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= 000242
(1801 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BZC|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form I
pdb|3BZK|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form 2
Length = 785
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 50/85 (58%), Gaps = 1/85 (1%)
Query: 1323 QSEINNLSNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRA 1382
Q + +L +L G ++ G + V ++G F+ I + GL H+S LSE V + + +A
Sbjct: 643 QEGVESLKDLKPGMVLEGVVTNVTNFGAFVDI-GVHQDGLVHISALSEKFVKDPYEVVKA 701
Query: 1383 GEKVKVKILKVDKEKRRISLGMKSS 1407
G+ VKVK+++VD + R+ L M+ S
Sbjct: 702 GDIVKVKVMEVDIPRNRVGLSMRMS 726
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 59/109 (54%), Gaps = 13/109 (11%)
Query: 1223 SDLSTDVDTPGKH-------------LEKIEDLSPNMIVQGYVKNVTSKGCFIMLSRKLD 1269
+D+ ++D PG+ +E ++DL P M+++G V NVT+ G F+ + D
Sbjct: 620 TDILKELDKPGRDPRPEFKTAEFQEGVESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQD 679
Query: 1270 AKVLLSNLSDGYVESPEKEFPIGKLVAGRVLSVEPLSKRVEVTLKTSDS 1318
V +S LS+ +V+ P + G +V +V+ V+ RV ++++ SD+
Sbjct: 680 GLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDIPRNRVGLSMRMSDT 728
Score = 36.2 bits (82), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 347 LKASAFEGLVFTHSDVKPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLPHMSE------F 400
K + F+ V + D+KPGMV++G V V +FGA V L + +SE +
Sbjct: 637 FKTAEFQEGVESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQDGLVHISALSEKFVKDPY 696
Query: 401 EIVKPGKKFKV 411
E+VK G KV
Sbjct: 697 EVVKAGDIVKV 707
>pdb|2OCE|A Chain A, Crystal Structure Of Tex Family Protein Pa5201 From
Pseudomonas Aeruginosa
Length = 780
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 59/109 (54%), Gaps = 13/109 (11%)
Query: 1223 SDLSTDVDTPGKH-------------LEKIEDLSPNMIVQGYVKNVTSKGCFIMLSRKLD 1269
+D+ ++D PG+ +E ++DL P M+++G V NVT+ G F+ + D
Sbjct: 621 TDILKELDKPGRDPRPEFKTAEFQEGVESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQD 680
Query: 1270 AKVLLSNLSDGYVESPEKEFPIGKLVAGRVLSVEPLSKRVEVTLKTSDS 1318
V +S LS+ +V+ P + G +V +V+ V+ RV ++++ SD+
Sbjct: 681 GLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDIPRNRVGLSMRMSDT 729
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 50/85 (58%), Gaps = 1/85 (1%)
Query: 1323 QSEINNLSNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRA 1382
Q + +L +L G ++ G + V ++G F+ I + GL H+S LSE V + + +A
Sbjct: 644 QEGVESLKDLKPGMVLEGVVTNVTNFGAFVDI-GVHQDGLVHISALSEKFVKDPYEVVKA 702
Query: 1383 GEKVKVKILKVDKEKRRISLGMKSS 1407
G+ VKVK+++VD + R+ L M+ S
Sbjct: 703 GDIVKVKVMEVDIPRNRVGLSMRMS 727
Score = 36.2 bits (82), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 36/71 (50%), Gaps = 6/71 (8%)
Query: 347 LKASAFEGLVFTHSDVKPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLPHMSE------F 400
K + F+ V + D+KPGMV++G V V +FGA V L + +SE +
Sbjct: 638 FKTAEFQEGVESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQDGLVHISALSEKFVKDPY 697
Query: 401 EIVKPGKKFKV 411
E+VK G KV
Sbjct: 698 EVVKAGDIVKV 708
