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= psy15805
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 70.5 bits (171), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 30/44 (68%), Positives = 38/44 (86%)
Query: 20 NCFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGN 63
+CFL+AM+EDSIEGI T +C LISK AGGIGL++HNIR+TG+
Sbjct: 217 SCFLVAMKEDSIEGIYDTLKECALISKTAGGIGLHIHNIRSTGS 260
>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 = 70.5 bits (171), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 30/44 (68%), Positives = 38/44 (86%)
Query: 20 NCFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGN 63
+CFL+AM+EDSIEGI T +C LISK AGGIGL++HNIR+TG+
Sbjct: 217 SCFLVAMKEDSIEGIYDTLKECALISKTAGGIGLHIHNIRSTGS 260
>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 = 70.5 bits (171), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 30/44 (68%), Positives = 38/44 (86%)
Query: 20 NCFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGN 63
+CFL+AM+EDSIEGI T +C LISK AGGIGL++HNIR+TG+
Sbjct: 217 SCFLVAMKEDSIEGIYDTLKECALISKTAGGIGLHIHNIRSTGS 260
>pdb|3HNC|A Chain A, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effector Ttp
pdb|3HNC|B Chain B, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effector Ttp
pdb|3HND|A Chain A, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effector Ttp And Substrate Gdp
pdb|3HND|B Chain B, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effector Ttp And Substrate Gdp
pdb|3HNE|A Chain A, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effectors Ttp And Atp
pdb|3HNE|B Chain B, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effectors Ttp And Atp
pdb|3HNF|A Chain A, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effectors Ttp And Datp
pdb|3HNF|B Chain B, Crystal Structure Of Human Ribonucleotide Reductase 1
Bound To The Effectors Ttp And Datp
Length = 792
Score = 63.2 bits (152), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 29/44 (65%), Positives = 36/44 (81%)
Query: 20 NCFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGN 63
+CFLL+M++DSIEGI T QC LISK+AGGIG+ V IRATG+
Sbjct: 217 SCFLLSMKDDSIEGIYDTLKQCALISKSAGGIGVAVSCIRATGS 260
>pdb|2WGH|A Chain A, Human Ribonucleotide Reductase R1 Subunit (Rrm1) In
Complex With Datp And Mg.
pdb|2WGH|B Chain B, Human Ribonucleotide Reductase R1 Subunit (Rrm1) In
Complex With Datp And Mg
Length = 676
Score = 62.8 bits (151), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 29/44 (65%), Positives = 36/44 (81%)
Query: 20 NCFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGN 63
+CFLL+M++DSIEGI T QC LISK+AGGIG+ V IRATG+
Sbjct: 144 SCFLLSMKDDSIEGIYDTLKQCALISKSAGGIGVAVSCIRATGS 187
>pdb|1XJK|A Chain A, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dgtp-Adp Complex
pdb|1XJK|B Chain B, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dgtp-Adp Complex
Length = 644
Score = 33.5 bits (75), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 21 CFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGN 63
CF++ + DSIE I + LI+K GG+G N +R G+
Sbjct: 134 CFVVPVG-DSIEEIFEAVKEYALITKVGGGVGSNFSELRPKGS 175
>pdb|1XJE|A Chain A, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dttp-Gdp Complex
pdb|1XJE|B Chain B, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dttp-Gdp Complex
pdb|1XJN|A Chain A, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp-Cdp Complex
pdb|1XJN|B Chain B, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp-Cdp Complex
pdb|1XJN|C Chain C, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp-Cdp Complex
pdb|1XJN|D Chain D, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp-Cdp Complex
pdb|1XJF|A Chain A, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp Complex
pdb|1XJF|B Chain B, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp Complex
pdb|1XJG|A Chain A, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp-Udp Complex
pdb|1XJG|B Chain B, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Datp-Udp Complex
pdb|1XJJ|A Chain A, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dgtp Complex
pdb|1XJJ|B Chain B, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dgtp Complex
pdb|1XJM|A Chain A, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dttp Complex
pdb|1XJM|B Chain B, Structural Mechanism Of Allosteric Substrate Specificity
In A Ribonucleotide Reductase: Dttp Complex
pdb|3O0N|A Chain A, Thermotoga Maritima Ribonucleotide Reductase, Nrdj, In
Complex With Dttp And Adenosylcobalamin
pdb|3O0N|B Chain B, Thermotoga Maritima Ribonucleotide Reductase, Nrdj, In
