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= 042117
(122 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PIE|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIE|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIE|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIE|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant
pdb|3PIF|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
pdb|3PIF|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
pdb|3PIF|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
pdb|3PIF|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1,
E178q Mutant In Complex With Manganese
Length = 1155
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 51 VFADKFLTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYL 90
+++++F+ W YY K F I TD +++ ENY+
Sbjct: 483 IYSERFVEWKDQYYKDKLDFSI----NDTDSLKEMTENYV 518
>pdb|3E7N|A Chain A, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|B Chain B, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|C Chain C, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|D Chain D, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|E Chain E, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|F Chain F, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|G Chain G, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|H Chain H, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|I Chain I, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|J Chain J, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|K Chain K, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|L Chain L, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|M Chain M, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|N Chain N, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
pdb|3E7N|O Chain O, Crystal Structure Of D-Ribose High-Affinity Transport
System From Salmonella Typhimurium Lt2
Length = 142
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 84 QLYENYLSPF--LLRCQAKADKLKATTHAKFDQLTAITQA 121
QL+E L+ L + Q K+ TTH +F +LTA +QA
Sbjct: 82 QLHETLLTHLEQLQQHQGNTIKISYTTHEQFKKLTADSQA 121
>pdb|2XAX|A Chain A, Ribonucleotide Reductase Y730no2y And Y731a Modified R1
Subunit Of E. Coli
pdb|2XAX|B Chain B, Ribonucleotide Reductase Y730no2y And Y731a Modified R1
Subunit Of E. Coli
pdb|2XAX|C Chain C, Ribonucleotide Reductase Y730no2y And Y731a Modified R1
Subunit Of E. Coli
Length = 761
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|2XAW|A Chain A, Ribonucleotide Reductase Y730no2y And Y731f Modified R1
Subunit Of E. Coli
pdb|2XAW|B Chain B, Ribonucleotide Reductase Y730no2y And Y731f Modified R1
Subunit Of E. Coli
pdb|2XAW|C Chain C, Ribonucleotide Reductase Y730no2y And Y731f Modified R1
Subunit Of E. Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|2XAV|A Chain A, Ribonucleotide Reductase Y731no2y And Y730f Modified R1
Subunit Of E. Coli
pdb|2XAV|B Chain B, Ribonucleotide Reductase Y731no2y And Y730f Modified R1
Subunit Of E. Coli
pdb|2XAV|C Chain C, Ribonucleotide Reductase Y731no2y And Y730f Modified R1
Subunit Of E. Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|2XAZ|A Chain A, Ribonucleotide Reductase Y730no2y And C439s Modified R1
Subunit Of E. Coli
pdb|2XAZ|B Chain B, Ribonucleotide Reductase Y730no2y And C439s Modified R1
Subunit Of E. Coli
pdb|2XAZ|C Chain C, Ribonucleotide Reductase Y730no2y And C439s Modified R1
Subunit Of E. Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|2XAP|A Chain A, Ribonucleotide Reductase Y731no2y Modified R1 Subunit Of
E. Coli To 2.1 A Resolution
pdb|2XAP|B Chain B, Ribonucleotide Reductase Y731no2y Modified R1 Subunit Of
E. Coli To 2.1 A Resolution
pdb|2XAP|C Chain C, Ribonucleotide Reductase Y731no2y Modified R1 Subunit Of
E. Coli To 2.1 A Resolution
pdb|2XO5|A Chain A, Ribonucleotide Reductase Y731nh2y Modified R1 Subunit Of
E. Coli
pdb|2XO5|B Chain B, Ribonucleotide Reductase Y731nh2y Modified R1 Subunit Of
E. Coli
pdb|2XO5|C Chain C, Ribonucleotide Reductase Y731nh2y Modified R1 Subunit Of
E. Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|2XAK|A Chain A, Ribonucleotide Reductase Y730no2y Modified R1 Subunit Of
E. Coli
pdb|2XAK|B Chain B, Ribonucleotide Reductase Y730no2y Modified R1 Subunit Of
E. Coli
pdb|2XAK|C Chain C, Ribonucleotide Reductase Y730no2y Modified R1 Subunit Of
E. Coli
pdb|2XO4|A Chain A, Ribonucleotide Reductase Y730nh2y Modified R1 Subunit Of
E. Coli
pdb|2XO4|B Chain B, Ribonucleotide Reductase Y730nh2y Modified R1 Subunit Of
E. Coli
pdb|2XO4|C Chain C, Ribonucleotide Reductase Y730nh2y Modified R1 Subunit Of
E. Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|1R1R|A Chain A, Ribonucleotide Reductase R1 Protein Mutant Y730f With A
Reduced Active Site From Escherichia Coli
pdb|1R1R|B Chain B, Ribonucleotide Reductase R1 Protein Mutant Y730f With A
Reduced Active Site From Escherichia Coli
pdb|1R1R|C Chain C, Ribonucleotide Reductase R1 Protein Mutant Y730f With A
Reduced Active Site From Escherichia Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|6R1R|A Chain A, Ribonucleotide Reductase E441d Mutant R1 Protein From
