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= 018454
(355 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PUJ|A Chain A, Structure Of B. Subtilis Ylqf Gtpase
Length = 282
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 41/129 (31%), Positives = 66/129 (51%), Gaps = 19/129 (14%)
Query: 214 DVVVQVLDARDPQGTRCHHLERHLKEHCKHKHMILLLNKCDLVPAWATKGWLRVLSKEYP 273
D+V +++DAR P +R +E LK +K I+LLNK D A T+ W + +
Sbjct: 25 DIVYELVDARIPMSSRNPMIEDILK----NKPRIMLLNKADKADAAVTQQW----KEHFE 76
Query: 274 SLAFHA-SINKSFGKG--SLLSVLRQFARLKSDK--------QAISVGFVGYPNVGKSSV 322
+ + SIN G+G ++ ++ + K D+ +AI +G PNVGKS++
Sbjct: 77 NQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIRALIIGIPNVGKSTL 136
Query: 323 INTLRTKNV 331
IN L KN+
Sbjct: 137 INRLAKKNI 145
>pdb|3CNL|A Chain A, Crystal Structure Of Gnp-Bound Ylqf From T. Maritima
pdb|3CNN|A Chain A, Gtp-Bound Structure Of Tm Ylqf
pdb|3CNO|A Chain A, Gdp-Bound Structue Of Tm Ylqf
Length = 262
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 41/132 (31%), Positives = 64/132 (48%), Gaps = 19/132 (14%)
Query: 198 QSKRIWGELYKVIDSSDVVVQVLDARDPQGTRCHHLERHLKEHCKHKHMILLLNKCDLVP 257
++KR +L +++++ VV+V DAR P T + ++ K I+LLNK D+
Sbjct: 10 KAKRQIKDLLRLVNT---VVEVRDARAPFATSAYGVD------FSRKETIILLNKVDIAD 60
Query: 258 AWATKGWLRVLSKEYPSLAFHASINKSFGKGSLLSVLRQFARLKSDKQAISVGFVGYPNV 317
TK W+ K+ + + KG VL +L D+ A V VG PN
Sbjct: 61 EKTTKKWVEFFKKQGKRVI-------TTHKGEPRKVL--LKKLSFDRLA-RVLIVGVPNT 110
Query: 318 GKSSVINTLRTK 329
GKS++IN L+ K
Sbjct: 111 GKSTIINKLKGK 122
>pdb|4DCS|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Sulfate Ion And Gdp
pdb|4DCT|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Half-Occupacy Gdp
pdb|4DCU|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With Gdp
pdb|4DCV|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Gmppcp
Length = 456
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 31/125 (24%), Positives = 55/125 (44%), Gaps = 17/125 (13%)
Query: 210 IDSSDVVVQVLDARDPQGTRCHHLERHLKEHCKHKHMILLLNKCDLVPAWATKGWLRVLS 269
+D +DV++ +++ R +G E + K ++L +NK D +R
Sbjct: 100 MDEADVIIFMVNGR--EGVTAADEEVAKILYRTKKPVVLAVNKLD-------NTEMRANI 150
Query: 270 KEYPSLAFH----ASINKSFGKGSLLSVL----RQFARLKSDKQAISVGFVGYPNVGKSS 321
++ SL F S G G LL + + K +++ I +G PNVGKSS
Sbjct: 151 YDFYSLGFGEPYPISGTHGLGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSS 210
Query: 322 VINTL 326
++N +
Sbjct: 211 LVNAM 215
>pdb|1T9H|A Chain A, The Crystal Structure Of Yloq, A Circularly Permuted
Gtpase
Length = 307
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 40/80 (50%), Gaps = 7/80 (8%)
Query: 247 ILLLNKCDLVPAWATKGWLRVLSKEYPSLAFHASINKSFGKGSLLSVLRQFARLKSDKQA 306
I+ + K DL+ T+ ++ +++Y ++ + + S + SL ++ F DK
Sbjct: 121 IICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSKDQDSLADIIPHF----QDKTT 176
