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= 001918
(996 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1KO7|A Chain A, X-Ray Structure Of The Hpr KinasePHOSPHATASE FROM
Staphylococcus Xylosus At 1.95 A Resolution
pdb|1KO7|B Chain B, X-Ray Structure Of The Hpr KinasePHOSPHATASE FROM
Staphylococcus Xylosus At 1.95 A Resolution
Length = 314
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 461 LYGKGIACVTGDSGIGKTELLLEFAYRYHQ 490
+YG G+ +TGDSGIGK+E LE R H+
Sbjct: 142 VYGVGV-LITGDSGIGKSETALELIKRGHR 170
>pdb|1KKL|A Chain A, L.Casei HprkP IN COMPLEX WITH B.SUBTILIS HPR
pdb|1KKL|B Chain B, L.Casei HprkP IN COMPLEX WITH B.SUBTILIS HPR
pdb|1KKL|C Chain C, L.Casei HprkP IN COMPLEX WITH B.SUBTILIS HPR
pdb|1KKM|A Chain A, L.Casei HprkP IN COMPLEX WITH B.SUBTILIS P-Ser-Hpr
pdb|1KKM|B Chain B, L.Casei HprkP IN COMPLEX WITH B.SUBTILIS P-Ser-Hpr
pdb|1KKM|C Chain C, L.Casei HprkP IN COMPLEX WITH B.SUBTILIS P-Ser-Hpr
Length = 205
Score = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 461 LYGKGIACVTGDSGIGKTELLLEFAYRYHQ 490
+YG G+ +TGDSG+GK+E LE R H+
Sbjct: 32 IYGLGV-LITGDSGVGKSETALELVQRGHR 60
>pdb|2QMH|A Chain A, Structure Of V267f Mutant HprkP
pdb|2QMH|B Chain B, Structure Of V267f Mutant HprkP
pdb|2QMH|C Chain C, Structure Of V267f Mutant HprkP
pdb|2QMH|D Chain D, Structure Of V267f Mutant HprkP
pdb|2QMH|E Chain E, Structure Of V267f Mutant HprkP
pdb|2QMH|F Chain F, Structure Of V267f Mutant HprkP
pdb|2QMH|G Chain G, Structure Of V267f Mutant HprkP
pdb|2QMH|H Chain H, Structure Of V267f Mutant HprkP
pdb|2QMH|I Chain I, Structure Of V267f Mutant HprkP
pdb|2QMH|J Chain J, Structure Of V267f Mutant HprkP
pdb|2QMH|K Chain K, Structure Of V267f Mutant HprkP
pdb|2QMH|L Chain L, Structure Of V267f Mutant HprkP
Length = 205
Score = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 461 LYGKGIACVTGDSGIGKTELLLEFAYRYHQ 490
+YG G+ +TGDSG+GK+E LE R H+
Sbjct: 32 IYGLGV-LITGDSGVGKSETALELVQRGHR 60
>pdb|1JB1|A Chain A, Lactobacillus Casei Hprk/p Bound To Phosphate
Length = 205
Score = 33.9 bits (76), Expect = 0.48, Method: Composition-based stats.
Identities = 15/30 (50%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 461 LYGKGIACVTGDSGIGKTELLLEFAYRYHQ 490
+YG G+ +TGDSG+GK+E LE R H+
Sbjct: 32 IYGLGV-LITGDSGVGKSETALELVQRGHR 60
>pdb|2E7I|A Chain A, Crystal Structure Of Sep-Trna:cys-Trna Synthase From
Archaeoglobus Fulgidus
pdb|2E7I|B Chain B, Crystal Structure Of Sep-Trna:cys-Trna Synthase From
Archaeoglobus Fulgidus
pdb|2E7J|A Chain A, Crystal Structure Of Sep-Trna:cys-Trna Synthase From
Archaeoglobus Fulgidus
pdb|2E7J|B Chain B, Crystal Structure Of Sep-Trna:cys-Trna Synthase From
Archaeoglobus Fulgidus
Length = 371
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 4/61 (6%)
Query: 284 GLEKEWKEAVNGLSRVDEWKLEAQEGNCRDCILRAVTLLAMKLGRRSVVERLTKWREKVD 343
G+++EW E V L R +++K +E C R T++ + V ER+ +W E+V+
Sbjct: 221 GMKEEWAEIV--LRRSEKYK--NKEVELLGCTARGATIITLMASFPHVRERIKRWDEEVE 276
Query: 344 K 344
K
Sbjct: 277 K 277
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 23/109 (21%), Positives = 48/109 (44%), Gaps = 6/109 (5%)
Query: 153 LSCNRLRSCDVFIGLHGCKPSLMRFANWLRAELEVQGMSCFVSDRARCRNSRKHAIVERA 212
+S + DVF+ G + F ++L EL + + F D+ R ++
Sbjct: 1 MSSHTATKYDVFLSFRG-HDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSP 59
Query: 213 MDISSFGVVILTRKSFRNPYSIEELRYF-----SGKKNLVPIFFDLSPG 256
+++S F VV+++ + + ++EL G ++PIF+ + P
