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= 020346
(327 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T9H|A Chain A, The Crystal Structure Of Yloq, A Circularly Permuted
Gtpase
Length = 307
Score = 168 bits (425), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 103/297 (34%), Positives = 152/297 (51%), Gaps = 41/297 (13%)
Query: 26 CVVRALLKKIKRRVLVGDKVVVGSIDWVDRRGMIENVFQRSTEILDPPVANVDHLLLLFS 85
C R + +K K LVGD VV + + D+ G + + +R+ E++ PP+ NVD +L+FS
Sbjct: 38 CRGRGIFRKNKITPLVGDYVVYQAEN--DKEGYLMEIKERTNELIRPPICNVDQAVLVFS 95
Query: 86 MDQPKLEPFALTRFLVEAESTGIPLTLALNKVELVD----EEVLNTWKSRLHTWGYEPLF 141
QP L RFLV E+ I + + K++L++ E+ + + GY+
Sbjct: 96 AVQPSFSTALLDRFLVLVEANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYL 155
Query: 142 CSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGS 201
S + + L ++ +D+TTV G SGVGKSSL+NA+ P LG
Sbjct: 156 TSSKDQDSLADIIPHFQDKTTVFAGQSGVGKSSLLNAI----------------SPELG- 198
Query: 202 KWFEDQRVGEVSTKSGRGKHTTRHVSLLPLSGGGYLADTPGFNQPSLLKVTKQSLAQTFP 261
R E+S GRGKHTTRHV L+ S GG +ADTPGF+ + ++ L TFP
Sbjct: 199 -----LRTNEISEHLGRGKHTTRHVELIHTS-GGLVADTPGFSSLEFTDIEEEELGYTFP 252
Query: 262 EIKEMLKANEPAKCSFNNCLHLGEPGCVVKGDWE-------RYQYYFQLLDEIRIRE 311
+I+E + + C F CLHL EP C VK E RY +Y + + EI+ R+
Sbjct: 253 DIRE-----KSSSCKFRGCLHLKEPKCAVKQAVEDGELKQYRYDHYVEFMTEIKDRK 304
>pdb|1U0L|A Chain A, Crystal Structure Of Yjeq From Thermotoga Maritima
pdb|1U0L|B Chain B, Crystal Structure Of Yjeq From Thermotoga Maritima
pdb|1U0L|C Chain C, Crystal Structure Of Yjeq From Thermotoga Maritima
Length = 301
Score = 135 bits (340), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 90/300 (30%), Positives = 148/300 (49%), Gaps = 40/300 (13%)
Query: 17 NDKTGVELLCVVRALLKKIKRRVLVGDKVVVGSIDWVDRRGMIENVFQRSTEILDPPVAN 76
+++TG +LC +R + ++ VGD+V + G+IENV R + P VAN
Sbjct: 27 DEETGERILCKLRGKFRLQNLKIYVGDRVEYTPDET--GSGVIENVLHRKNLLTKPHVAN 84
Query: 77 VDHLLLLFSMDQPKLEPFALTRFLVEAESTGIPLTLALNKVELVDEEVLNTWK--SRLHT 134
VD ++L+ ++ P+ + + +FLV AE + + +NK++L DE+ L + +++
Sbjct: 85 VDQVILVVTVKMPETSTYIIDKFLVLAEKNELETVMVINKMDLYDEDDLRKVRELEEIYS 144
Query: 135 WGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADVDNW 194
Y + S ++ +G++ L + L+ + + + G SGVGKSSL+NA+
Sbjct: 145 GLYPIVKTSAKTGMGIEELKEYLKGKISTMAGLSGVGKSSLLNAINP------------- 191
Query: 195 FEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSLLPLSGGGYLADTPGFNQPSLLKVTKQ 254
G K RV EVS K RG+HTT LL GGY+ DTPGF + + +
Sbjct: 192 -----GLKL----RVSEVSEKLQRGRHTTTTAQLLKFDFGGYVVDTPGFANLEINDIEPE 242
Query: 255 SLAQTFPEIKEMLKANEPAKCSFNNCLHLGEPGCVVKGDWE-------RYQYYFQLLDEI 307
L F E + +C F++C H+ EP C VK E RY+ Y ++ E+
Sbjct: 243 ELKHYFKEFGD-------KQCFFSDCNHVDEPECGVKEAVENGEIAESRYENYVKMFYEL 295
>pdb|2YV5|A Chain A, Crystal Structure Of Yjeq From Aquifex Aeolicus
Length = 302
Score = 114 bits (285), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 83/281 (29%), Positives = 131/281 (46%), Gaps = 43/281 (15%)
Query: 38 RVLVGDKVVVGSIDW---VDRRGM-IENVFQRSTEILDPPVANVDHLLLLFSMDQPKLEP 93
+VL K+ G W VD IE V +R ++ P VANVD ++++ ++ P+
Sbjct: 37 KVLKKTKIYAGDYVWGEVVDPNTFAIEEVEERKNLLIRPKVANVDRVIIVETLKMPEFNN 96
Query: 94 FALTRFLVEAESTGIPLTLALNKVELVDEEVLNT---WKSRLHTWGYEPLFCSVESKLGL 150
+ L LV E + + NK++L++EE W S GY+ L S ++ G+
Sbjct: 97 YLLDNMLVVYEYFKVEPVIVFNKIDLLNEEEKKELERWISIYRDAGYDVLKVSAKTGEGI 156
Query: 151 DSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGSKWFEDQRVG 210
D L+ L ++ GPSGVGKSS+++ L E+ R
