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= psy13475
(468 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QPT|A Chain A, Crystal Structure Of An Ehd Atpase Involved In Membrane
Remodelling
Length = 550
Score = 167 bits (424), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 121/400 (30%), Positives = 190/400 (47%), Gaps = 30/400 (7%)
Query: 53 KTIETTLKELKRLYDNAIKPLEITYKYRDLSNRHFADPEIFSKPLVLFMGPWSGGKSSII 112
+ I T LK LY + PLE Y++ + D + KP+VL G +S GK+S I
Sbjct: 23 EAIRTVTSSLKELYRTKLLPLEEHYRFGSFHSPALEDADFDGKPMVLVAGQYSTGKTSFI 82
Query: 113 NYLLDNEYSQNSLRTGAEPSPAYFNILSWGESPTILDGTQLAAD--WTFSGLQKFXXXXX 170
YLL+ E + R G EP+ F + GE+ + G L D F L F
Sbjct: 83 QYLLEQEVPGS--RVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFL 140
Query: 171 XXXXXXXXPHPLLEKINIVEIPGILEIRKQ-VERQFPFNDACQWFIDRADIIFLVYDPSK 229
P+ +LE I+I++ PGIL KQ V R + F +WF +R D+I L++D K
Sbjct: 141 NRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHK 200
Query: 230 LDVGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPLMSSSEPPVMY 289
L++ E + L+G E + R++LNKAD V+ ++LMRV G L+W + ++ + E +Y
Sbjct: 201 LEISDEFSEAIGALRGHEDKIRVVLNKADMVETQQLMRVYGALMWALGKVVGTPEVLRVY 260
Query: 290 STSLWSNPYEVGAPIRLLQAQEHAFLRDL----RNAIDKRVENKIASARRFAVRVRNHAK 345
S WS P V RL + +E RD+ R+A +++ + + AR VR HA
Sbjct: 261 IGSFWSQPLLVPDNRRLFELEEQDLFRDIQGLPRHAALRKLNDLVKRAR----LVRVHA- 315
Query: 346 MVDCYLTTYYNHK--TFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISRYDLPDPEVYRD 403
Y+ +Y + T FG K I++ P I+A + +IS D PD + ++
Sbjct: 316 ----YIISYLKKEMPTVFGKENKKKQLILKLPV---IFAKIQLEHHISPGDFPDCQKMQE 368
Query: 404 FFRLNPVFEFKKLSDTCTYFRGCPINRLDVAIAYDLPELV 443
+ +F L + LD +A D+ +L+
Sbjct: 369 LLMAHDFTKFHSLKPKL-------LEALDDMLAQDIAKLM 401
>pdb|3NKY|A Chain A, Structure Of A Mutant P44s Of Foot-And-Mouth Disease Virus
Rna- Dependent Rna Polymerase
Length = 476
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++P E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRPMEKVRAGKTRIVDVLPV 186
>pdb|3KNA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
pdb|3KOA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
And Gtp
Length = 476
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++P E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRPMEKVRAGKTRIVDVLPV 186
>pdb|3KMQ|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna, Tetragonal
Structure
pdb|3KMS|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna Trigonal
Structure
Length = 476
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++P E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRPMEKVRAGKTRIVDVLPV 186
>pdb|3KLV|A Chain A, M296i G62s Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
Length = 476
Score = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++P E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRPMEKVRAGKTRIVDVLPV 186
>pdb|1U09|A Chain A, Footand Mouth Disease Virus Rna-Dependent Rna Polymerase
pdb|1WNE|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna
pdb|2E9R|X Chain X, Foot-And-Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna And With Ribavirin
pdb|2E9T|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9T|D Chain D, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9Z|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase In Complex