>pdb|2K4K|A Chain A, Solution Structure Of Gsp13 From Bacillus Subtilis
Length = 130
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 49/78 (62%), Gaps = 1/78 (1%)
Query: 1330 SNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVK 1389
+ VG + G++ +++YG F+ ++ GL H+SE++ V +I G++V+VK
Sbjct: 3 AKFEVGSVYTGKVTGLQAYGAFVALDEETQ-GLVHISEVTHGFVKDINEHLSVGDEVQVK 61
Query: 1390 ILKVDKEKRRISLGMKSS 1407
+L VD+EK +ISL ++++
Sbjct: 62 VLAVDEEKGKISLSIRAT 79
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase
Length = 723
Score = 47.4 bits (111), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 1330 SNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVK 1389
+ + VG + G++ R+ +G F+ I GL H+S++++ V+ + + G++V VK
Sbjct: 623 AEIEVGRVYTGKVTRIVDFGAFVAI-GGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVK 681
Query: 1390 ILKVDKEKRRISLGMKSS 1407
+L+VD++ RI L +K +
Sbjct: 682 VLEVDRQG-RIRLSIKEA 698
Score = 35.8 bits (81), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 1/81 (1%)
Query: 623 SHIHPNSVVHGYVCNIIETGCFVRFLGRLTGFAPRSKAVDGQRADLSKTYYVGQSVRSNI 682
+ I V G V I++ G FV G G S+ D + ++ +GQ V +
Sbjct: 623 AEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKV 682
Query: 683 LDVNSETGRITLSLKQSCCSS 703
L+V+ + GRI LS+K++ S
Sbjct: 683 LEVDRQ-GRIRLSIKEATEQS 702
Score = 33.1 bits (74), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 10/105 (9%)
Query: 345 GILKASAFEGLVFTHS---------DVKPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLP 395
G +K +A +G H+ +++ G V GKV + FGA V GG + L +
Sbjct: 599 GTVKIAATDGEKAKHAIRRIEEITAEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHIS 658
Query: 396 HMSEFEIVKPGKKFKVGAELVFRVLGV-KSKRITVTHKKTLVKSK 439
+++ + K ++G E+ +VL V + RI ++ K+ +S+
Sbjct: 659 QIADKRVEKVTDYLQMGQEVPVKVLEVDRQGRIRLSIKEATEQSQ 703
>pdb|1Q8K|A Chain A, Solution Structure Of Alpha Subunit Of Human Eif2
Length = 308
Score = 47.4 bits (111), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 44/74 (59%), Gaps = 1/74 (1%)
Query: 1333 HVGDIVIGQIKRVESYGLFITI-ENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKIL 1391
V D+V+ ++ ++ G ++++ E N+ G+ H+SELS + +I + R G VK++
Sbjct: 12 EVEDVVMVNVRSIQEMGAYVSLLEYNNIEGMIHLSELSRRRIRSINKLIRIGRNECVKVI 71
Query: 1392 KVDKEKRRISLGMK 1405
+VDKEK I L +
Sbjct: 72 RVDKEKGYIDLSKR 85
>pdb|1YZ6|A Chain A, Crystal Structure Of Intact Alpha Subunit Of Aif2 From
Pyrococcus Abyssi
Length = 274
Score = 47.0 bits (110), Expect = 9e-05, Method: Composition-based stats.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 1335 GDIVIGQIKRVESYGLFITI-ENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILKV 1393
G+ V+ +KR+ +YG F+ + E H+SE++ V NI + G+KV K+++V
Sbjct: 11 GEFVVATVKRIHNYGAFLELDEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRV 70
Query: 1394 DKEKRRISLGMK 1405
D K I L ++
Sbjct: 71 DPRKGHIDLSLR 82
>pdb|3AEV|A Chain A, Crystal Structure Of AEIF2ALPHA-Adim2p-Rrna Complex From
Pyrococcus Horikoshii Ot3
Length = 275
Score = 47.0 bits (110), Expect = 9e-05, Method: Composition-based stats.
