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= psy7988
(73 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HF1|A Chain A, Crystal Structure Of Human P53r2
pdb|3HF1|B Chain B, Crystal Structure Of Human P53r2
Length = 351
Score = 72.4 bits (176), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 33/47 (70%), Positives = 39/47 (82%)
Query: 27 AENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73
AENPFDFMENISLEGKTNFFE++V EYQ+ +VMA+ + VF LD F
Sbjct: 305 AENPFDFMENISLEGKTNFFEKRVSEYQRFAVMAETTDNVFTLDADF 351
>pdb|1H0N|A Chain A, Cobalt Substitution Of Mouse R2 Ribonucleotide Reductase
To Model The Reactive Diferrous State
pdb|1H0O|A Chain A, Cobalt Substitution Of Mouse R2 Ribonucleotide Reductase
To Model The Reactive Diferrous State
pdb|1W68|A Chain A, Crystal Structure Of Mouse Ribonucleotide Reductase
Subunit R2 Under Oxidizing Conditions. A Fully Occupied
Dinuclear Iron Cluster.
pdb|1W69|A Chain A, Crystal Structure Of Mouse Ribonucleotide Reductase
Subunit R2 Under Reducing Conditions. A Fully Occupied
Dinuclear Iron Cluster And Bound Acetate.
pdb|1XSM|A Chain A, Protein R2 Of Ribonucleotide Reductase From Mouse
Length = 390
Score = 69.7 bits (169), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 31/47 (65%), Positives = 36/47 (76%)
Query: 27 AENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73
ENPFDFMENISLEGKTNFFE++VGEYQ+ VM++ F LD F
Sbjct: 344 VENPFDFMENISLEGKTNFFEKRVGEYQRMGVMSNSTENSFTLDADF 390
>pdb|2UW2|A Chain A, Crystal Structure Of Human Ribonucleotide Reductase
Subunit R2
Length = 332
Score = 68.6 bits (166), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 31/47 (65%), Positives = 35/47 (74%)
Query: 27 AENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73
ENPFDFMENISLEGKTNFFE++VGEYQ+ VM+ F LD F
Sbjct: 286 VENPFDFMENISLEGKTNFFEKRVGEYQRMGVMSSPTENSFTLDADF 332
>pdb|1JK0|A Chain A, Ribonucleotide Reductase Y2y4 Heterodimer
Length = 419
Score = 62.8 bits (151), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 38/54 (70%), Gaps = 3/54 (5%)
Query: 23 QHYFAENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQ---VFRLDEQF 73
++Y ENPFDFMENISL GKTNFFE++V +YQK+ VM+ Q F +E F
Sbjct: 366 KYYKVENPFDFMENISLAGKTNFFEKRVSDYQKAGVMSKSTKQEAGAFTFNEDF 419
>pdb|1SMQ|A Chain A, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
From Saccharomyces Cerevisiae
pdb|1SMQ|B Chain B, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
From Saccharomyces Cerevisiae
pdb|1SMQ|C Chain C, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
From Saccharomyces Cerevisiae
pdb|1SMQ|D Chain D, Structure Of The Ribonucleotide Reductase Rnr2 Homodimer
From Saccharomyces Cerevisiae
Length = 399
Score = 62.8 bits (151), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 38/54 (70%), Gaps = 3/54 (5%)
Query: 23 QHYFAENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQ---VFRLDEQF 73
++Y ENPFDFMENISL GKTNFFE++V +YQK+ VM+ Q F +E F
Sbjct: 346 KYYKVENPFDFMENISLAGKTNFFEKRVSDYQKAGVMSKSTKQEAGAFTFNEDF 399
>pdb|2P1I|A Chain A, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
pdb|2P1I|B Chain B, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
pdb|2P1I|C Chain C, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
pdb|2P1I|D Chain D, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
pdb|2P1I|E Chain E, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
pdb|2P1I|F Chain F, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
pdb|2P1I|G Chain G, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
pdb|2P1I|H Chain H, Plasmodium Yoelii Ribonucleotide Reductase Subunit R2
(Py03671)
Length = 349
Score = 62.0 bits (149), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 27/49 (55%), Positives = 39/49 (79%)
Query: 25 YFAENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDNQVFRLDEQF 73
+ ++NPF++M+ ISL+GKTNFFE++V +YQKS VMA + QVF L+ F
Sbjct: 301 FHSKNPFNWMDLISLQGKTNFFEKRVADYQKSGVMAQRKEQVFSLNTDF 349
>pdb|1JK0|B Chain B, Ribonucleotide Reductase Y2y4 Heterodimer
pdb|1SMS|A Chain A, Structure Of The Ribonucleotide Reductase Rnr4 Homodimer
From Saccharomyces Cerevisiae
pdb|1SMS|B Chain B, Structure Of The Ribonucleotide Reductase Rnr4 Homodimer
From Saccharomyces Cerevisiae
Length = 345
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 21/38 (55%), Positives = 31/38 (81%)
Query: 23 QHYFAENPFDFMENISLEGKTNFFERKVGEYQKSSVMA 60
++Y A NPF+FME+++ GKT FFE+KV +YQK+S M+
Sbjct: 293 KYYNAVNPFEFMEDVATAGKTTFFEKKVSDYQKASDMS 330
>pdb|2VUX|A Chain A, Human Ribonucleotide Reductase, Subunit M2 B
pdb|2VUX|B Chain B, Human Ribonucleotide Reductase, Subunit M2 B
Length = 326
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/18 (100%), Positives = 18/18 (100%)
Query: 27 AENPFDFMENISLEGKTN 44
AENPFDFMENISLEGKTN
Sbjct: 309 AENPFDFMENISLEGKTN 326
>pdb|4DJN|A Chain A, Crystal Structure Of A Ribonucleotide Reductase M2 B
(Rnrr2) From Homo Sapiens At 2.20 A Resolution
pdb|4DJN|B Chain B, Crystal Structure Of A Ribonucleotide Reductase M2 B
(Rnrr2) From Homo Sapiens At 2.20 A Resolution
Length = 311
Score = 38.1 bits (87), Expect = 0.001, Method: Composition-based stats.