With A Template- Primer Rna, Atp And Utp
pdb|2EC0|A Chain A, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
pdb|2EC0|D Chain D, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
Length = 476
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++P E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRPMEKVRAGKTRIVDVLPV 186
>pdb|2D7S|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With Vpg Protein
pdb|2F8E|X Chain X, Foot And Mouth Disease Virus Rna-dependent Rna Polymerase
In Complex With Uridylylated Vpg Protein
Length = 474
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++P E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRPMEKVRAGKTRIVDVLPV 186
>pdb|3NL0|A Chain A, Mutant P44s M296i Of Foot-And-Mouth Disease Virus
Rna-Dependent Rna Polymerase
Length = 475
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++P E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRPMEKVRAGKTRIVDVLPV 186
>pdb|3NMA|A Chain A, Mutant P169s Of Foot-And-Mouth Disease Virus Rna Dependent
Rna- Polymerase
Length = 476
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++ E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRSMEKVRAGKTRIVDVLPV 186
>pdb|4IQX|A Chain A, Mutant P44s P169s M296i Of Foot-and-mouth Disease Virus
Rna-dependent Rna Polymerase
Length = 481
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 26/48 (54%)
Query: 232 VGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPL 279
VGPE EA L ++ REY+ D+++ E +R T I ++ P+
Sbjct: 139 VGPEVEAALKLMEKREYKFACQTFLKDEIRSMEKVRAGKTRIVDVLPV 186
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 54/233 (23%), Positives = 96/233 (41%), Gaps = 44/233 (18%)
Query: 226 DPSKLDVGPETEA-----ILDQLKGREYQTR----IILNKADQVKPEELMRVQGTLIWNI 276
D KLD G A + D ++ R +TR ++L++AD E L + I+++
Sbjct: 112 DIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEAD----EMLNKGFKEQIYDV 167
Query: 277 SPLMSSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRF 336
+ + V+ S +L P+EV + F+ D + KR E + ++F
Sbjct: 168 YRYLPPATQVVLISATL---PHEV-------LEMTNKFMTDPIRILVKRDELTLEGIKQF 217
Query: 337 AVRVRNHA----KMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISR 392
V V + D Y T F N K+ D + E ++ + T++++
Sbjct: 218 FVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANF-----TVSSMHG 272
Query: 393 YDLPDPEVYRDFFRLNPVFEFKK-----LSDTCTYFRGCPINRLDVAIAYDLP 440
D+P E R + + EF+ L T + RG + ++ + I YDLP
Sbjct: 273 -DMPQKE------RESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 318
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 12/62 (19%)
Query: 380 IYAGLSTLTNISRYDLPDPEVYRDFFRLNPVFEFKKLSDTCTYFRGCPINRLDVAIAYDL 439
I+ G+ +SRY + ++DF R + L T + RG I R+++A YD+
Sbjct: 61 IHRGMPQEERLSRY-----QQFKDFQR-------RILVATNLFGRGMDIERVNIAFNYDM 108
Query: 440 PE 441
PE
Sbjct: 109 PE 110
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 12/62 (19%)
Query: 380 IYAGLSTLTNISRYDLPDPEVYRDFFRLNPVFEFKKLSDTCTYFRGCPINRLDVAIAYDL 439
I+ G+ +SRY + ++DF R + L T + RG I R+++A YD+
Sbjct: 279 IHRGMPQEERLSRY-----QQFKDFQR-------RILVATNLFGRGMDIERVNIAFNYDM 326
Query: 440 PE 441
PE
Sbjct: 327 PE 328
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 53/233 (22%), Positives = 96/233 (41%), Gaps = 44/233 (18%)