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 1/72 (1%)
Query: 1335 GDIVIGQIKRVESYGLFITI-ENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILKV 1393
G+ V+ +KR+ +YG F+ + E H+SE++ V NI + G+KV K+++V
Sbjct: 12 GEFVVATVKRIHNYGAFLELDEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRV 71
Query: 1394 DKEKRRISLGMK 1405
D K I L ++
Sbjct: 72 DPRKGHIDLSLR 83
>pdb|1WI5|A Chain A, Solution Structure Of The S1 Rna Binding Domain From Human
Hypothetical Protein Baa11502
Length = 119
Score = 46.2 bits (108), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 41/88 (46%), Gaps = 5/88 (5%)
Query: 94 ETVQEGMVLTAYVKSIEDHGYILHFGLPSFTGFLPRNNLAE-----NSGIDVKPGLLLQG 148
E ++ GM+LT V S+EDHGY++ G+ FLP E N G +K G L
Sbjct: 17 EALKPGMLLTGTVSSLEDHGYLVDIGVDGTRAFLPLLKAQEYIRQKNKGAKLKVGQYLNC 76
Query: 149 VVRSIDRTRKVVYLSSDPDTVSKCVTKD 176
+V + VV LS VS + +
Sbjct: 77 IVEKVKGNGGVVSLSVGHSEVSTAIATE 104
>pdb|1SRO|A Chain A, S1 Rna Binding Domain, Nmr, 20 Structures
Length = 76
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 1330 SNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVK 1389
+ + VG + G++ R+ +G F+ I GL H+S++++ V+ + + G++V VK
Sbjct: 1 AEIEVGRVYTGKVTRIVDFGAFVAIGGGKE-GLVHISQIADKRVEKVTDYLQMGQEVPVK 59
Query: 1390 ILKVDKEKRRISLGMKSS 1407
+L+VD++ RI L +K +
Sbjct: 60 VLEVDRQG-RIRLSIKEA 76
Score = 35.0 bits (79), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 623 SHIHPNSVVHGYVCNIIETGCFVRFLGRLTGFAPRSKAVDGQRADLSKTYYVGQSVRSNI 682
+ I V G V I++ G FV G G S+ D + ++ +GQ V +
Sbjct: 1 AEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKV 60
Query: 683 LDVNSETGRITLSLKQS 699
L+V+ + GRI LS+K++
Sbjct: 61 LEVDRQ-GRIRLSIKEA 76
Score = 31.2 bits (69), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 360 SDVKPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLPHMSEFEIVKPGKKFKVGAELVFRV 419
++++ G V GKV + FGA V GG + L + +++ + K ++G E+ +V
Sbjct: 1 AEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKV 60
Query: 420 LGV-KSKRITVTHKKT 434
L V + RI ++ K+
Sbjct: 61 LEVDRQGRIRLSIKEA 76
>pdb|2EQS|A Chain A, Solution Structure Of The S1 Rna Binding Domain Of Human
Atp-Dependent Rna Helicase Dhx8
Length = 103
Score = 42.7 bits (99), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 3/72 (4%)
Query: 1334 VGDIVIGQIKRVESYGLFITIEN--TNLVGLCHVSELS-EDHVDNIETIYRAGEKVKVKI 1390
+GDI G++ + +G F+ +E GL H+SEL E V N+ + G++VKVK+
Sbjct: 12 IGDIYNGKVTSIMQFGCFVQLEGLRKRWEGLVHISELRREGRVANVADVVSKGQRVKVKV 71
Query: 1391 LKVDKEKRRISL 1402
L K +S+
Sbjct: 72 LSFTGTKTSLSM 83
>pdb|2OOE|A Chain A, Crystal Structure Of Hat Domain Of Murine Cstf-77
Length = 530
Score = 40.8 bits (94), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 31/54 (57%)
Query: 1703 ILEFKNGVADRGRSMFEGILSEYPKRTDLWSIYLDQEIRLGDVDLIRGLFERAI 1756
I E +N D+ R +E +++++P W +Y++ EI+ + D + LF+R +
Sbjct: 20 IREAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCL 73
>pdb|2AHO|B Chain B, Structure Of The Archaeal Initiation Factor Eif2 Alpha-
Gamma Heterodimer From Sulfolobus Solfataricus Complexed
With Gdpnp
pdb|3CW2|C Chain C, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|D Chain D, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|G Chain G, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|H Chain H, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3V11|B Chain B, Structure Of The Ternary Initiation Complex
Aif2:gdpnp:methionylated Initiator Trna
Length = 266
Score = 40.8 bits (94), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 41/72 (56%), Gaps = 1/72 (1%)
Query: 1335 GDIVIGQIKRVESYGLFITI-ENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILKV 1393
G+I+I +K+V YG ++++ E L SE+S V NI + + KV VK+++V
Sbjct: 12 GEILIATVKQVFDYGSYVSLDEYGGLQAFLPWSEVSSKWVKNIRDVLKENRKVIVKVIRV 71
Query: 1394 DKEKRRISLGMK 1405
D+ K + + +K
Sbjct: 72 DRRKGTVDVSLK 83
>pdb|2KHJ|A Chain A, Nmr Structure Of The Domain 6 Of The E. Coli Ribosomal
Protein S1
Length = 109
Score = 40.4 bits (93), Expect = 0.010, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 45/80 (56%), Gaps = 4/80 (5%)
Query: 1335 GDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILKVD 1394
G IV G++ V++ G + + + + G SE S D V++ + G++V+ K VD
Sbjct: 32 GAIVTGKVTAVDAKGATVELAD-GVEGYLRASEASRDRVEDATLVLSVGDEVEAKFTGVD 90
Query: 1395 KEKRRISLGMKSSYFKNDAD 1414
++ R ISL +++ K++AD
Sbjct: 91 RKNRAISLSVRA---KDEAD 107
Score = 32.3 bits (72), Expect = 2.5, Method: Composition-based stats.