Sbjct: 157 DELVDYLEGFICILAGPSGVGKSSILSRLTG-----------------------EELRTQ 193
Query: 211 EVSTKSGRGKHTTRHVSLLPLSGGGYLADTPGFNQPSLLKVTKQSLAQTFPEIKEMLKAN 270
EVS K+ RG+HTT V L+P G ++ DTPGF++ K + + +E L+
Sbjct: 194 EVSEKTERGRHTTTGVRLIPFGKGSFVGDTPGFSKVEATMFVKPREVRNY--FREFLR-- 249
Query: 271 EPAKCSFNNCLHLGEPGCVVKG-------DWERYQYYFQLL 304
+C + +C H EPGC VK ERY+ Y +++
Sbjct: 250 --YQCKYPDCTHTNEPGCAVKEAVKNGEISCERYKSYLKII 288
>pdb|2RCN|A Chain A, Crystal Structure Of The Ribosomal Interacting Gtpase Yjeq
From The Enterobacterial Species Salmonella Typhimurium
Length = 358
Score = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 81/312 (25%), Positives = 152/312 (48%), Gaps = 52/312 (16%)
Query: 27 VVRALLKKIKRRVLVGDKVV----VGSIDWVDRRGMIENVFQRSTEI--------LDPPV 74
V R +++ R ++ GD+VV + + V+ +G++E V +R++ + + P
Sbjct: 69 VHRCNIRRTIRSLVTGDRVVWRPGKAAAEGVNVKGIVEAVHERTSVLTRPDFYDGVKPIA 128
Query: 75 ANVDHLLLLFSMDQPKLEPFALTRFLVEAESTGIPLTLALNKVELVDEEVLNTWKSRLHT 134
AN+D ++++ ++ P+L + R+LV E+ + + LNK++L+D+E ++ ++
Sbjct: 129 ANIDQIVIVSAI-LPELSLNIIDRYLVGCETLQVEPLIVLNKIDLLDDEGMDFVNEQMDI 187
Query: 135 W---GYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADV 191
+ GY L S ++ GL L + L + ++ G SGVGKSSL+NAL
Sbjct: 188 YRNIGYRVLMVSSHTQDGLKPLEEALTGRISIFAGQSGVGKSSLLNAL------------ 235
Query: 192 DNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSLLPLSGGGYLADTPGFNQPSLLKV 251
LG + + +VS SG G+HTT L GG + D+PG + L +
Sbjct: 236 -------LGLQ--NEILTNDVSNVSGLGQHTTTAARLYHFPHGGDVIDSPGVREFGLWHL 286
Query: 252 TKQSLAQTFPEIKEMLKANEPAKCSFNNCLHLGEPGCVVKGDWE-------RYQYYFQLL 304
+ + Q F E + L C + +C H +PGC ++ E R++ Y ++L
Sbjct: 287 EPEQITQGFVEFHDYL-----GHCKYRDCKHDADPGCAIREAVENGAIAETRFENYHRIL 341
Query: 305 D---EIRIREEF 313
+ +++ R+ F
Sbjct: 342 ESMAQVKTRKNF 353
>pdb|2YKR|W Chain W, 30s Ribosomal Subunit With Rsga Bound In The Presence Of
Gmppnp
Length = 350
Score = 107 bits (268), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 82/312 (26%), Positives = 152/312 (48%), Gaps = 52/312 (16%)
Query: 27 VVRALLKKIKRRVLVGDKVV----VGSIDWVDRRGMIENVFQRSTEI--------LDPPV 74
V R +++ R ++ GD+VV + + V+ +G++E V +R++ + + P
Sbjct: 61 VHRCNIRRTIRSLVTGDRVVWRPGKPAAEGVNVKGIVEAVHERTSVLTRPDFYDGVKPIA 120
Query: 75 ANVDHLLLLFSMDQPKLEPFALTRFLVEAESTGIPLTLALNKVELVDEEVLNTWKSRLHT 134
AN+D ++++ ++ P+L + R+LV E+ I + LNK++L+D+E + ++
Sbjct: 121 ANIDQIVIVSAI-LPELSLNIIDRYLVACETLQIEPIIVLNKIDLLDDEGMAFVNEQMDI 179
Query: 135 W---GYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADV 191
+ GY L S ++ GL L + L + ++ G SGVGKSSL+NAL
Sbjct: 180 YRNIGYRVLMVSSHTQDGLKPLEEALTGRISIFAGQSGVGKSSLLNAL------------ 227
Query: 192 DNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSLLPLSGGGYLADTPGFNQPSLLKV 251
LG + ++ +VS SG G+HTT L GG + D+PG + L +
Sbjct: 228 -------LGLQ--KEILTNDVSDNSGLGQHTTTAARLYHFPHGGDVIDSPGVREFGLWHL 278
Query: 252 TKQSLAQTFPEIKEMLKANEPAKCSFNNCLHLGEPGCVVKGDWE-------RYQYYFQLL 304
+ + Q F E + L C + +C H +PGC ++ E R++ Y ++L
Sbjct: 279 EPEQITQGFVEFHDYL-----GLCKYRDCKHDTDPGCAIREAVEEGKIAETRFENYHRIL 333
Query: 305 D---EIRIREEF 313
+ +++ R+ F
Sbjct: 334 ESMAQVKTRKNF 345
>pdb|4A2I|V Chain V, Cryo-Electron Microscopy Structure Of The 30s Subunit In
Complex With The Yjeq Biogenesis Factor
Length = 277
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 74/295 (25%), Positives = 136/295 (46%), Gaps = 59/295 (20%)
Query: 27 VVRALLKKIKRRVLVGDKVV--VGSIDWVDRRGMIENVFQRS--TEILDPPVANVDHLLL 82