Query: 226 DPSKLDVGPETEA-----ILDQLKGREYQTR----IILNKADQVKPEELMRVQGTLIWNI 276
D KLD G A + D ++ R +TR ++L++AD E L + I+++
Sbjct: 127 DIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEAD----EMLNKGFKEQIYDV 182
Query: 277 SPLMSSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRF 336
+ + V+ S +L P+E+ + F+ D + KR E + ++F
Sbjct: 183 YRYLPPATQVVLISATL---PHEI-------LEMTNKFMTDPIRILVKRDELTLEGIKQF 232
Query: 337 AVRVRNHA----KMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISR 392
V V + D Y T F N K+ D + E ++ + T++++
Sbjct: 233 FVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANF-----TVSSM-H 286
Query: 393 YDLPDPEVYRDFFRLNPVFEFKK-----LSDTCTYFRGCPINRLDVAIAYDLP 440
D+P E R + + EF+ L T + RG + ++ + I YDLP
Sbjct: 287 GDMPQKE------RESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 333
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 53/233 (22%), Positives = 96/233 (41%), Gaps = 44/233 (18%)
Query: 226 DPSKLDVGPETEA-----ILDQLKGREYQTR----IILNKADQVKPEELMRVQGTLIWNI 276
D KLD G A + D ++ R +TR ++L++AD E L + I+++
Sbjct: 112 DIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEAD----EMLNKGFKEQIYDV 167
Query: 277 SPLMSSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRF 336
+ + V+ S +L P+E+ + F+ D + KR E + ++F
Sbjct: 168 YRYLPPATQVVLISATL---PHEI-------LEMTNKFMTDPIRILVKRDELTLEGIKQF 217
Query: 337 AVRVRNHA----KMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISR 392
V V + D Y T F N K+ D + E ++ + T++++
Sbjct: 218 FVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANF-----TVSSMHG 272
Query: 393 YDLPDPEVYRDFFRLNPVFEFKK-----LSDTCTYFRGCPINRLDVAIAYDLP 440
D+P E R + + EF+ L T + RG + ++ + I YDLP
Sbjct: 273 -DMPQKE------RESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 318
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 12/62 (19%)
Query: 380 IYAGLSTLTNISRYDLPDPEVYRDFFRLNPVFEFKKLSDTCTYFRGCPINRLDVAIAYDL 439
I+ G+ +SRY + ++DF R + L T + RG I R+++A YD+
Sbjct: 280 IHRGMPQEERLSRY-----QQFKDFQR-------RILVATNLFGRGMDIERVNIAFNYDM 327
Query: 440 PE 441
PE
Sbjct: 328 PE 329
>pdb|2YIK|A Chain A, Catalytic Domain Of Clostridium Thermocellum Celt
Length = 611
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 59 LKELKRLYDNAIKPLEITYKYRDLSNRHFADPEIFSKPLVLFMGPWSGGKSSII--NYLL 116
L E+ LYD + E +Y+ SN++ + F KP+ + WSGG ++ Y+
Sbjct: 329 LAEINDLYDKDSQNFED--RYKRASNKNQWEQIDFWKPIQDLLDKWSGGGITVTPGGYVF 386
Query: 117 DNEYSQNSLRTGAE 130
N++ T A+
Sbjct: 387 LNQWGSARYNTAAQ 400
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 12/62 (19%)
Query: 380 IYAGLSTLTNISRYDLPDPEVYRDFFRLNPVFEFKKLSDTCTYFRGCPINRLDVAIAYDL 439
I+ G+ +SRY + ++DF R + L T + RG I R+++A YD+
Sbjct: 280 IHRGMPQEERLSRY-----QQFKDFQR-------RILVATNLFGRGMDIERVNIAFNYDM 327
Query: 440 PE 441
PE
Sbjct: 328 PE 329
>pdb|3R77|A Chain A, Crystal Structure Of The D38a Mutant Of Isochorismatase
Phzd From Pseudomonas Fluorescens 2-79 In Complex With
2-Amino-2- Desoxyisochorismate Adic
pdb|3R77|B Chain B, Crystal Structure Of The D38a Mutant Of Isochorismatase
Phzd From Pseudomonas Fluorescens 2-79 In Complex With
2-Amino-2- Desoxyisochorismate Adic
Length = 209
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 1/65 (1%)
Query: 187 NIVEIPGILEIRKQVERQFPFNDACQWFIDRADIIFLVYDPSKLDVGPETEAILDQLKGR 246