Escherichia Coli
pdb|6R1R|B Chain B, Ribonucleotide Reductase E441d Mutant R1 Protein From
Escherichia Coli
pdb|6R1R|C Chain C, Ribonucleotide Reductase E441d Mutant R1 Protein From
Escherichia Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|3R1R|A Chain A, Ribonucleotide Reductase R1 Protein With Amppnp Occupying
The Activity Site From Escherichia Coli
pdb|3R1R|B Chain B, Ribonucleotide Reductase R1 Protein With Amppnp Occupying
The Activity Site From Escherichia Coli
pdb|3R1R|C Chain C, Ribonucleotide Reductase R1 Protein With Amppnp Occupying
The Activity Site From Escherichia Coli
pdb|2R1R|A Chain A, Ribonucleotide Reductase R1 Protein With Dttp Occupying
The Specificity Site From Escherichia Coli
pdb|2R1R|B Chain B, Ribonucleotide Reductase R1 Protein With Dttp Occupying
The Specificity Site From Escherichia Coli
pdb|2R1R|C Chain C, Ribonucleotide Reductase R1 Protein With Dttp Occupying
The Specificity Site From Escherichia Coli
pdb|2X0X|A Chain A, Ribonucleotide Reductase R1 Subunit Of E. Coli To 2.3 A
Resolution
pdb|2X0X|B Chain B, Ribonucleotide Reductase R1 Subunit Of E. Coli To 2.3 A
Resolution
pdb|2X0X|C Chain C, Ribonucleotide Reductase R1 Subunit Of E. Coli To 2.3 A
Resolution
pdb|3UUS|A Chain A, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex
pdb|3UUS|B Chain B, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex
pdb|3UUS|C Chain C, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex
pdb|3UUS|D Chain D, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex
pdb|4ERM|A Chain A, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex At 4 Angstroms
Resolution
pdb|4ERM|B Chain B, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex At 4 Angstroms
Resolution
pdb|4ERM|C Chain C, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex At 4 Angstroms
Resolution
pdb|4ERM|D Chain D, Crystal Structure Of The Datp Inhibited E. Coli Class Ia
Ribonucleotide Reductase Complex At 4 Angstroms
Resolution
pdb|4ERP|A Chain A, Crystal Structure Of A Gemcitabine-Diphosphate Inhibited
E. Coli Class Ia Ribonucleotide Reductase Complex
pdb|4ERP|B Chain B, Crystal Structure Of A Gemcitabine-Diphosphate Inhibited
E. Coli Class Ia Ribonucleotide Reductase Complex
pdb|4ERP|C Chain C, Crystal Structure Of A Gemcitabine-Diphosphate Inhibited
E. Coli Class Ia Ribonucleotide Reductase Complex
pdb|4ERP|D Chain D, Crystal Structure Of A Gemcitabine-Diphosphate Inhibited
E. Coli Class Ia Ribonucleotide Reductase Complex
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|5R1R|A Chain A, Ribonucleotide Reductase E441a Mutant R1 Protein From
Escherichia Coli
pdb|5R1R|B Chain B, Ribonucleotide Reductase E441a Mutant R1 Protein From
Escherichia Coli
pdb|5R1R|C Chain C, Ribonucleotide Reductase E441a Mutant R1 Protein From
Escherichia Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|7R1R|A Chain A, Ribonucleotide Reductase E441q Mutant R1 Protein From
Escherichia Coli
pdb|7R1R|B Chain B, Ribonucleotide Reductase E441q Mutant R1 Protein From
Escherichia Coli
pdb|7R1R|C Chain C, Ribonucleotide Reductase E441q Mutant R1 Protein From
Escherichia Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|1RLR|A Chain A, Structure Of Ribonucleotide Reductase Protein R1
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|2XAY|A Chain A, Ribonucleotide Reductase Y730no2y And C439a Modified R1
Subunit Of E. Coli
pdb|2XAY|B Chain B, Ribonucleotide Reductase Y730no2y And C439a Modified R1
Subunit Of E. Coli
pdb|2XAY|C Chain C, Ribonucleotide Reductase Y730no2y And C439a Modified R1
Subunit Of E. Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|4R1R|A Chain A, Ribonucleotide Reductase R1 Protein With Substrate, Gdp
And Effector Dttp From Escherichia Coli
pdb|4R1R|B Chain B, Ribonucleotide Reductase R1 Protein With Substrate, Gdp
And Effector Dttp From Escherichia Coli
pdb|4R1R|C Chain C, Ribonucleotide Reductase R1 Protein With Substrate, Gdp
And Effector Dttp From Escherichia Coli
Length = 761
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 22/54 (40%)
Query: 57 LTWFPMYYHLKFSFLIWLQLPSTDGARQLYENYLSPFLLRCQAKADKLKATTHA 110
L + +Y +F I L P G R + S L+ C D + AT+ A
Sbjct: 190 LQYVKRFYDAVSTFKISLPTPIMSGVRTPTRQFSSCVLIECGDSLDSINATSSA 243
>pdb|2H5F|A Chain A, Denmotoxin: A The Three-Finger Toxin From Colubrid Snake
Boiga Dendrophila With Bird-Specific Activity
pdb|2H5F|B Chain B, Denmotoxin: A The Three-Finger Toxin From Colubrid Snake
Boiga Dendrophila With Bird-Specific Activity
Length = 77
Score = 25.4 bits (54), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 4 QDVYLNCSVG-VALPVYSTFKAIERKDEDEQQKWLMYWAA 42
+ + NCS+G LP + T + + DE+ + KW + A
Sbjct: 15 RKTWSNCSIGHRCLPYHMTCYTLYKPDENGEMKWAVKGCA 54
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
0.324 0.134 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,770,338
Number of Sequences: 62578
Number of extensions: 143161
Number of successful extensions: 312
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 284
Number of HSP's gapped (non-prelim): 31
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)