Identities = 21/68 (30%), Positives = 30/68 (44%)
Query: 363 KPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLPHMSEFEIVKPGKKFKVGAELVFRVLGV 422
K G +V GKV AVD+ GA V+ GV+ S + VG E+ + GV
Sbjct: 30 KKGAIVTGKVTAVDAKGATVELADGVEGYLRASEASRDRVEDATLVLSVGDEVEAKFTGV 89
Query: 423 KSKRITVT 430
K ++
Sbjct: 90 DRKNRAIS 97
>pdb|2CQO|A Chain A, Solution Structure Of The S1 Rna Binding Domain Of Human
Hypothetical Protein Flj11067
Length = 119
Score = 40.4 bits (93), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 42/82 (51%), Gaps = 4/82 (4%)
Query: 1326 INNLSNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEK 1385
+ NL L+ I G++ V YG FI I GL H + +S VD I G+K
Sbjct: 16 MENLPALYT--IFQGEVAMVTDYGAFIKIPGCRKQGLVHRTHMSSCRVDKPSEIVDVGDK 73
Query: 1386 VKVKIL--KVDKEKRRISLGMK 1405
V VK++ ++ ++ ++SL MK
Sbjct: 74 VWVKLIGREMKNDRIKVSLSMK 95
Score = 33.5 bits (75), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 3/67 (4%)
Query: 367 VVKGKVIAVDSFGAIVQFPGGVK-ALCPLPHMSEFEIVKPGKKFKVGAELVFRVLG--VK 423
+ +G+V V +GA ++ PG K L HMS + KP + VG ++ +++G +K
Sbjct: 25 IFQGEVAMVTDYGAFIKIPGCRKQGLVHRTHMSSCRVDKPSEIVDVGDKVWVKLIGREMK 84
Query: 424 SKRITVT 430
+ RI V+
Sbjct: 85 NDRIKVS 91
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 40.0 bits (92), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 47/78 (60%), Gaps = 5/78 (6%)
Query: 1321 ASQSEINNLSNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSE----DHVDNI 1376
A+ + I N ++ VG+ ++G + + ++G F+++ GL H+S++ + V+N+
Sbjct: 654 ATINGIANPTSPEVGERILGSVVKTTTFGAFVSLLPGK-DGLLHISQIRKLAGGKRVENV 712
Query: 1377 ETIYRAGEKVKVKILKVD 1394
E + G+KV+V+I ++D
Sbjct: 713 EDVLGVGQKVQVEIAEID 730
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 39.7 bits (91), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 47/78 (60%), Gaps = 5/78 (6%)
Query: 1321 ASQSEINNLSNLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSE----DHVDNI 1376
A+ + I N ++ VG+ ++G + + ++G F+++ GL H+S++ + V+N+
Sbjct: 654 ATINGIANPTSPEVGERILGSVVKTTTFGAFVSLLPGK-DGLLHISQIRKLAGGKRVENV 712
Query: 1377 ETIYRAGEKVKVKILKVD 1394
E + G+KV+V+I ++D
Sbjct: 713 EDVLGVGQKVQVEIAEID 730
>pdb|4AID|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 39.3 bits (90), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 1333 HVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILK 1392
VG I G++ +V +G F+ GL HVS++S + V + + G+ VKVK+L
Sbjct: 636 EVGKIYDGKVVKVVDFGAFVNFFGAK-DGLVHVSQISNERVAKPSDVLKEGQMVKVKLLG 694
Query: 1393 VDKEKRRISLGMK 1405