Query: 307 ISVGFVGYPNVGKSSVINTL 326
+ F G VGKSS++N +
Sbjct: 177 V---FAGQSGVGKSSLLNAI 193
>pdb|2HJG|A Chain A, The Crystal Structure Of The B. Subtilis Yphc Gtpase In
Complex With Gdp
Length = 436
Score = 34.7 bits (78), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 50/120 (41%), Gaps = 13/120 (10%)
Query: 211 DSSDVVVQVLDARDPQGTRCHHLERHLKEHCKHKHMILLLNKCDLVPAWATKGWLRVLS- 269
D +DV++ ++ R +G E + K ++L +NK D A L
Sbjct: 81 DEADVIIFXVNGR--EGVTAADEEVAKILYRTKKPVVLAVNKLDNTEXRANIYDFYSLGF 138
Query: 270 -KEYPSLAFHASINKSFGKGSLLSVL----RQFARLKSDKQAISVGFVGYPNVGKSSVIN 324
+ YP H G G LL + + K +++ I +G PNVGKSS++N
Sbjct: 139 GEPYPISGTHG-----LGLGDLLDAVAEHFKNIPETKYNEEVIQFCLIGRPNVGKSSLVN 193
>pdb|2DBY|A Chain A, Crystal Structure Of The Gtp-Binding Protein Ychf In
Complexed With Gdp
Length = 368
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 307 ISVGFVGYPNVGKSSVINTLRTKNVI 332
++VG VG PNVGKS++ N L N +
Sbjct: 2 LAVGIVGLPNVGKSTLFNALTRANAL 27
>pdb|2DWQ|A Chain A, Thermus Thermophilus Ychf Gtp-Binding Protein
pdb|2DWQ|B Chain B, Thermus Thermophilus Ychf Gtp-Binding Protein
Length = 368
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 18/26 (69%)
Query: 307 ISVGFVGYPNVGKSSVINTLRTKNVI 332
++VG VG PNVGKS++ N L N +
Sbjct: 2 LAVGIVGLPNVGKSTLFNALTRANAL 27
>pdb|1XZP|A Chain A, Structure Of The Gtp-Binding Protein Trme From Thermotoga
Maritima
pdb|1XZQ|A Chain A, Structure Of The Gtp-binding Protein Trme From Thermotoga
Maritima Complexed With 5-formyl-thf
Length = 482
Score = 31.6 bits (70), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 210 IDSSDVVVQVLDARDPQGTRCHHLERHLKEHCKHKHMILLLNKCDLV 256
I+ +D+V+ VLDA P +R + E K+K ++++NK D+V
Sbjct: 321 IEKADIVLFVLDASSP----LDEEDRKILERIKNKRYLVVINKVDVV 363
>pdb|4A9A|A Chain A, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
pdb|4A9A|B Chain B, Structure Of Rbg1 In Complex With Tma46 Dfrp Domain
Length = 376
Score = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 18/19 (94%)
Query: 308 SVGFVGYPNVGKSSVINTL 326
SVGFVG+P+VGKS++++ L
Sbjct: 74 SVGFVGFPSVGKSTLLSKL 92
>pdb|2CLQ|A Chain A, Structure Of Mitogen-Activated Protein Kinase Kinase
Kinase 5
pdb|2CLQ|B Chain B, Structure Of Mitogen-Activated Protein Kinase Kinase
Kinase 5
Length = 295
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 63/138 (45%), Gaps = 29/138 (21%)
Query: 181 EGDGFRDLVRHTMFEKGQSKRI------WGELYKVIDSSD---VVVQVLDARDPQGTRCH 231
EGD DL+ + R+ +G +Y D S+ + ++ + RD + ++
Sbjct: 7 EGDCESDLLEYDYEYDENGDRVVLGKGTYGIVYAGRDLSNQVRIAIKEIPERDSRYSQPL 66
Query: 232 HLERHLKEHCKHKHMILLLNKCDLVPAWATKGWLRVLSKEYPSLAFHASINKSFGKGSLL 291
H E L +H KHK+++ L +++ G++++ ++ P GSL
Sbjct: 67 HEEIALHKHLKHKNIVQYLG------SFSENGFIKIFMEQVPG-------------GSLS 107
Query: 292 SVLR-QFARLKSDKQAIS 308
++LR ++ LK ++Q I
Sbjct: 108 ALLRSKWGPLKDNEQTIG 125
