BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 046861
(870 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
Length = 412
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 36/165 (21%), Positives = 67/165 (40%), Gaps = 26/165 (15%)
Query: 525 RDGGYLVAMNPLDIEVARKETPKLAMQISKPLVLPSNKSTSGFEVFQQMAAVGFEELSSQ 584
R G LVA + + R++ P++ QI L LP+ KS + + +Q A +G + +
Sbjct: 179 RIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWE 238
Query: 585 ILSLMPVDELMGKTAEQIAFEGIASAIIQGRNKEGASSSAARTIAAVKTMATATSTGRKE 644
L + ++ G+ +G SA R I A+K ++
Sbjct: 239 PRHLELISDVYGE-------------------DKGGDGSARRAIVALKMACEMAEAMGRD 279
Query: 645 RISTGIWN--VNENPMTAEEILAFSLQKIETMTVEALKVQAEIAE 687
+S + V+EN E + ++E +++ L + IAE
Sbjct: 280 SLSEDLVRKAVSEN-----EAASIQTHELEALSIHELIILRLIAE 319
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 433 ELDSIAQQIKALESMMEEERIIKTESQRLDADEETVTREFLQMLEDEGTKEFNF 486
E +IAQQ+K + + ++++ L D E R+FL +L +EG +F
Sbjct: 218 ERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGASPLDF 271
>pdb|7MDH|A Chain A, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
pdb|7MDH|B Chain B, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
pdb|7MDH|C Chain C, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
pdb|7MDH|D Chain D, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
Length = 375
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 590 PVDELMGKTAE-----QIAFEGIASAIIQGRNKEGASSSAARTIAAVKTMATATSTGRKE 644
PV E++ +T I + A+IQ + A+S+A A+K++ T T G +
Sbjct: 232 PVKEVIKRTKWLEEEFTITVQKRGGALIQKWGRSSAASTAVSIADAIKSLVTPTPEG--D 289
Query: 645 RISTGIWNVNENPMTAEEILAFSL 668
STG++ NP E + FS+
Sbjct: 290 WFSTGVYTTG-NPYGIAEDIVFSM 312
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 433 ELDSIAQQIKALESMMEEERIIKTESQRLDADEETVTREFLQMLEDEGTKEFNF 486
E +IAQQ+K + + ++++ L D E R+FL +L +EG +F
Sbjct: 217 ERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGASPLDF 270
>pdb|1ZYZ|A Chain A, Structures Of Yeast Ribonucloetide Reductase I
pdb|1ZYZ|B Chain B, Structures Of Yeast Ribonucloetide Reductase I
pdb|1ZZD|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVS|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVT|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVU|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVV|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVW|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVX|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2CVY|A Chain A, Structures Of Yeast Ribonucleotide Reductase I
pdb|2EUD|A Chain A, Structures Of Yeast Ribonucleotide Reductase I Complexed
With Ligands And Subunit Peptides
pdb|2ZLF|A Chain A, The Structural Basis For Peptidomimetic Inhibition Of
Eukaryotic Ribonucleotide Reductase
pdb|2ZLG|A Chain A, The Structual Basis For Peptidomimetic Inhibition Of
Eukaryotic Ribonucleotide Reductase
pdb|3K8T|A Chain A, Structure Of Eukaryotic Rnr Large Subunit R1 Complexed
With Designed Adp Analog Compound
pdb|3PAW|A Chain A, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3PAW|B Chain B, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3PAW|C Chain C, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3PAW|D Chain D, Low Resolution X-Ray Crystal Structure Of Yeast Rnr1p With
Datp Bound In The A-Site
pdb|3S87|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 With Dgtp
And Adp
pdb|3S8B|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 With Amppnp
And Cdp
pdb|3RSR|A Chain A, Crystal Structure Of 5-Nitp Inhibition Of Yeast
Ribonucleotide Reductase
Length = 888
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 657 PMTAEEILAFSLQKIETMTVEALKVQAEIAEEDAPFDV---SPLSEKII 702
P +EE ++Q ET+ +++ E+A++D P++ SP S+ I+
Sbjct: 522 PFDSEEARLLNIQIFETIYHASMEASCELAQKDGPYETFQGSPASQGIL 570
>pdb|3S8A|A Chain A, Structure Of Yeast Ribonucleotide Reductase R293a With
Dgtp
pdb|3S8C|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 R293a With
Amppnp And Cdp
Length = 888
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 657 PMTAEEILAFSLQKIETMTVEALKVQAEIAEEDAPFDV---SPLSEKII 702
P +EE ++Q ET+ +++ E+A++D P++ SP S+ I+
Sbjct: 522 PFDSEEARLLNIQIFETIYHASMEASCELAQKDGPYETFQGSPASQGIL 570
>pdb|3TB9|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 Q288a With
Amppnp And Cdp
pdb|3TBA|A Chain A, Structure Of Yeast Ribonucleotide Reductase 1 Q288a With
Dgtp And Adp
Length = 888
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 657 PMTAEEILAFSLQKIETMTVEALKVQAEIAEEDAPFDV---SPLSEKII 702
P +EE ++Q ET+ +++ E+A++D P++ SP S+ I+
Sbjct: 522 PFDSEEARLLNIQIFETIYHASMEASCELAQKDGPYETFQGSPASQGIL 570
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.314 0.130 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,088,335
Number of Sequences: 62578
Number of extensions: 850385
Number of successful extensions: 1455
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1451
Number of HSP's gapped (non-prelim): 10
length of query: 870
length of database: 14,973,337
effective HSP length: 107
effective length of query: 763
effective length of database: 8,277,491
effective search space: 6315725633
effective search space used: 6315725633
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: 56 (26.2 bits)