V R +++ R ++ GD+VV G + +G++E V + S T + P AN+D +++
Sbjct: 27 VHRCNIRRTIRSLVTGDRVVWRPGKV-----KGIVEAVHETSVLTRPVKPIAANIDQIVI 81
Query: 83 LFSMDQPKLEPFALTRFLVEAESTGIPLTLALNKVELVDEEVLNTWKSRLHTW---GYEP 139
+ ++ P+L + R+LV E+ + + LNK++L+D+E ++ ++ + GY
Sbjct: 82 VSAI-LPELSLNIIDRYLVGCETLQVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRV 140
Query: 140 LFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADVDNWFEPIL 199
L S ++ GL L + L + ++ G SGVGKSSL+NAL L
Sbjct: 141 LMVSSHTQDGLKPLEEALTGRISIFAGQSGVGKSSLLNAL-------------------L 181
Query: 200 GSKWFEDQRVGEVSTKSGRGKHTTRHVSLLPLSGGGYLADTPGFNQPSLLKVTKQSLAQT 259
G + E+ T + L GG + D+PG + L + + + Q
Sbjct: 182 GLQ-------NEILTNTA--------ARLYHFPHGGDVIDSPGVREFGLWHLEPEQITQG 226
Query: 260 FPEIKEMLKANEPAKCSFNNCLHLGEPGCVVKGDWE-------RYQYYFQLLDEI 307
F E + L C + +C H +PGC ++ E R++ Y ++L+ +
Sbjct: 227 FVEFHDYL-----GHCKYRDCKHDADPGCAIREAVENGAIAETRFENYHRILESM 276
>pdb|3B1X|A Chain A, Crystal Structure Of An S. Thermophilus Nfeob E66a Mutant
Bound To Gmppnp
pdb|3B1X|B Chain B, Crystal Structure Of An S. Thermophilus Nfeob E66a Mutant
Bound To Gmppnp
Length = 272
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 82 LLFSMDQPKLE-PFALTRFLVEAESTGIPLTLALNKVELVDEE--VLNTWKSRLHTWGYE 138
+L +D LE LT L+E TGIP+T+ALN ++++D + +N K H G
Sbjct: 84 ILNVVDATNLERNLYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSYH-LGVP 139
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVG 166
+ S + G+D ++++ TT VG
Sbjct: 140 VVATSALKQTGVDQVVKKAAHTTTSTVG 167
>pdb|3B1V|A Chain A, Crystal Structure Of An S. Thermophilus Nfeob E67a Mutant
Bound To Mgmppnp
pdb|3B1W|A Chain A, Crystal Structure Of An S. Thermophilus Nfeob E67a Mutant
Bound To Gdp
pdb|3B1W|B Chain B, Crystal Structure Of An S. Thermophilus Nfeob E67a Mutant
Bound To Gdp
pdb|3B1W|C Chain C, Crystal Structure Of An S. Thermophilus Nfeob E67a Mutant
Bound To Gdp
pdb|3B1W|D Chain D, Crystal Structure Of An S. Thermophilus Nfeob E67a Mutant
Bound To Gdp
Length = 272
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 82 LLFSMDQPKLE-PFALTRFLVEAESTGIPLTLALNKVELVDEE--VLNTWKSRLHTWGYE 138
+L +D LE LT L+E TGIP+T+ALN ++++D + +N K H G
Sbjct: 84 ILNVVDATNLERNLYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSYH-LGVP 139
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVG 166
+ S + G+D ++++ TT VG
Sbjct: 140 VVATSALKQTGVDQVVKKAAHTTTSTVG 167
>pdb|3B1Z|A Chain A, Crystal Structure Of An S. Thermophilus Nfeob T35s Mutant
Without Nucleotide
Length = 272
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 82 LLFSMDQPKLE-PFALTRFLVEAESTGIPLTLALNKVELVDEE--VLNTWKSRLHTWGYE 138
+L +D LE LT L+E TGIP+T+ALN ++++D + +N K H G
Sbjct: 84 ILNVVDATNLERNLYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSYH-LGVP 139
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVG 166
+ S + G+D ++++ TT VG
Sbjct: 140 VVATSALKQTGVDQVVKKAAHTTTSTVG 167
>pdb|3B1Y|A Chain A, Crystal Structure Of An S. Thermophilus Nfeob T35a Mutant
Bound To Gdp
Length = 272
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 82 LLFSMDQPKLE-PFALTRFLVEAESTGIPLTLALNKVELVDEE--VLNTWKSRLHTWGYE 138
+L +D LE LT L+E TGIP+T+ALN ++++D + +N K H G
Sbjct: 84 ILNVVDATNLERNLYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSYH-LGVP 139
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVG 166
+ S + G+D ++++ TT VG
Sbjct: 140 VVATSALKQTGVDQVVKKAAHTTTSTVG 167
>pdb|3LX5|A Chain A, Crystal Structure Of Mgmppnp-Bound Nfeob From S.