++ IP I+ R P N A QW ID + LV+ + + P +A+ DQ+ G
Sbjct: 2 HMTGIPSIVPYALPTSRDLPANLA-QWHIDPERAVLLVHAMQRYFLRPLPDALRDQVVGN 60
Query: 247 EYQTR 251
+ R
Sbjct: 61 AARIR 65
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 53/233 (22%), Positives = 96/233 (41%), Gaps = 44/233 (18%)
Query: 226 DPSKLDVGPETEA-----ILDQLKGREYQTR----IILNKADQVKPEELMRVQGTLIWNI 276
D KLD G A + D ++ R +TR ++L++AD E L + I+++
Sbjct: 149 DIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEAD----EMLNKGFKEQIYDV 204
Query: 277 SPLMSSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRF 336
+ + V+ S +L P+E+ + F+ D + KR E + ++F
Sbjct: 205 YRYLPPATQVVLISATL---PHEI-------LEMTNKFMTDPIRILVKRDELTLEGIKQF 254
Query: 337 AVRVRNHA----KMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISR 392
V V + D Y T F N K+ D + E ++ + T++++
Sbjct: 255 FVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANF-----TVSSM-H 308
Query: 393 YDLPDPEVYRDFFRLNPVFEFKK-----LSDTCTYFRGCPINRLDVAIAYDLP 440
D+P E R + + EF+ L T + RG + ++ + I YDLP
Sbjct: 309 GDMPQKE------RESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 355
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 53/233 (22%), Positives = 96/233 (41%), Gaps = 44/233 (18%)
Query: 226 DPSKLDVGPETEA-----ILDQLKGREYQTR----IILNKADQVKPEELMRVQGTLIWNI 276
D KLD G A + D ++ R +TR ++L++AD E L + I+++
Sbjct: 148 DIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEAD----EMLNKGFKEQIYDV 203
Query: 277 SPLMSSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRF 336
+ + V+ S +L P+E+ + F+ D + KR E + ++F
Sbjct: 204 YRYLPPATQVVLISATL---PHEI-------LEMTNKFMTDPIRILVKRDELTLEGIKQF 253
Query: 337 AVRVRNHA----KMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISR 392
V V + D Y T F N K+ D + E ++ + T++++
Sbjct: 254 FVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANF-----TVSSM-H 307
Query: 393 YDLPDPEVYRDFFRLNPVFEFKK-----LSDTCTYFRGCPINRLDVAIAYDLP 440
D+P E R + + EF+ L T + RG + ++ + I YDLP
Sbjct: 308 GDMPQKE------RESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 354
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 53/233 (22%), Positives = 96/233 (41%), Gaps = 44/233 (18%)
Query: 226 DPSKLDVGPETEA-----ILDQLKGREYQTR----IILNKADQVKPEELMRVQGTLIWNI 276
D KLD G A + D ++ R +TR ++L++AD E L + I+++
Sbjct: 149 DIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEAD----EMLNKGFKEQIYDV 204
Query: 277 SPLMSSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRF 336
+ + V+ S +L P+E+ + F+ D + KR E + ++F
Sbjct: 205 YRYLPPATQVVLISATL---PHEI-------LEMTNKFMTDPIRILVKRDELTLEGIKQF 254
Query: 337 AVRVRNHA----KMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISR 392
V V + D Y T F N K+ D + E ++ + T++++
Sbjct: 255 FVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANF-----TVSSM-H 308
Query: 393 YDLPDPEVYRDFFRLNPVFEFKK-----LSDTCTYFRGCPINRLDVAIAYDLP 440
D+P E R + + EF+ L T + RG + ++ + I YDLP
Sbjct: 309 GDMPQKE------RESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLP 355
>pdb|1N0V|C Chain C, Crystal Structure Of Elongation Factor 2
pdb|1N0V|D Chain D, Crystal Structure Of Elongation Factor 2
pdb|1N0U|A Chain A, Crystal Structure Of Yeast Elongation Factor 2 In Complex
With Sordarin
pdb|1S1H|T Chain T, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i.