>pdb|1MKY|A Chain A, Structural Analysis Of The Domain Interactions In Der, A
Switch Protein Containing Two Gtpase Domains
Length = 439
Score = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 306 AISVGFVGYPNVGKSSVINTLRTKNVILFFP 336
AI V VG PNVGKS++ N + K L P
Sbjct: 180 AIKVAIVGRPNVGKSTLFNAILNKERALVSP 210
>pdb|1UDX|A Chain A, Crystal Structure Of The Conserved Protein Tt1381 From
Thermus Thermophilus Hb8
Length = 416
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 299 RLKSDKQAIS-VGFVGYPNVGKSSVINTL 326
RL+ + I+ VG VGYPN GKSS++ +
Sbjct: 149 RLRLELMLIADVGLVGYPNAGKSSLLAAM 177
>pdb|3VW6|A Chain A, Crystal Structure Of Human Apoptosis Signal-Regulating
Kinase 1 (Ask1) With Imidazopyridine Inhibitor
pdb|3VW6|B Chain B, Crystal Structure Of Human Apoptosis Signal-Regulating
Kinase 1 (Ask1) With Imidazopyridine Inhibitor
Length = 269
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 55/114 (48%), Gaps = 23/114 (20%)
Query: 199 SKRIWGELYKVIDSSD---VVVQVLDARDPQGTRCHHLERHLKEHCKHKHMILLLNKCDL 255
K +G +Y D S+ + ++ + RD + ++ H E L +H KHK+++ L
Sbjct: 17 GKGTYGIVYAGRDLSNQVRIAIKEIPERDSRYSQPLHEEIALHKHLKHKNIVQYLG---- 72
Query: 256 VPAWATKGWLRVLSKEYPSLAFHASINKSFGKGSLLSVLR-QFARLKSDKQAIS 308
+++ G++++ ++ P GSL ++LR ++ LK ++Q I
Sbjct: 73 --SFSENGFIKIFMEQVPG-------------GSLSALLRSKWGPLKDNEQTIG 111
>pdb|2WJH|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJH|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 166
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 309 VGFVGYPNVGKSSVINTLRTKNV 331
+ +G PNVGKS++ N L +NV
Sbjct: 6 IALIGNPNVGKSTIFNALTGENV 28
>pdb|2WJI|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJI|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 165
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 309 VGFVGYPNVGKSSVINTLRTKNV 331
+ +G PNVGKS++ N L +NV
Sbjct: 6 IALIGNPNVGKSTIFNALTGENV 28
>pdb|2WJG|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJG|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 188
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 309 VGFVGYPNVGKSSVINTLRTKNV 331
+ +G PNVGKS++ N L +NV
Sbjct: 10 IALIGNPNVGKSTIFNALTGENV 32
>pdb|2WJJ|A Chain A, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
pdb|2WJJ|B Chain B, Structure And Function Of The Feob G-Domain From
Methanococcus Jannaschii
Length = 168
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 309 VGFVGYPNVGKSSVINTLRTKNV 331
+ +G PNVGKS++ N L +NV
Sbjct: 7 IALIGNPNVGKSTIFNALTGENV 29
>pdb|3LX4|A Chain A, Stepwise [fefe]-Hydrogenase H-Cluster Assembly Revealed In
The Structure Of Hyda(Deltaefg)
pdb|3LX4|B Chain B, Stepwise [fefe]-Hydrogenase H-Cluster Assembly Revealed In
The Structure Of Hyda(Deltaefg)
Length = 457
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 231 HHLERHLKEHCKHKHMILLLNKCDLVPAWATKGWLRVLSKEYPSLAFHASINKS 284
H L HL+ H + + C GW+ +L K YP L + S KS