Thermophilus
pdb|3LX8|A Chain A, Crystal Structure Of Gdp-Bound Nfeob From S. Thermophilus
pdb|3SS8|A Chain A, Crystal Structure Of Nfeob From S. Thermophilus Bound To
Gdp.Alf4- And K+
pdb|3SS8|B Chain B, Crystal Structure Of Nfeob From S. Thermophilus Bound To
Gdp.Alf4- And K+
Length = 272
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 82 LLFSMDQPKLE-PFALTRFLVEAESTGIPLTLALNKVELVDEE--VLNTWKSRLHTWGYE 138
+L +D LE LT L+E TGIP+T+ALN ++++D + +N K H G
Sbjct: 84 ILNVVDATNLERNLYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSYH-LGVP 139
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVG 166
+ S + G+D ++++ TT VG
Sbjct: 140 VVATSALKQTGVDQVVKKAAHTTTSTVG 167
>pdb|3TAH|A Chain A, Crystal Structure Of An S. Thermophilus Nfeob N11a Mutant
Bound To Mgdp
pdb|3TAH|B Chain B, Crystal Structure Of An S. Thermophilus Nfeob N11a Mutant
Bound To Mgdp
Length = 272
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 82 LLFSMDQPKLE-PFALTRFLVEAESTGIPLTLALNKVELVDEE--VLNTWKSRLHTWGYE 138
+L +D LE LT L+E TGIP+T+ALN ++++D + +N K H G
Sbjct: 84 ILNVVDATNLERNLYLTTQLIE---TGIPVTIALNMIDVLDGQGKKINVDKLSYH-LGVP 139
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVG 166
+ S + G+D ++++ TT VG
Sbjct: 140 VVATSALKQTGVDQVVKKAAHTTTSTVG 167
>pdb|1PUJ|A Chain A, Structure Of B. Subtilis Ylqf Gtpase
Length = 282
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 18/89 (20%)
Query: 109 PLTLALNKVELVDEEVLNTWKSRLHTWGYEPLFCSVESKLGLDSLL-----------QRL 157
P + LNK + D V WK G L + + GL+ ++ R+
Sbjct: 52 PRIMLLNKADKADAAVTQQWKEHFENQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRM 111
Query: 158 RDQ-------TTVIVGPSGVGKSSLINAL 179
R + +I+G VGKS+LIN L
Sbjct: 112 RAKGVKPRAIRALIIGIPNVGKSTLINRL 140
>pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritima
pdb|1E69|B Chain B, Smc Head Domain From Thermotoga Maritima
pdb|1E69|C Chain C, Smc Head Domain From Thermotoga Maritima
pdb|1E69|D Chain D, Smc Head Domain From Thermotoga Maritima
pdb|1E69|E Chain E, Smc Head Domain From Thermotoga Maritima
pdb|1E69|F Chain F, Smc Head Domain From Thermotoga Maritima
Length = 322
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 19/22 (86%)
Query: 159 DQTTVIVGPSGVGKSSLINALR 180
D+ T IVGP+G GKS++I+A++
Sbjct: 24 DRVTAIVGPNGSGKSNIIDAIK 45
>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 = 31.6 bits (70), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 42/104 (40%), Gaps = 33/104 (31%)
Query: 164 IVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTT 223
IVG VGKS+L+N L LG+K V +S K+G +
Sbjct: 14 IVGKPNVGKSTLLNNL-------------------LGTK------VSIISPKAGTTRMRV 48
Query: 224 RHVSLLPLSGGGYLADTPGFNQP--------SLLKVTKQSLAQT 259
V +P DTPG +P S++++ KQSL +
Sbjct: 49 LGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEA 92
>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 = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 46/105 (43%), Gaps = 17/105 (16%)
Query: 93 PFALTRFLVEAESTGIPLTLALNKVELVDEEVLNTW--------KSRLHTWGYEPLFCSV 144
PFA + + V+ + LNKV++ DE+ W K + T EP +
Sbjct: 34 PFATSAYGVDFSRK--ETIILLNKVDIADEKTTKKWVEFFKKQGKRVITTHKGEPRKVLL 91
Query: 145 ESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAA 189
+ KL D L + L IVG GKS++IN L+ +S A
Sbjct: 92 K-KLSFDRLARVL------IVGVPNTGKSTIINKLKGKRASSVGA 129
>pdb|3APM|A Chain A, Crystal Structure Of The Human Snp Pad4 Protein
Length = 666
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 49/100 (49%), Gaps = 3/100 (3%)
Query: 129 KSRLHTWGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
K+ L+ G E C+ ++ G + ++DQ T GP G G L+N R + +S A
Sbjct: 108 KALLYLTGVEISLCADITRTGKVKPTRAVKDQRTWTWGPCGQGAILLVNCDRDNLESS-A 166
Query: 189 ADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSL 228
D ++ + +L S+ +D + +STK+ + T + L
Sbjct: 167 MDCED--DEVLDSEDLQDMSLMTLSTKTPKDFFTNHTLVL 204
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 42/104 (40%), Gaps = 33/104 (31%)
