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= 048731
(904 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SM5|A Chain A, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
pdb|3SM5|C Chain C, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
pdb|3SM5|E Chain E, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
Length = 327
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 45/89 (50%), Gaps = 13/89 (14%)
Query: 518 DQQVTFFWTLSKDKESISFAARGE----KKSGYLAIGFGSGMVNSYAYVGWID---DIGK 570
+ ++ ++WTL + ++I F A G + + L+ GFGSG++NS A + D +
Sbjct: 224 EGRINYYWTLLEPGDTIIFEANGNLIAPRYAFALSRGFGSGIINSNAPMDECDAKCQTPQ 283
Query: 571 GHVNTYWIDSMDASGVHPTV--ENMTYVR 597
G +N+ S+ VHP E YVR
Sbjct: 284 GAINS----SLPFQNVHPVTIGECPKYVR 308
>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 = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 16/91 (17%)
Query: 102 ETYKNATFTVLLLENITWEQIPV-LSIWDSFTASDFGHMVLNGSDSGITLSSGLAPSPTP 160
ET++ + + +L+ W+Q P + WD+ H V N S +AP PT
Sbjct: 558 ETFQGSPASQGILQFDMWDQKPYGMWDWDTLRKDIMKHGVRN--------SLTMAPMPTA 609
Query: 161 SSTRVLGAPTMFD-------NCKVLSKEFRI 184
S++++LG F+ + +VLS EF++
Sbjct: 610 STSQILGYNECFEPVTSNMYSRRVLSGEFQV 640
>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 = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 16/91 (17%)
Query: 102 ETYKNATFTVLLLENITWEQIPV-LSIWDSFTASDFGHMVLNGSDSGITLSSGLAPSPTP 160
ET++ + + +L+ W+Q P + WD+ H V N S +AP PT
Sbjct: 558 ETFQGSPASQGILQFDMWDQKPYGMWDWDTLRKDIMKHGVRN--------SLTMAPMPTA 609
Query: 161 SSTRVLGAPTMFD-------NCKVLSKEFRI 184
S++++LG F+ + +VLS EF++
Sbjct: 610 STSQILGYNECFEPVTSNMYSRRVLSGEFQV 640
>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 = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 16/91 (17%)
Query: 102 ETYKNATFTVLLLENITWEQIPV-LSIWDSFTASDFGHMVLNGSDSGITLSSGLAPSPTP 160
ET++ + + +L+ W+Q P + WD+ H V N S +AP PT
Sbjct: 558 ETFQGSPASQGILQFDMWDQKPYGMWDWDTLRKDIMKHGVRN--------SLTMAPMPTA 609
Query: 161 SSTRVLGAPTMFD-------NCKVLSKEFRI 184
S++++LG F+ + +VLS EF++
Sbjct: 610 STSQILGYNECFEPVTSNMYSRRVLSGEFQV 640
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
0.319 0.136 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,378,600
Number of Sequences: 62578
Number of extensions: 1266630
Number of successful extensions: 2688
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 2687
Number of HSP's gapped (non-prelim): 13
length of query: 904
length of database: 14,973,337
effective HSP length: 108
effective length of query: 796
effective length of database: 8,214,913
effective search space: 6539070748
effective search space used: 6539070748
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)