Identities = 17/18 (94%), Positives = 17/18 (94%)
Query: 27 AENPFDFMENISLEGKTN 44
AENPFDF ENISLEGKTN
Sbjct: 294 AENPFDFXENISLEGKTN 311
>pdb|4D8F|A Chain A, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8F|B Chain B, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8F|C Chain C, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8F|D Chain D, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
1 - High Mn)
pdb|4D8G|A Chain A, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
pdb|4D8G|B Chain B, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
pdb|4D8G|C Chain C, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
pdb|4D8G|D Chain D, Chlamydia Trachomatis Nrdb With A MnFE COFACTOR (PROCEDURE
2 - Low Mn)
Length = 366
Score = 33.1 bits (74), Expect = 0.036, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 25 YFAENPFDFM-ENISLEGKTNFFERKVGEYQKSSVM 59
Y +NPF +M E I L + NFFE +V EYQ ++ +
Sbjct: 329 YHTKNPFPWMSETIDLNKEKNFFETRVIEYQHAASL 364
>pdb|2ANI|A Chain A, Crystal Structure Of The F127y Mutant Of Ribonucleotide
Reductase R2 From Chlamydia Trachomatis
Length = 346
Score = 33.1 bits (74), Expect = 0.041, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 25 YFAENPFDFM-ENISLEGKTNFFERKVGEYQKSSVM 59
Y +NPF +M E I L + NFFE +V EYQ ++ +
Sbjct: 309 YHTKNPFPWMSETIDLNKEKNFFETRVIEYQHAASL 344
>pdb|1SYY|A Chain A, Crystal Structure Of The R2 Subunit Of Ribonucleotide
Reductase From Chlamydia Trachomatis
Length = 346
Score = 33.1 bits (74), Expect = 0.042, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 25 YFAENPFDFM-ENISLEGKTNFFERKVGEYQKSSVM 59
Y +NPF +M E I L + NFFE +V EYQ ++ +
Sbjct: 309 YHTKNPFPWMSETIDLNKEKNFFETRVIEYQHAASL 344
>pdb|3V4P|B Chain B, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4P|D Chain D, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4V|B Chain B, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
pdb|3V4V|D Chain D, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
Length = 503
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 28 ENPFDFMENISLEGKTNFFERKVGEYQKSSVMADQDN 64
++PF F +SL G FER+VG + SV + D+
Sbjct: 205 QSPFSFHHVLSLTGDAQAFEREVG---RQSVSGNLDS 238
>pdb|1CZD|A Chain A, Crystal Structure Of The Processivity Clamp Gp45 From
Bacteriophage T4
pdb|1CZD|B Chain B, Crystal Structure Of The Processivity Clamp Gp45 From
Bacteriophage T4
pdb|1CZD|C Chain C, Crystal Structure Of The Processivity Clamp Gp45 From
Bacteriophage T4
Length = 228
Score = 26.6 bits (57), Expect = 3.7, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 6 GKSRTHDLALTR--YCFVLQHYFAENPFDFMENIS 38
G ++ D ALTR Y L Y EN F+F+ N++
Sbjct: 151 GFNKVEDSALTRVKYSLTLGDYDGENTFNFIINMA 185
>pdb|3P8C|A Chain A, Structure And Control Of The Actin Regulatory Wave Complex
Length = 1253
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 18 YCFVLQHYFAENPFDFMENISLEGKTNFFERKV 50
Y + H F E +DF+ N G TN F R V
Sbjct: 836 YGRITLHVFWELNYDFLPNYCYNGSTNRFVRTV 868
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
0.323 0.137 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,044,590
Number of Sequences: 62578
Number of extensions: 63571
Number of successful extensions: 92
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 81
Number of HSP's gapped (non-prelim): 15
length of query: 73
length of database: 14,973,337
effective HSP length: 43
effective length of query: 30
effective length of database: 12,282,483
effective search space: 368474490
effective search space used: 368474490
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)