D ++ + L MK
Sbjct: 695 FD-DRGKTKLSMK 706
Score = 33.1 bits (74), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 9/93 (9%)
Query: 345 GILKASAFEGLVFTHS---------DVKPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLP 395
G++K SA +G + + + G + GKV+ V FGA V F G L +
Sbjct: 609 GVVKVSASDGAKIKAAIDWIKSITDEAEVGKIYDGKVVKVVDFGAFVNFFGAKDGLVHVS 668
Query: 396 HMSEFEIVKPGKKFKVGAELVFRVLGVKSKRIT 428
+S + KP K G + ++LG + T
Sbjct: 669 QISNERVAKPSDVLKEGQMVKVKLLGFDDRGKT 701
Score = 31.6 bits (70), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%)
Query: 454 ITHGWITKIEKHGCFVRFYNGVQGFAPRSELGLDPGCEPSSMYHVGQVVKCRIMS 508
I G + K+ G FV F+ G S++ + +PS + GQ+VK +++
Sbjct: 640 IYDGKVVKVVDFGAFVNFFGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLG 694
>pdb|4AM3|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
Length = 717
Score = 39.3 bits (90), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 1333 HVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILK 1392
VG I G++ +V +G F+ GL HVS++S + V + + G+ VKVK+L
Sbjct: 627 EVGKIYDGKVVKVVDFGAFVNFFGAK-DGLVHVSQISNERVAKPSDVLKEGQMVKVKLLG 685
Query: 1393 VDKEKRRISLGMK 1405
D ++ + L MK
Sbjct: 686 FD-DRGKTKLSMK 697
Score = 33.1 bits (74), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 9/93 (9%)
Query: 345 GILKASAFEGLVFTHS---------DVKPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLP 395
G++K SA +G + + + G + GKV+ V FGA V F G L +
Sbjct: 600 GVVKVSASDGAKIKAAIDWIKSITDEAEVGKIYDGKVVKVVDFGAFVNFFGAKDGLVHVS 659
Query: 396 HMSEFEIVKPGKKFKVGAELVFRVLGVKSKRIT 428
+S + KP K G + ++LG + T
Sbjct: 660 QISNERVAKPSDVLKEGQMVKVKLLGFDDRGKT 692
Score = 31.6 bits (70), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%)
Query: 454 ITHGWITKIEKHGCFVRFYNGVQGFAPRSELGLDPGCEPSSMYHVGQVVKCRIMS 508
I G + K+ G FV F+ G S++ + +PS + GQ+VK +++
Sbjct: 631 IYDGKVVKVVDFGAFVNFFGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLG 685
>pdb|1Q46|A Chain A, Crystal Structure Of The Eif2 Alpha Subunit From
Saccharomyces Cerevisia
Length = 175
Score = 38.9 bits (89), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1334 VGDIVIGQIKRVESYGLFITI-ENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILK 1392
+ DIV+ ++++ G ++ + E N+ G+ +SELS + +I+ + R G+ +L+
Sbjct: 15 IDDIVMVNVQQIAEMGAYVKLLEYDNIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLR 74
Query: 1393 VDKEKRRISLGMK 1405
VDKEK I L +
Sbjct: 75 VDKEKGYIDLSKR 87
>pdb|2A19|A Chain A, Pkr Kinase Domain- Eif2alpha- Amp-Pnp Complex.