Query: 164 IVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTT 223
IVG VGKS+L+N L LG+K V +S K+G +
Sbjct: 15 IVGKPNVGKSTLLNNL-------------------LGTK------VSIISPKAGTTRMRV 49
Query: 224 RHVSLLPLSGGGYLADTPGFNQP--------SLLKVTKQSLAQT 259
V +P DTPG +P S++++ KQSL +
Sbjct: 50 LGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEA 93
>pdb|1EWK|A Chain A, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Complexed With Glutamate
pdb|1EWK|B Chain B, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Complexed With Glutamate
pdb|1EWT|A Chain A, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Ligand Free Form I
pdb|1EWT|B Chain B, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Ligand Free Form I
pdb|1EWV|A Chain A, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Ligand Free Form Ii
pdb|1EWV|B Chain B, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Ligand Free Form Ii
pdb|1ISR|A Chain A, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Complexed With Glutamate And Gadolinium Ion
pdb|1ISS|A Chain A, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Complexed With An Antagonist
pdb|1ISS|B Chain B, Crystal Structure Of Metabotropic Glutamate Receptor
Subtype 1 Complexed With An Antagonist
Length = 490
Score = 31.2 bits (69), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 5/72 (6%)
Query: 28 VRALLKKIKRRVLVGDKVVVGSIDWVDRRGMIENVFQRST-----EILDPPVANVDHLLL 82
VR LL ++R +VG+ ++GS W DR +IE + ++ P V + D L
Sbjct: 264 VRGLLSAMRRLGVVGEFSLIGSDGWADRDEVIEGYEVEANGGITIKLQSPEVRSFDDYFL 323
Query: 83 LFSMDQPKLEPF 94
+D P+
Sbjct: 324 KLRLDTNTRNPW 335
>pdb|3QG5|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QG5|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINAL 179
P +V + LGL ++ + TV+ GP+G GKSSL A+
Sbjct: 3 PERLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAI 43
>pdb|3KS9|A Chain A, Metabotropic Glutamate Receptor Mglur1 Complexed With
Ly341495 Antagonist
pdb|3KS9|B Chain B, Metabotropic Glutamate Receptor Mglur1 Complexed With
Ly341495 Antagonist
Length = 496
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 5/72 (6%)
Query: 28 VRALLKKIKRRVLVGDKVVVGSIDWVDRRGMIENVFQRST-----EILDPPVANVDHLLL 82
VR LL ++R +VG+ ++GS W DR +IE + ++ P V + D L
Sbjct: 269 VRGLLSAMRRLGVVGEFSLIGSDGWADRDEVIEGYEVEANGGITIKLQSPEVRSFDDYFL 328
Query: 83 LFSMDQPKLEPF 94
+D P+
Sbjct: 329 KLRLDTNTRNPW 340
>pdb|3QF7|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QF7|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINAL 179
P +V + LGL ++ + TV+ GP+G GKSSL A+
Sbjct: 3 PERLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAI 43
>pdb|3THO|A Chain A, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND STATE
Length = 382
Score = 30.8 bits (68), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 139 PLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINAL 179
P +V + LGL ++ + TV+ GP+G GKSSL A+
Sbjct: 20 PERLTVRNFLGLKNVDIEFQSGITVVEGPNGAGKSSLFEAI 60
>pdb|3SOP|A Chain A, Crystal Structure Of Human Septin 3 Gtpase Domain
pdb|3SOP|B Chain B, Crystal Structure Of Human Septin 3 Gtpase Domain
Length = 270
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 16/85 (18%)
Query: 159 DQTTVIVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGSKWFEDQRVGEVSTKSGR 218
D ++VG SG+GKS+L+N L S + A+ +W K E + +G V + G
Sbjct: 2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKAS---SWNREEKIPKTVEIKAIGHVIEEGGV 58
Query: 219 GKHTTRHVSLLPLSGGGYLADTPGF 243
T + DTPGF
Sbjct: 59 KMKLT-------------VIDTPGF 70
>pdb|3BC9|A Chain A, Alpha-Amylase B In Complex With Acarbose
pdb|3BCD|A Chain A, Alpha-Amylase B In Complex With Maltotetraose And
Alpha-Cyclodextrin
pdb|3BCF|A Chain A, Alpha-Amylase B From Halothermothrix Orenii
Length = 599
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 76 NVDHLLLLFSMDQPKLEPFALTRFLVEAESTGIPLTLALNKV 117