Complex With Dttp And Adenosylcobalamin
pdb|3O0O|A Chain A, Thermotoga Maritima Ribonucleotide Reductase, Nrdj, In
Complex With Dttp, Gdp And Adenosylcobalamin
pdb|3O0O|B Chain B, Thermotoga Maritima Ribonucleotide Reductase, Nrdj, In
Complex With Dttp, Gdp And Adenosylcobalamin
pdb|3O0Q|A Chain A, Thermotoga Maritima Ribonucleotide Reductase, Nrdj, In
Complex With Dttp, Gdp And Adenosine
pdb|3O0Q|B Chain B, Thermotoga Maritima Ribonucleotide Reductase, Nrdj, In
Complex With Dttp, Gdp And Adenosine
Length = 644
Score = 33.5 bits (75), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 21 CFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGN 63
CF++ + DSIE I + LI+K GG+G N +R G+
Sbjct: 134 CFVVPVG-DSIEEIFEAVKEYALITKVGGGVGSNFSELRPKGS 175
>pdb|1PEM|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|1PEO|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|1PEQ|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|1PEU|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|2BQ1|E Chain E, Ribonucleotide Reductase Class 1b Holocomplex R1e,R2f From
Salmonella Typhimurium
pdb|2BQ1|F Chain F, Ribonucleotide Reductase Class 1b Holocomplex R1e,R2f From
Salmonella Typhimurium
Length = 714
Score = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 20 NCFLLAMQEDSIEGILATFTQCGLISKAAGGIGLNVHNIRATGNDLKKIS 69
+CFLL + ED++E I +SK GG+ + N+R G +K+I
Sbjct: 177 SCFLLRI-EDNMESIGRAVNSALQLSKRGGGVAFLLSNLREAGAPIKRIE 225
>pdb|3GKA|A Chain A, Crystal Structure Of N-Ethylmaleimidine Reductase From
Burkholderia Pseudomallei
pdb|3GKA|B Chain B, Crystal Structure Of N-Ethylmaleimidine Reductase From
Burkholderia Pseudomallei
Length = 361
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 25 AMQEDSIEGILATFTQCGLISKAAGGIGLNVHN 57
A++ D I G++A F + ++AAG G+ VH
Sbjct: 150 ALELDEIPGVVAAFRRGAENARAAGFDGVEVHG 182
>pdb|1M3D|A Chain A, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|B Chain B, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|D Chain D, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|E Chain E, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|G Chain G, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|H Chain H, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|J Chain J, Structure Of Type Iv Collagen Nc1 Domains
pdb|1M3D|K Chain K, Structure Of Type Iv Collagen Nc1 Domains
pdb|1T60|A Chain A, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|B Chain B, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|D Chain D, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|E Chain E, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|G Chain G, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|H Chain H, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|J Chain J, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|K Chain K, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|M Chain M, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|N Chain N, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|P Chain P, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|Q Chain Q, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|S Chain S, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|T Chain T, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|V Chain V, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T60|W Chain W, Crystal Structure Of Type Iv Collagen Nc1 Domain From
Bovine Lens Capsule
pdb|1T61|A Chain A, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
pdb|1T61|B Chain B, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
pdb|1T61|D Chain D, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
pdb|1T61|E Chain E, Crystal Structure Of Collagen Iv Nc1 Domain From Placenta
Basement Membrane
Length = 229
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 42/116 (36%), Gaps = 10/116 (8%)
Query: 6 DSTCPPGLQVLFYFNCFLLAMQEDSIEGI-LATFTQCGLISKAAGGIGLNVHNI--RATG 62
D CPPG ++L++ L + G L T C + N++N+ A+
Sbjct: 17 DPQCPPGTKILYHGYSLLYVQGNERAHGQDLGTAGSCLRKFSTMPFLFCNINNVCNFASR 76
Query: 63 NDLKKISKFEEPSKKD------PSLNPFIRECGIYVSAPVSTYLLNPILFLITPCP 112
ND EP ++ PFI C + AP ++ I CP
Sbjct: 77 NDYSYWLSTPEPMPMSMAPITGENIRPFISRCAV-CEAPAMVMAVHSQTIQIPQCP 131
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
0.322 0.139 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,506,289
Number of Sequences: 62578
Number of extensions: 167990
Number of successful extensions: 326
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 302
Number of HSP's gapped (non-prelim): 25
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)