pdb|2A1A|A Chain A, Pkr Kinase Domain-Eif2alpha Complex
Length = 175
Score = 38.9 bits (89), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 1/73 (1%)
Query: 1334 VGDIVIGQIKRVESYGLFITI-ENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILK 1392
+ DIV+ ++++ G ++ + E N+ G+ +SELS + +I+ + R G+ +L+
Sbjct: 15 IDDIVMVNVQQIAEMGAYVKLLEYDNIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLR 74
Query: 1393 VDKEKRRISLGMK 1405
VDKEK I L +
Sbjct: 75 VDKEKGYIDLSKR 87
>pdb|4AIM|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 38.9 bits (89), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 2/73 (2%)
Query: 1333 HVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILK 1392
+G I G++ +V +G F+ GL HVS++S + V + + G+ VKVK+L
Sbjct: 636 EIGKIYDGKVVKVVDFGAFVNFFGAK-DGLVHVSQISNERVAKPSDVLKEGQMVKVKLLG 694
Query: 1393 VDKEKRRISLGMK 1405
D ++ + L MK
Sbjct: 695 FD-DRGKTKLSMK 706
Score = 33.1 bits (74), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 40/93 (43%), Gaps = 9/93 (9%)
Query: 345 GILKASAFEGLVFTHS---------DVKPGMVVKGKVIAVDSFGAIVQFPGGVKALCPLP 395
G++K SA +G + + + G + GKV+ V FGA V F G L +
Sbjct: 609 GVVKVSASDGAKIKAAIDWIKSITDEAEIGKIYDGKVVKVVDFGAFVNFFGAKDGLVHVS 668
Query: 396 HMSEFEIVKPGKKFKVGAELVFRVLGVKSKRIT 428
+S + KP K G + ++LG + T
Sbjct: 669 QISNERVAKPSDVLKEGQMVKVKLLGFDDRGKT 701
Score = 31.6 bits (70), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%)
Query: 454 ITHGWITKIEKHGCFVRFYNGVQGFAPRSELGLDPGCEPSSMYHVGQVVKCRIMS 508
I G + K+ G FV F+ G S++ + +PS + GQ+VK +++
Sbjct: 640 IYDGKVVKVVDFGAFVNFFGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLG 694
>pdb|2KHI|A Chain A, Nmr Structure Of The Domain 4 Of The E. Coli Ribosomal
Protein S1
Length = 115
Score = 38.1 bits (87), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 1335 GDIVIGQIKRVESYGLFITIENTNLVGLCHVSELSEDHVD-NIETIYRAGEKVKVKILKV 1393
G + G++ + YG F+ IE + GL HVSE+ + + + + G+ V+V +L +
Sbjct: 31 GTKLTGRVTNLTDYGCFVEIEE-GVEGLVHVSEMDWTNKNIHPSKVVNVGDVVEVMVLDI 89
Query: 1394 DKEKRRISLGMK 1405
D+E+RRISLG+K
Sbjct: 90 DEERRRISLGLK 101
Score = 31.6 bits (70), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 4/82 (4%)
Query: 633 GYVCNIIETGCFVRFLGRLTGFAPRSKAVDGQRADL--SKTYYVGQSVRSNILDVNSETG 690
G V N+ + GCFV + G S+ +D ++ SK VG V +LD++ E
Sbjct: 36 GRVTNLTDYGCFVEIEEGVEGLVHVSE-MDWTNKNIHPSKVVNVGDVVEVMVLDIDEERR 94
Query: 691 RITLSLKQSCCSSTDASFMQEH 712
RI+L LKQ C ++ F + H
Sbjct: 95 RISLGLKQ-CKANPWQQFAETH 115
>pdb|2WAQ|E Chain E, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|E Chain E, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|T Chain T, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
Length = 180
Score = 33.5 bits (75), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 37/59 (62%), Gaps = 5/59 (8%)
Query: 1344 RVESYGLFITIENTNLVGLCHVSELSEDHV--DNIETIYRAGEKVKVKILKVDKEKRRI 1400
+V++YG+F+ + + GL H+S++++D + DN+ I GEK K I K DK + R+
Sbjct: 91 QVDNYGIFVNLGPMD--GLVHISQITDDTLKYDNVRGII-FGEKSKKVIQKGDKVRARV 146
>pdb|2PMZ|E Chain E, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|T Chain T, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|E Chain E, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|Q Chain Q, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 180
Score = 33.5 bits (75), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 37/59 (62%), Gaps = 5/59 (8%)
Query: 1344 RVESYGLFITIENTNLVGLCHVSELSEDHV--DNIETIYRAGEKVKVKILKVDKEKRRI 1400
+V++YG+F+ + + GL H+S++++D + DN+ I GEK K I K DK + R+
Sbjct: 91 QVDNYGIFVNLGPMD--GLVHISQITDDTLKYDNVRGII-FGEKSKKVIQKGDKVRARV 146
>pdb|2Y0S|E Chain E, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|T Chain T, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|E Chain E, Rnap At 3.2ang
pdb|4B1O|E Chain E, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|T Chain T, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 180
