependent Kinase 2
pdb|1BUH|A Chain A, Crystal Structure Of The Human Cdk2 Kinase Complex With
Cell Cycle-Regulatory Protein Ckshs1
pdb|1JSV|A Chain A, The Structure Of Cyclin-Dependent Kinase 2 (Cdk2) In
Complex With 4-[(6-Amino-4-Pyrimidinyl)
Amino]benzenesulfonamide
pdb|1JVP|P Chain P, Crystal Structure Of Human Cdk2 (Unphosphorylated) In
Complex With Pkf049-365
pdb|1DI8|A Chain A, The Structure Of Cyclin-Dependent Kinase 2 (Cdk2) In
Complex With
4-[3-Hydroxyanilino]-6,7-Dimethoxyquinazoline
pdb|1FVT|A Chain A, The Structure Of Cyclin-Dependent Kinase 2 (Cdk2) In
Complex With An Oxindole Inhibitor
pdb|1CKP|A Chain A, Human Cyclin Dependent Kinase 2 Complexed With The
Inhibitor Purvalanol B
pdb|1AQ1| Human Cyclin Dependent Kinase 2 Complexed With The Inhibitor
Staurosporine
pdb|1GIH|A Chain A, Human Cyclin Dependent Kinase 2 Complexed With The Cdk4
Inhibitor
pdb|1G5S|A Chain A, Crystal Structure Of Human Cyclin Dependent Kinase 2
(Cdk2) In Complex With The Inhibitor H717
pdb|1DM2|A Chain A, Human Cyclin-Dependent Kinase 2 Complexed With The
Inhibitor Hymenialdisine
pdb|1F5Q|C Chain C, Crystal Structure Of Murine Gamma Herpesvirus Cyclin
Complexed To Human Cyclin Dependent Kinase 2
Length = 298
Score = 25.4 bits (54), Expect = 3.4
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 17 ELKQLKEVERPNIVKEIDI 35
E+ LKE+ PNIVK +D+
Sbjct: 51 EISLLKELNHPNIVKLLDV 69
>pdb|1H1P|A Chain A, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu2058
pdb|1H1P|C Chain C, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu2058
pdb|1H1Q|A Chain A, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu6094
pdb|1H1Q|C Chain C, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu6094
pdb|1H1R|A Chain A, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu6086
pdb|1H1R|C Chain C, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu6086
pdb|1H1S|A Chain A, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu6102
pdb|1H1S|C Chain C, Structure Of Human Thr160-Phospho Cdk2CYCLIN A COMPLEXED
With The Inhibitor Nu6102
Length = 303
Score = 25.4 bits (54), Expect = 3.4
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 17 ELKQLKEVERPNIVKEIDI 35
E+ LKE+ PNIVK +D+
Sbjct: 56 EISLLKELNHPNIVKLLDV 74
>pdb|2PIA| Phthalate Dioxygenase Reductase (E.C.1.18.1.)
Length = 321
Score = 24.6 bits (52), Expect = 5.8
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 97 DNDKEFSYTIVGSVESDPAKGLISFGSPIAKSLIGKSKGDAVSIQLPNGE 146
D+ + Y I +S+ G ISF + S+GDAV + LP E
Sbjct: 62 DSQERNRYVIAVKRDSNGRGGSISF-------IDDTSEGDAVEVSLPRNE 104
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
0.314 0.134 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: 959,097
Number of Sequences: 13198
Number of extensions: 37128
Number of successful extensions: 63
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 54
Number of HSP's gapped (non-prelim): 10
length of query: 164
length of database: 2,899,336
effective HSP length: 81
effective length of query: 83
effective length of database: 1,830,298
effective search space: 151914734
effective search space used: 151914734
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)