N+ ++L+FS D K+ ALT + +++ GI + NKV
Sbjct: 32 NLTEIILIFSNDINKVSQLALTDLITDSDIQGIDYNIEGNKV 73
>pdb|1MKY|A Chain A, Structural Analysis Of The Domain Interactions In Der, A
Switch Protein Containing Two Gtpase Domains
Length = 439
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 67/159 (42%), Gaps = 32/159 (20%)
Query: 53 VDRRGMIEN----VFQRSTEILDPPVANVDHLLLLFSMDQPK---LEPFALTRFLVEAES 105
VD G+ +N + Q+ E+ + D L+LF +D + E +L FL
Sbjct: 54 VDTCGVFDNPQDIISQKXKEVTLNXIREAD--LVLFVVDGKRGITKEDESLADFL---RK 108
Query: 106 TGIPLTLALNKVELVDEEVLNTWKSRLHTWGY-EPLFCSVESKLGLDSLLQ--------- 155
+ + L NK E + E K L++ G+ EP+ S E + LD+ L+
Sbjct: 109 STVDTILVANKAENL-REFEREVKPELYSLGFGEPIPVSAEHNINLDTXLETIIKKLEEK 167
Query: 156 --------RLRDQTTV-IVGPSGVGKSSLINALRSSPHA 185
+ D V IVG VGKS+L NA+ + A
Sbjct: 168 GLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKERA 206
>pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformation Of Mj1267, An
Atp- Binding Cassette Of An Abc Transporter
Length = 257
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 158 RDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
+ T+I+GP+G GKS+LIN + A +
Sbjct: 32 KGDVTLIIGPNGSGKSTLINVITGFLKADEG 62
>pdb|1G9X|A Chain A, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|B Chain B, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|C Chain C, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
Length = 257
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 158 RDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
+ T+I+GP+G GKS+LIN + A +
Sbjct: 32 KGDVTLIIGPNGSGKSTLINVITGFLKADEG 62
>pdb|2QAG|C Chain C, Crystal Structure Of Human Septin Trimer 267
Length = 418
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 161 TTVIVGPSGVGKSSLINAL 179
T ++VG SG+GKS+LIN+L
Sbjct: 33 TLMVVGESGLGKSTLINSL 51
>pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free Atp-Binding
Cassette From An Abc Transporter
Length = 257
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 158 RDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
+ T+I+GP+G GKS+LIN + A +
Sbjct: 32 KGDVTLIIGPNGSGKSTLINVITGFLKADEG 62
>pdb|4DKT|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With
N-Acetyl-L-Threonyl-L-Alpha-Aspartyl-N5-[(1e)-2-
Fluoroethanimidoyl]-L-Ornithinamide
Length = 668
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 3/100 (3%)
Query: 129 KSRLHTWGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
K+ L+ E C+ ++ G + ++DQ T GP G G L+N R + +S A
Sbjct: 110 KALLYLTAVEISLCADITRTGKVKPTRAVKDQRTWTWGPCGQGAILLVNCDRDNLESS-A 168
Query: 189 ADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSL 228
D ++ + +L S+ +D + +STK+ + T + L
Sbjct: 169 MDCED--DEVLDSEDLQDMSLMTLSTKTPKDFFTNHTLVL 206
>pdb|2QAG|A Chain A, Crystal Structure Of Human Septin Trimer 267
Length = 361
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 161 TTVIVGPSGVGKSSLINAL 179
T ++VG SG+GKS+LIN+L
Sbjct: 39 TLMVVGESGLGKSTLINSL 57
>pdb|3FTQ|A Chain A, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
pdb|3FTQ|B Chain B, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
pdb|3FTQ|C Chain C, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
pdb|3FTQ|D Chain D, Crystal Structure Of Septin 2 In Complex With Gppnhp And
Mg2+
Length = 274
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 161 TTVIVGPSGVGKSSLINAL 179
T ++VG SG+GKS+LIN+L
Sbjct: 7 TLMVVGESGLGKSTLINSL 25
>pdb|2DW5|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With
N-Alpha-Benzoyl-N5-(2-Fluoro-1-Iminoethyl)-L-Ornithine
Amide
pdb|3B1T|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With O-Cl-Amidine
pdb|3B1U|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With O-F-Amidine
Length = 671
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 3/100 (3%)
Query: 129 KSRLHTWGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
K+ L+ E C+ ++ G + ++DQ T GP G G L+N R + +S A