Sbjct: 60 IEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPN 108
>pdb|3NF1|A Chain A, Crystal Structure Of The Tpr Domain Of Kinesin Light Chain
1
Length = 311
Score = 31.2 bits (69), Expect = 3.3, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 932 ATVLETRAKLMLRGGQFDMGDDLIRKAVFIRTSISGEDHPDTIAARETLSKLTR 985
A L A L + G++ + L ++A+ IR + G+DHPD L+ L +
Sbjct: 111 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQ 164
>pdb|3DZD|A Chain A, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
pdb|3DZD|B Chain B, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
Length = 368
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 5/63 (7%)
Query: 433 EMQSTEAPQRQKTKSSGRYPR----RKRSTKILYGKGIACVTGDSGIGKTELLLEFAYRY 488
E S +AP +++ + G +P+ ++ KI K +TG+SG GK E++ +RY
Sbjct: 117 EEYSKKAPPQEEIEFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGK-EIVARLIHRY 175
Query: 489 HQR 491
R
Sbjct: 176 SGR 178
>pdb|2L23|A Chain A, Nmr Structure Of The Acid (Activator Interacting Domain)
Of The Human Mediator Med25 Protein
Length = 167
Score = 30.0 bits (66), Expect = 6.7, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 39/68 (57%), Gaps = 9/68 (13%)
Query: 520 VGIENCSDK----SRIKSFEEQEEAAICRVRKELMRNIPFLVII---DNLESEKDWWDDK 572
+G ++ S+K S + ++E+ + A +L R++P V + +NL++E+ W K
Sbjct: 1 MGQQSVSNKLLAWSGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQ--WPQK 58
Query: 573 LVMDLLPR 580
L+M L+P+
Sbjct: 59 LIMQLIPQ 66
>pdb|2KY6|A Chain A, Structure Of Arc92vbdMED25ACID
Length = 166
Score = 30.0 bits (66), Expect = 6.8, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 39/69 (56%), Gaps = 9/69 (13%)
Query: 519 DVGIENCSDK----SRIKSFEEQEEAAICRVRKELMRNIPFLVII---DNLESEKDWWDD 571
+ G ++ S+K S + ++E+ + A +L R++P V + +NL++E+ W
Sbjct: 2 EFGQQSVSNKLLAWSGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQ--WPQ 59
Query: 572 KLVMDLLPR 580
KL+M L+P+
Sbjct: 60 KLIMQLIPQ 68
>pdb|2L6U|A Chain A, Solution Nmr Structure Of Med25(391-543) Comprising The
Activator- Interacting Domain (Acid) Of Human Mediator
Subuniti 25. Northeast Structural Genomics Consortium
Target Hr6188a
Length = 163
Score = 29.6 bits (65), Expect = 9.1, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 5/55 (9%)
Query: 529 SRIKSFEEQEEAAICRVRKELMRNIPFLVII---DNLESEKDWWDDKLVMDLLPR 580
S + ++E+ + A +L R++P V + +NL++E+ W KL+M L+P+
Sbjct: 23 SGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQ--WPQKLIMQLIPQ 75
>pdb|2XNF|A Chain A, The Mediator Med25 Activator Interaction Domain: Structure
And Cooperative Binding Of Vp16 Subdomains
Length = 159
Score = 29.6 bits (65), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 529 SRIKSFEEQEEAAICRVRKELMRNIPFLVIIDNLESEK-DWWDDKLVMDLLPR 580
S + ++E+ + A +L R++P V +++ E+ K + W KL+M L+P+
Sbjct: 11 SGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQWPQKLIMQLIPQ 63
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
0.321 0.136 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,152,728
Number of Sequences: 62578
Number of extensions: 1074600
Number of successful extensions: 2733
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2726
Number of HSP's gapped (non-prelim): 14
length of query: 996
length of database: 14,973,337
effective HSP length: 108
effective length of query: 888
effective length of database: 8,214,913
effective search space: 7294842744
effective search space used: 7294842744
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: 56 (26.2 bits)