Sbjct: 107 HRLTEHLEAHPHSDEPLPMFTSC-------CPGWIAMLEKSYPDLIPYVSSCKS 153
>pdb|3GEH|A Chain A, Crystal Structure Of Mnme From Nostoc In Complex With Gdp,
Folinic Acid And Zn
Length = 462
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 10/63 (15%)
Query: 211 DSSDVVVQVLDARDPQGTRCHHLERHLKEHCKHKHMILLLNKCDLVPAWATKGWLRVLSK 270
+++D+V+ +DA T ++ + E KH+ +IL++NK DLV + S
Sbjct: 302 NTADLVLLTIDA----ATGWTTGDQEIYEQVKHRPLILVMNKIDLVEKQ------LITSL 351
Query: 271 EYP 273
EYP
Sbjct: 352 EYP 354
>pdb|2OHF|A Chain A, Crystal Structure Of Human Ola1 In Complex With Amppcp
Length = 396
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 306 AISVGFVGYPNVGKSSVINTL 326
++ +G VG PNVGKS+ N L
Sbjct: 22 SLKIGIVGLPNVGKSTFFNVL 42
>pdb|3R9W|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp And
Nucleotides 1506- 1542 Of 16s Ribosomal Rna
pdb|3R9X|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp,
Nucleotides 1506- 1542 Of 16s Ribosomal Rna, And Ksga
Length = 307
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 309 VGFVGYPNVGKSSVINTLRTKNVILFFPAS 338
V VG PNVGKS+++N L V + P +
Sbjct: 12 VAIVGKPNVGKSTLLNNLLGTKVSIISPKA 41
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 309 VGFVGYPNVGKSSVINTLRTKNVILFFPAS 338
V VG PNVGKS+++N L V + P +
Sbjct: 13 VAIVGKPNVGKSTLLNNLLGTKVSIISPKA 42
>pdb|3KXL|A Chain A, Crystal Structure Of Ssgbp Mutation Variant G235s
pdb|3KXL|B Chain B, Crystal Structure Of Ssgbp Mutation Variant G235s
Length = 364
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 308 SVGFVGYPNVGKSSVINTL 326
S+G VGY N GK+S+ N+L
Sbjct: 181 SIGIVGYTNSGKTSLFNSL 199
>pdb|2QTF|A Chain A, Crystal Structure Of A Gtp-Binding Protein From The
Hyperthermophilic Archaeon Sulfolobus Solfataricus
pdb|2QTH|A Chain A, Crystal Structure Of A Gtp-Binding Protein From The
Hyperthermophilic Archaeon Sulfolobus Solfataricus In
Complex With Gdp
pdb|3KXI|A Chain A, Crystal Structure Of Ssgbp And Gdp Complex
Length = 364
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 308 SVGFVGYPNVGKSSVINTL 326
S+G VGY N GK+S+ N+L
Sbjct: 181 SIGIVGYTNSGKTSLFNSL 199
>pdb|3KXK|A Chain A, Crystal Structure Of Ssgbp Mutation Variant G235p
pdb|3KXK|B Chain B, Crystal Structure Of Ssgbp Mutation Variant G235p
Length = 364
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 308 SVGFVGYPNVGKSSVINTL 326
S+G VGY N GK+S+ N+L
Sbjct: 181 SIGIVGYTNSGKTSLFNSL 199
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 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,647,684
Number of Sequences: 62578
Number of extensions: 428357
Number of successful extensions: 1119
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1092
Number of HSP's gapped (non-prelim): 37
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
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: 52 (24.6 bits)