Sbjct: 113 KALLYLTAVEISLCADITRTGKVKPTRAVKDQRTWTWGPCGQGAILLVNCDRDNLESS-A 171
Query: 189 ADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSL 228
D ++ + +L S+ +D + +STK+ + T + L
Sbjct: 172 MDCED--DEVLDSEDLQDMSLMTLSTKTPKDFFTNHTLVL 209
>pdb|3APN|A Chain A, Crystal Structure Of The Human Wild-Type Pad4 Protein
Length = 666
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 3/100 (3%)
Query: 129 KSRLHTWGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
K+ L+ E C+ ++ G + ++DQ T GP G G L+N R + +S A
Sbjct: 108 KALLYLTAVEISLCADITRTGKVKPTRAVKDQRTWTWGPCGQGAILLVNCDRDNLESS-A 166
Query: 189 ADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSL 228
D ++ + +L S+ +D + +STK+ + T + L
Sbjct: 167 MDCED--DEVLDSEDLQDMSLMTLSTKTPKDFFTNHTLVL 204
>pdb|1WD8|A Chain A, Calcium Free Form Of Human Peptidylarginine Deiminase
Type4 (Pad4)
Length = 670
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 3/100 (3%)
Query: 129 KSRLHTWGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
K+ L+ E C+ ++ G + ++DQ T GP G G L+N R + +S A
Sbjct: 112 KALLYLTAVEISLCADITRTGKVKPTRAVKDQRTWTWGPCGQGAILLVNCDRDNLESS-A 170
Query: 189 ADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSL 228
D ++ + +L S+ +D + +STK+ + T + L
Sbjct: 171 MDCED--DEVLDSEDLQDMSLMTLSTKTPKDFFTNHTLVL 208
>pdb|2DEW|X Chain X, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With Histone H3 N-Terminal Tail Including Arg8
pdb|2DEX|X Chain X, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With Histone H3 N-Terminal Peptide Including
Arg17
pdb|2DEY|X Chain X, Crystal Structure Of Human Peptidylarginine Deiminase 4 In
Complex With Histone H4 N-Terminal Tail Including Arg3
Length = 671
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 3/100 (3%)
Query: 129 KSRLHTWGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
K+ L+ E C+ ++ G + ++DQ T GP G G L+N R + +S A
Sbjct: 113 KALLYLTAVEISLCADITRTGKVKPTRAVKDQRTWTWGPCGQGAILLVNCDRDNLESS-A 171
Query: 189 ADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSL 228
D ++ + +L S+ +D + +STK+ + T + L
Sbjct: 172 MDCED--DEVLDSEDLQDMSLMTLSTKTPKDFFTNHTLVL 209
>pdb|1WD9|A Chain A, Calcium Bound Form Of Human Peptidylarginine Deiminase
Type4 (pad4)
pdb|1WDA|A Chain A, Crystal Structure Of Human Peptidylarginine Deiminase
Type4 (Pad4) In Complex With Benzoyl-L-Arginine Amide
Length = 670
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 48/100 (48%), Gaps = 3/100 (3%)
Query: 129 KSRLHTWGYEPLFCSVESKLGLDSLLQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDA 188
K+ L+ E C+ ++ G + ++DQ T GP G G L+N R + +S A
Sbjct: 112 KALLYLTAVEISLCADITRTGKVKPTRAVKDQRTWTWGPCGQGAILLVNCDRDNLESS-A 170
Query: 189 ADVDNWFEPILGSKWFEDQRVGEVSTKSGRGKHTTRHVSL 228
D ++ + +L S+ +D + +STK+ + T + L
Sbjct: 171 MDCED--DEVLDSEDLQDMSLMTLSTKTPKDFFTNHTLVL 208
>pdb|3TW4|A Chain A, Crystal Structure Of Human Septin 7 Gtpase Domain
pdb|3TW4|B Chain B, Crystal Structure Of Human Septin 7 Gtpase Domain
Length = 271
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 161 TTVIVGPSGVGKSSLINAL 179
T ++VG SG+GKS+LIN+L
Sbjct: 5 TLMVVGESGLGKSTLINSL 23
>pdb|2LKC|A Chain A, Free B.St If2-G2
pdb|2LKD|A Chain A, If2-G2 Gdp Complex
Length = 178
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 27/85 (31%)
Query: 75 ANVDHLLLLFSMDQPKLEPFALTRFLVEAESTGIPLTLALNKVELVDEEVLNTWKSRLHT 134
ANV ++ + MD+P+ P + + L+E LV EE
Sbjct: 106 ANVPIIVAINKMDKPEANPDRVMQELME--------------YNLVPEE----------- 140
Query: 135 WGYEPLFC--SVESKLGLDSLLQRL 157
WG + +FC S ++K GLD LL+ +
Sbjct: 141 WGGDTIFCKLSAKTKEGLDHLLEMI 165
>pdb|3T5D|A Chain A, Crystal Structure Of Septin 7 In Complex With Gdp
pdb|3T5D|C Chain C, Crystal Structure Of Septin 7 In Complex With Gdp
Length = 274
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 17/19 (89%)
Query: 161 TTVIVGPSGVGKSSLINAL 179
T ++VG SG+GKS+LIN+L
Sbjct: 10 TLMVVGESGLGKSTLINSL 28
>pdb|2QNR|A Chain A, Human Septin 2 In Complex With Gdp
