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= psy4461
(95 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IF1|A Chain A, Human Translation Initiation Factor Eif1, Nmr, 29
Structures
Length = 126
Score = 117 bits (293), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 59/76 (77%), Positives = 70/76 (92%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
RNGRKTLTTVQG++ +YD KK+V+A KK+FACNGTVIEHPEYGEV+QLQGDQR+NICQ+L
Sbjct: 51 RNGRKTLTTVQGIADDYDKKKLVKAFKKKFACNGTVIEHPEYGEVIQLQGDQRKNICQFL 110
Query: 80 TKTGLAKPEQLKVHGF 95
+ GLAK +QLKVHGF
Sbjct: 111 VEIGLAKDDQLKVHGF 126
>pdb|2OGH|A Chain A, Solution Structure Of Yeast Eif1
Length = 108
Score = 100 bits (248), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 44/77 (57%), Positives = 63/77 (81%), Gaps = 2/77 (2%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
RNGRKTLTTVQG+ EYDLK+I++ KK+FACNG +++ PE GE++QLQGDQR +C+++
Sbjct: 33 RNGRKTLTTVQGVPEEYDLKRILKVLKKDFACNGNIVKDPEMGEIIQLQGDQRAKVCEFM 92
Query: 80 -TKTGLAKPEQLKVHGF 95
++ GL K + +K+HGF
Sbjct: 93 ISQLGLQK-KNIKIHGF 108
>pdb|2XZM|F Chain F, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|F Chain F, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 101
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 50/75 (66%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
R GRK TTV+G+ E+D +KI++ KK +CN T++E E +V++L GD R I Q+L
Sbjct: 26 RRGRKCFTTVEGIPPEFDYEKIMKYWKKWLSCNATIVEEDEGKKVIKLNGDHRNQIQQFL 85
Query: 80 TKTGLAKPEQLKVHG 94
++ G+A + + +HG
Sbjct: 86 SEEGIAAVDNITIHG 100
>pdb|2P8E|A Chain A, Crystal Structure Of The SerineTHREONINE PHOSPHATASE
Domain Of Human Ppm1b
pdb|2P8E|B Chain B, Crystal Structure Of The SerineTHREONINE PHOSPHATASE
Domain Of Human Ppm1b
Length = 307
Score = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 8/67 (11%)
Query: 28 TVQGLSSEYDLKKIVRACKKEF---ACNGT--VIEHPEYGEVLQLQ---GDQRENICQWL 79
T Q +S E ++ +I+RA + EF A +G V+ + E E ++ + D EN+C W+
Sbjct: 218 TEQLVSPEPEVYEILRAEEDEFIILAXDGIWDVMSNEELCEYVKSRLEVSDDLENVCNWV 277
Query: 80 TKTGLAK 86
T L K
Sbjct: 278 VDTCLHK 284
>pdb|2F3O|A Chain A, Crystal Structure Of A Glycyl Radical Enzyme From
Archaeoglobus Fulgidus
pdb|2F3O|B Chain B, Crystal Structure Of A Glycyl Radical Enzyme From
Archaeoglobus Fulgidus
Length = 776
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 25/43 (58%), Gaps = 5/43 (11%)
Query: 25 TLTTVQG-LSSEYDLKKIVRACKKEFA----CNGTVIEHPEYG 62
+L ++G L++ Y + IV AC+K F + +++ P+YG
Sbjct: 551 SLVAIEGALNAGYSMDDIVEACRKNFVGYEKLHKLLLQSPKYG 593
>pdb|2BZN|A Chain A, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2BZN|B Chain B, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2BZN|C Chain C, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2BZN|D Chain D, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2BZN|E Chain E, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2BZN|F Chain F, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2BZN|G Chain G, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2BZN|H Chain H, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp
pdb|2C6Q|A Chain A, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
pdb|2C6Q|B Chain B, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
pdb|2C6Q|C Chain C, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
pdb|2C6Q|D Chain D, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
pdb|2C6Q|E Chain E, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
pdb|2C6Q|F Chain F, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
pdb|2C6Q|G Chain G, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
pdb|2C6Q|H Chain H, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 Gmpr2 In Complex With Imp And Nadph
Length = 351
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
R+G+K G+SSE +KK + A G +E P G+V D I
Sbjct: 268 RDGKK-YKLFYGMSSEMAMKKYAGGVAEYRASEGKTVEVPFKGDVEHTIRDILGGIRSTC 326
Query: 80 TKTGLAKPEQL 90
T G AK ++L
Sbjct: 327 TYVGAAKLKEL 337
>pdb|3KF8|A Chain A, Crystal Structure Of C. Tropicalis Stn1-Ten1 Complex
pdb|3KF8|C Chain C, Crystal Structure Of C. Tropicalis Stn1-Ten1 Complex
Length = 220
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 37 DLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWLTKTGLAK 86
D K VR +++F G ++ YG++++L+G+ I W ++K
Sbjct: 123 DSKIRVRLSQEQFKEVGLTLDKKNYGKIVELEGE----IYNWYDSINVSK 168
>pdb|2A7R|A Chain A, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 (Gmpr2)
pdb|2A7R|B Chain B, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 (Gmpr2)
pdb|2A7R|C Chain C, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 (Gmpr2)
pdb|2A7R|D Chain D, Crystal Structure Of Human Guanosine Monophosphate
Reductase 2 (Gmpr2)
Length = 366
Score = 26.2 bits (56), Expect = 5.3, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 1/71 (1%)
Query: 20 RNGRKTLTTVQGLSSEYDLKKIVRACKKEFACNGTVIEHPEYGEVLQLQGDQRENICQWL 79
R+G+K G+SSE +KK + A G +E P G+V D I
Sbjct: 276 RDGKK-YKLFYGMSSEMAMKKYAGGVAEYRASEGKTVEVPFKGDVEHTIRDILGGIRSTC 334
Query: 80 TKTGLAKPEQL 90
T G AK ++L
Sbjct: 335 TYVGAAKLKEL 345
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
0.318 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,461,729
Number of Sequences: 62578
Number of extensions: 78937
Number of successful extensions: 114
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 109
Number of HSP's gapped (non-prelim): 8
length of query: 95
length of database: 14,973,337
effective HSP length: 62
effective length of query: 33
effective length of database: 11,093,501
effective search space: 366085533
effective search space used: 366085533
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)