pdb|2E1R|A Chain A, Structure Of Eef2 In Complex With A Sordarin Derivative
pdb|2NPF|A Chain A, Structure Of Eef2 In Complex With Moriniafungin
pdb|2NPF|B Chain B, Structure Of Eef2 In Complex With Moriniafungin
pdb|2P8W|T Chain T, Fitted Structure Of Eef2 In The 80s:eef2:gdpnp Cryo-Em
Reconstruction
pdb|3DNY|T Chain T, Fitting Of The Eef2 Crystal Structure Into The Cryo-Em
Density Map Of The Eef2.80s.Alf4-.Gdp Complex
Length = 842
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/115 (18%), Positives = 49/115 (42%), Gaps = 17/115 (14%)
Query: 186 INIVEIPGILEIRKQVERQFPFNDACQWFIDRADIIFLVYDPSKLDVGPETEAILDQLKG 245
IN+++ PG ++ +V D +D + + + +TE +L Q G
Sbjct: 100 INLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCV-----------QTETVLRQALG 148
Query: 246 REYQTRIILNKAD------QVKPEELMRVQGTLIWNISPLMSSSEPPVMYSTSLW 294
+ +++NK D QV E+L + + +++ ++S+ V+ ++
Sbjct: 149 ERIKPVVVINKVDRALLELQVSKEDLYQTFARTVESVNVIVSTYADEVLGDVQVY 203
>pdb|1U2R|A Chain A, Crystal Structure Of Adp-Ribosylated Ribosomal Translocase
From Saccharomyces Cerevisiae
pdb|1ZM2|A Chain A, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|C Chain C, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM2|E Chain E, Structure Of Adp-ribosylated Eef2 In Complex With
Catalytic Fragment Of Eta
pdb|1ZM3|A Chain A, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|C Chain C, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM3|E Chain E, Structure Of The Apo Eef2-Eta Complex
pdb|1ZM4|A Chain A, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|C Chain C, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM4|E Chain E, Structure Of The Eef2-Eta-Btad Complex
pdb|1ZM9|A Chain A, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|C Chain C, Structure Of Eef2-Eta In Complex With Pj34
pdb|1ZM9|E Chain E, Structure Of Eef2-Eta In Complex With Pj34
pdb|2P8X|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-Eef2:gdpnp
Cryo-Em Reconstruction
pdb|2P8Y|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdp:sordarin Cryo-Em Reconstruction
pdb|2P8Z|T Chain T, Fitted Structure Of Adpr-Eef2 In The 80s:adpr-
Eef2:gdpnp:sordarin Cryo-Em Reconstruction
pdb|3B78|A Chain A, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|C Chain C, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B78|E Chain E, Structure Of The Eef2-Exoa(R551h)-Nad+ Complex
pdb|3B82|A Chain A, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|C Chain C, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B82|E Chain E, Structure Of The Eef2-Exoa(E546h)-Nad+ Complex
pdb|3B8H|A Chain A, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|C Chain C, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|3B8H|E Chain E, Structure Of The Eef2-Exoa(E546a)-Nad+ Complex
pdb|2ZIT|A Chain A, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|C Chain C, Structure Of The Eef2-Exoa-Nad+ Complex
pdb|2ZIT|E Chain E, Structure Of The Eef2-Exoa-Nad+ Complex
Length = 842
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/115 (18%), Positives = 49/115 (42%), Gaps = 17/115 (14%)
Query: 186 INIVEIPGILEIRKQVERQFPFNDACQWFIDRADIIFLVYDPSKLDVGPETEAILDQLKG 245
IN+++ PG ++ +V D +D + + + +TE +L Q G
Sbjct: 100 INLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCV-----------QTETVLRQALG 148
Query: 246 REYQTRIILNKAD------QVKPEELMRVQGTLIWNISPLMSSSEPPVMYSTSLW 294
+ +++NK D QV E+L + + +++ ++S+ V+ ++
Sbjct: 149 ERIKPVVVINKVDRALLELQVSKEDLYQTFARTVESVNVIVSTYADEVLGDVQVY 203
>pdb|2NX2|A Chain A, Crystal Structure Of Protein Ypsa From Bacillus Subtilis,
Pfam Duf1273
Length = 181
Score = 29.3 bits (64), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 202 ERQFPFNDACQWFIDRADIIFLVYDPSK 229
E F Q+FID++D + L+YDP K
Sbjct: 115 ESPLQFKQKNQFFIDKSDGLLLLYDPEK 142
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
0.320 0.138 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,037,944
Number of Sequences: 62578
Number of extensions: 523078
Number of successful extensions: 1242
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1229
Number of HSP's gapped (non-prelim): 26
length of query: 468
length of database: 14,973,337
effective HSP length: 102
effective length of query: 366
effective length of database: 8,590,381
effective search space: 3144079446
effective search space used: 3144079446
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: 53 (25.0 bits)