pdb|2QNR|B Chain B, Human Septin 2 In Complex With Gdp
Length = 301
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 161 TTVIVGPSGVGKSSLINAL 179
T +VG SG+GKS+LIN+L
Sbjct: 20 TLXVVGESGLGKSTLINSL 38
>pdb|2QA5|A Chain A, Crystal Structure Of Sept2 G-Domain
pdb|2QA5|B Chain B, Crystal Structure Of Sept2 G-Domain
Length = 315
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 16/19 (84%)
Query: 161 TTVIVGPSGVGKSSLINAL 179
T +VG SG+GKS+LIN+L
Sbjct: 39 TLXVVGESGLGKSTLINSL 57
>pdb|1NIJ|A Chain A, Yjia Protein
pdb|4IXM|A Chain A, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
pdb|4IXM|B Chain B, Crystal Structure Of Zn(ii)-bound Yjia Gtpase From E. Coli
Length = 318
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 161 TTVIVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGSKWFEDQRVGEVSTK 215
T++ G G GK++L+ + + H A ++N F G +DQ +G+ +T+
Sbjct: 6 VTLLTGFLGAGKTTLLRHILNEQHGYKIAVIENEF----GEVSVDDQLIGDRATQ 56
>pdb|2E87|A Chain A, Crystal Structure Of Hypothetical Gtp-Binding Protein
Ph1320 From Pyrococcus Horikoshii Ot3, In Complex With
Gdp
Length = 357
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 101 VEAESTGIPLTLALNKVELVDEEVLNTWKSRLHTWGYEPLFCSVESKLGLD 151
V E +P + +NK+++ DEE + + + G P+ S G+D
Sbjct: 274 VHGEFKDLPFLVVINKIDVADEENIKRLEKFVKEKGLNPIKISALKGTGID 324
>pdb|2IWH|A Chain A, Structure Of Yeast Elongation Factor 3 In Complex With
Adpnp
pdb|2IWH|B Chain B, Structure Of Yeast Elongation Factor 3 In Complex With
Adpnp
pdb|2IX3|A Chain A, Structure Of Yeast Elongation Factor 3
pdb|2IX3|B Chain B, Structure Of Yeast Elongation Factor 3
Length = 986
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 163 VIVGPSGVGKSSLINAL 179
++GP+G GKS+LIN L
Sbjct: 703 AVIGPNGAGKSTLINVL 719
>pdb|3G60|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G60|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G61|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 33/62 (53%), Gaps = 12/62 (19%)
Query: 154 LQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGSKWFEDQRVGEVS 213
L+ + QT +VG SG GKS+++ L + +++P+ GS + + + + +++
Sbjct: 1054 LEVKKGQTLALVGSSGCGKSTVVQLL------------ERFYDPMAGSVFLDGKEIKQLN 1101
Query: 214 TK 215
+
Sbjct: 1102 VQ 1103
>pdb|3G5U|A Chain A, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
pdb|3G5U|B Chain B, Structure Of P-Glycoprotein Reveals A Molecular Basis For
Poly-Specific Drug Binding
Length = 1284
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 33/62 (53%), Gaps = 12/62 (19%)
Query: 154 LQRLRDQTTVIVGPSGVGKSSLINALRSSPHASDAADVDNWFEPILGSKWFEDQRVGEVS 213
L+ + QT +VG SG GKS+++ L + +++P+ GS + + + + +++
Sbjct: 1054 LEVKKGQTLALVGSSGCGKSTVVQLL------------ERFYDPMAGSVFLDGKEIKQLN 1101
Query: 214 TK 215
+
Sbjct: 1102 VQ 1103
>pdb|2IX8|A Chain A, Model For Eef3 Bound To An 80s Ribosome
Length = 976
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 163 VIVGPSGVGKSSLINAL 179
++GP+G GKS+LIN L
Sbjct: 697 AVIGPNGAGKSTLINVL 713
>pdb|2IW3|A Chain A, Elongation Factor 3 In Complex With Adp
pdb|2IW3|B Chain B, Elongation Factor 3 In Complex With Adp
Length = 986
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 163 VIVGPSGVGKSSLINAL 179
++GP+G GKS+LIN L
Sbjct: 703 AVIGPNGAGKSTLINVL 719
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 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,707,552
Number of Sequences: 62578
Number of extensions: 399823
Number of successful extensions: 1361
Number of sequences better than 100.0: 55
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1302
Number of HSP's gapped (non-prelim): 63
length of query: 327
length of database: 14,973,337
effective HSP length: 99
effective length of query: 228
effective length of database: 8,778,115
effective search space: 2001410220
effective search space used: 2001410220
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)