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= psy18185
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 246 bits (628), Expect = 6e-66, Method: Compositional matrix adjust.
Identities = 118/185 (63%), Positives = 144/185 (77%)
Query: 6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
+DKLR EINKVVNKYIDQGIAELVPGVLF+DEVHMLD+E FTYLHRALES+IAPIVIFA+
Sbjct: 272 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHMLDIECFTYLHRALESSIAPIVIFAS 331
Query: 66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
NRG C++RGT+DI SPHGI Y ++M+ IIK+RA TEG + +EAL
Sbjct: 332 NRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEAL 391
Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 392 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 451
Query: 186 DKFMR 190
DK+M+
Sbjct: 452 DKYMK 456
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 238 bits (606), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 117/185 (63%), Positives = 143/185 (77%)
Query: 6 SDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFAT 65
+DKLR EINKVVNKYIDQGIAELVPGVLF+DEVH LD+E FTYLHRALES+IAPIVIFA+
Sbjct: 183 TDKLRGEINKVVNKYIDQGIAELVPGVLFVDEVHXLDIECFTYLHRALESSIAPIVIFAS 242
Query: 66 NRGRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEAL 125
NRG C++RGT+DI SPHGI Y ++ + IIK+RA TEG + +EAL
Sbjct: 243 NRGNCVIRGTEDITSPHGIPLDLLDRVXIIRTXLYTPQEXKQIIKIRAQTEGINISEEAL 302
Query: 126 VTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENK 185
L EIGT++TLRY VQLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +
Sbjct: 303 NHLGEIGTKTTLRYSVQLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQ 362
Query: 186 DKFMR 190
DK+ +
Sbjct: 363 DKYXK 367
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 147 bits (372), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 74/182 (40%), Positives = 115/182 (63%), Gaps = 1/182 (0%)
Query: 8 KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNR 67
++R++IN V ++ ++G AE++PGVLFIDEVHMLD+E+F++L+RALES +AP++I ATNR
Sbjct: 168 EVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESFSFLNRALESDMAPVLIMATNR 227
Query: 68 GRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVT 127
G +RGT SPHGI Y++KD + I+++R E + ++A
Sbjct: 228 GITRIRGT-SYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTV 286
Query: 128 LSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDK 187
L+ IG ++LRY +QL+T A+L + T + DI V +LFLD S + + E +D
Sbjct: 287 LTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYMKEYQDA 346
Query: 188 FM 189
F+
Sbjct: 347 FL 348
>pdb|2XSZ|D Chain D, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|E Chain E, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|F Chain F, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 378
Score = 137 bits (345), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 73/182 (40%), Positives = 111/182 (60%), Gaps = 1/182 (0%)
Query: 8 KLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPIVIFATNR 67
++R++IN V ++ ++G AE++PGVLFIDEVH LD+E+F++L+RALES AP++I ATNR
Sbjct: 186 EVREQINAKVAEWREEGKAEIIPGVLFIDEVHXLDIESFSFLNRALESDXAPVLIXATNR 245
Query: 68 GRCLVRGTDDIISPHGIXXXXXXXXXXXXXXXYNQKDMEAIIKLRANTEGHVLDDEALVT 127
G +RGT SPHGI Y++KD + I+++R E ++A
Sbjct: 246 GITRIRGT-SYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEXSEDAYTV 304
Query: 128 LSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDK 187
L+ IG ++LRY +QL+T A+L + T + DI V +LFLD S + E +D
Sbjct: 305 LTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRVYSLFLDESRSTQYXKEYQDA 364
Query: 188 FM 189
F+
Sbjct: 365 FL 366
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 32 VLFIDEVHMLDLETFTYLHRALESAIAPIVI 62
+LFIDE+H L + +L+ A+E + IVI
Sbjct: 93 ILFIDEIHRLSRQAEEHLYPAMEDFVMDIVI 123
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 32 VLFIDEVHMLDLETFTYLHRALESAIAPIVI 62
+LFIDE+H L + +L+ A+E + IVI
Sbjct: 93 ILFIDEIHRLSRQAEEHLYPAMEDFVMDIVI 123
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 32 VLFIDEVHMLDLETFTYLHRALESAIAPIVI 62
+LFIDE+H L + +L+ A+E + IVI
Sbjct: 93 ILFIDEIHRLSRQAEEHLYPAMEDFVMDIVI 123
>pdb|1XN4|A Chain A, Putative Mar1 Ribonuclease From Leishmania Major
Length = 192
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/67 (17%), Positives = 33/67 (49%), Gaps = 3/67 (4%)
Query: 16 VVNKYIDQGIAELVPGVLFIDEVHMLDLETFTYLHRALESAIAPI---VIFATNRGRCLV 72
+V ++ +G+ +VPG+ H+++ F+ + +E + + V+F C++
Sbjct: 55 IVTEHYPKGLGRIVPGITLPQTAHLIEKTRFSCIVPQVEELLEDVDNAVVFGIEGHACIL 114
Query: 73 RGTDDII 79
+ D++
Sbjct: 115 QTVADLL 121
>pdb|2BH1|A Chain A, X-Ray Structure Of The General Secretion Pathway Complex
Of The N-Terminal Domain Of Epse And The Cytosolic
Domain Of Epsl Of Vibrio Cholerae
pdb|2BH1|B Chain B, X-Ray Structure Of The General Secretion Pathway Complex
Of The N-Terminal Domain Of Epse And The Cytosolic
Domain Of Epsl Of Vibrio Cholerae
Length = 250
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 114 NTEGHVLDDEALVTLSEIGTRST--LRY-----VVQLLTPAALTAKTNGRTAISKQDILE 166
EG L +AL L E+ T RY V+QLLT ALT+K N T K LE
Sbjct: 185 QNEGEYLPLQALTPLPELSLAETQEWRYEPSGLVMQLLTQEALTSKFNLLTGSFKLKSLE 244
>pdb|3KTS|A Chain A, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
pdb|3KTS|B Chain B, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
pdb|3KTS|C Chain C, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
pdb|3KTS|D Chain D, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
pdb|3KTS|E Chain E, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
pdb|3KTS|F Chain F, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
pdb|3KTS|G Chain G, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
pdb|3KTS|H Chain H, Crystal Structure Of Glycerol Uptake Operon Antiterminator
Regulatory Protein From Listeria Monocytogenes Str. 4b
F2365
Length = 192
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 4/44 (9%)
Query: 100 YNQKDMEAIIKL----RANTEGHVLDDEALVTLSEIGTRSTLRY 139
+NQKDME I++L E HV +ALV ++ G + L +
Sbjct: 17 HNQKDMEKILELDLTYMVMLETHVAQLKALVKYAQAGGKKVLLH 60
>pdb|1YF5|L Chain L, Cyto-Epsl: The Cytoplasmic Domain Of Epsl, An Inner
Membrane Component Of The Type Ii Secretion System Of
Vibrio Cholerae
Length = 254
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 27/60 (45%), Gaps = 7/60 (11%)
Query: 114 NTEGHVLDDEALVTLSEIGTRST--LRY-----VVQLLTPAALTAKTNGRTAISKQDILE 166
EG L +AL L E+ T RY V QLLT ALT+K N T K LE
Sbjct: 189 QNEGEYLPLQALTPLPELSLAETQEWRYEPSGLVXQLLTQEALTSKFNLLTGSFKLKSLE 248
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
0.319 0.135 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,411,956
Number of Sequences: 62578
Number of extensions: 144414
Number of successful extensions: 376
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 357
Number of HSP's gapped (non-prelim): 21
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)