Score = 33.1 bits (74), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 37/59 (62%), Gaps = 5/59 (8%)
Query: 1344 RVESYGLFITIENTNLVGLCHVSELSEDHV--DNIETIYRAGEKVKVKILKVDKEKRRI 1400
+V++YG+F+ + + GL H+S++++D + DN+ I GEK K I K DK + R+
Sbjct: 91 QVDNYGVFVNLGPMD--GLVHISQITDDTLKYDNVRGII-FGEKSKKVIQKGDKVRARV 146
>pdb|2X3D|A Chain A, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
pdb|2X3D|B Chain B, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
pdb|2X3D|C Chain C, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
pdb|2X3D|D Chain D, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
pdb|2X3D|E Chain E, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
pdb|2X3D|F Chain F, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
pdb|2X3D|G Chain G, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
pdb|2X3D|H Chain H, Crystal Structure Of Sso6206 From Sulfolobus Solfataricus P2
Length = 96
Score = 31.6 bits (70), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 1186 GQFVKCKVLEISRTVRGTFHVELSLR-SSLDGMSSTNSSDLSTDVDTPGKHLEKIEDLSP 1244
G ++ VL++ + +RGT V+L+ R S LDG+ N S DV+T G + IE S
Sbjct: 1 GMAIRRLVLDVLKPIRGTSIVDLAERISKLDGVEGVNISVTDMDVETMGLMI-IIEGTSL 59
Query: 1245 NMIVQGYVKNVTSKGCFI 1262
N K + +GC I
Sbjct: 60 NF--DDIRKMLEEEGCAI 75
>pdb|1KL9|A Chain A, Crystal Structure Of The N-Terminal Segment Of Human
Eukaryotic Initiation Factor 2alpha
Length = 182
Score = 31.6 bits (70), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 1349 GLFITI-ENTNLVGLCHVSELSEDHVDNIETIYRAGEKVKVKILKVDKEKRRISLGMK 1405
G ++++ E N+ G +SELS + +I + R G V +++VDKEK I L +
Sbjct: 30 GAYVSLLEYNNIEGXILLSELSRRRIRSINKLIRIGRNECVVVIRVDKEKGYIDLSKR 87
>pdb|2Z0S|A Chain A, Crystal Structure Of Putative Exosome Complex Rna-Binding
Protein
Length = 235
Score = 31.2 bits (69), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 36/69 (52%), Gaps = 5/69 (7%)
Query: 1333 HVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSEL----SEDHVDNIETIYRAGEKVKV 1388
GD+VIG I+ V F+ I N+ V + V + VD+++++ + G+ +K
Sbjct: 65 QAGDVVIGLIQSVGIMNWFVDI-NSPYVAVLSVQDFLGRPFNPAVDDMQSLLKVGDYIKA 123
Query: 1389 KILKVDKEK 1397
K++ DK +
Sbjct: 124 KVVAFDKTR 132
>pdb|1IOK|A Chain A, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|B Chain B, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|C Chain C, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|D Chain D, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|E Chain E, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|F Chain F, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|G Chain G, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
Length = 545
Score = 30.8 bits (68), Expect = 6.3, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 741 GSVIEGKVHESND--FGVVVSFEEHSDVYGFITHHQLAGATVESGSVIQAAILDVAKAER 798
G+V+ GKV ES+D FG EE+ D++ F ++ V++ A+ D A
Sbjct: 462 GAVVAGKVRESSDKAFGFNAQTEEYGDMFKF--------GVIDPAKVVRTALEDAASVAG 513
Query: 799 LV 800
L+
Sbjct: 514 LL 515
>pdb|2BH8|A Chain A, Combinatorial Protein 1b11
pdb|2BH8|B Chain B, Combinatorial Protein 1b11
Length = 101
Score = 30.4 bits (67), Expect = 9.4, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 1331 NLHVGDIVIGQIKRVESYGLFITIENTNLVGLCHVSELS 1369
N GD V G+IK + +G+FI ++ + GL H+S++S
Sbjct: 58 NPQQGDRVEGKIKSITDFGIFIGLDG-GIDGLVHLSDIS 95
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
0.318 0.135 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 45,819,175
Number of Sequences: 62578
Number of extensions: 1729632
Number of successful extensions: 4392
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 4290
Number of HSP's gapped (non-prelim): 109
length of query: 1801
length of database: 14,973,337
effective HSP length: 113
effective length of query: 1688
effective length of database: 7,902,023
effective search space: 13338614824
effective search space used: 13338614824
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.3 bits)