RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780778|ref|YP_003065191.1| elongation factor Ts
[Candidatus Liberibacter asiaticus str. psy62]
(296 letters)
>3agp_A Elongation factor TS, elongation factor TU, linke replicase; RNA
polymerase, translation, transferase; 2.80A {Escherichia
coli O157} PDB: 3agq_A
Length = 1289
Score = 282 bits (724), Expect = 5e-77
Identities = 105/299 (35%), Positives = 152/299 (50%), Gaps = 32/299 (10%)
Query: 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEG 60
M++++A VKELR +TGAG+MDCK AL EA GD ELAI+ +R GA+ A+K+ G ++G
Sbjct: 1 MAEITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNVAADG 60
Query: 61 LIGIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSG 120
+I DG I+EVN +TD +AK+ FQ+ + A++ + VL
Sbjct: 61 VIKTKIDG-NYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVEVLKA------ 113
Query: 121 ITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAED 180
+ +A GE I +RR A + V+ SY H IGVLVA + + E+
Sbjct: 114 -QFEEERVALVAKIGENINIRRVAA--LEGDVLGSYQHG------ARIGVLVAAKGADEE 164
Query: 181 KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNG 240
+ + IA+HV + P I + + +V + + A+ SGK I EK+V G
Sbjct: 165 ------LVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQSGKPKEIAEKMVEG 218
Query: 241 KMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVG----KENDD 295
+M+ F E L Q FV++PSKTV LKE + EV G F VG K D
Sbjct: 219 RMKKFTGEVSLTGQPFVMEPSKTVGQLLKE------HNAEVTGFIRFEVGEGIEKVETD 271
>3mmp_A Elongation factor TU 2, elongation factor TS; RDRP,HOST-factor
complex, translation, transferase; HET: PXN; 2.50A
{Escherichia coli}
Length = 678
Score = 257 bits (658), Expect = 3e-69
Identities = 103/290 (35%), Positives = 150/290 (51%), Gaps = 28/290 (9%)
Query: 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEG 60
M++++A VKELR +TGAG+MDCK AL EA GD ELAI+ +R GA+ A+K+ G ++G
Sbjct: 1 MAEITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNVAADG 60
Query: 61 LIGIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSG 120
+I DG I+EVN +TD +AK+ FQ+ + A++ + VL
Sbjct: 61 VIKTKIDG-NYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVEVLKA------ 113
Query: 121 ITVGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAED 180
+ +A GE I +RR A + V+ SY H IGVLVA + + E+
Sbjct: 114 -QFEEERVALVAKIGENINIRRVA--ALEGDVLGSYQH------GARIGVLVAAKGADEE 164
Query: 181 KELLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNG 240
+ + IA+HV + P I + + +V + + A+ SGK I EK+V G
Sbjct: 165 ------LVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQSGKPKEIAEKMVEG 218
Query: 241 KMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVG 290
+M+ F E L Q FV++PSKTV LKE + EV G F VG
Sbjct: 219 RMKKFTGEVSLTGQPFVMEPSKTVGQLLKE------HNAEVTGFIRFEVG 262
>1efu_B Elongation factor TS; complex (TWO elongation factors); 2.50A
{Escherichia coli} SCOP: a.5.2.2 d.43.1.1 d.43.1.1
Length = 282
Score = 220 bits (563), Expect = 2e-58
Identities = 104/297 (35%), Positives = 151/297 (50%), Gaps = 32/297 (10%)
Query: 3 KVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEGLI 62
+++A VKELR +TGAG+MDCK AL EA GD ELAI+ +R GA+ A+K+ G ++G+I
Sbjct: 2 EITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNVAADGVI 61
Query: 63 GIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGIT 122
DG I+EVN +TD +AK+ FQ+ + A++ + VL
Sbjct: 62 KTKIDG-NYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITDVEVLKA-------Q 113
Query: 123 VGDGIKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKE 182
+ +A GE I +RR A + V+ SY H + IGVLVA + + E+
Sbjct: 114 FEEERVALVAKIGENINIRRVA--ALEGDVLGSYQHGAR------IGVLVAAKGADEE-- 163
Query: 183 LLSAIGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKM 242
+ + IA+HV + P I + + +V + + A+ SGK I EK+V G+M
Sbjct: 164 ----LVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQSGKPKEIAEKMVEGRM 219
Query: 243 QSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVG----KENDD 295
+ F E L Q FV++PSKTV LKE + EV G F VG K D
Sbjct: 220 KKFTGEVSLTGQPFVMEPSKTVGQLLKE------HNAEVTGFIRFEVGEGIEKVETD 270
>1xb2_B EF-TS, elongation factor TS, mitochondrial, EF-TSMT;
protein-protein complex, translation; HET: MSE; 2.20A
{Bos taurus} SCOP: a.5.2.2 d.43.1.1 d.43.1.1
Length = 291
Score = 144 bits (365), Expect = 2e-35
Identities = 80/324 (24%), Positives = 129/324 (39%), Gaps = 71/324 (21%)
Query: 2 SKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTK----GAMAASKREGRKV 57
S S + +LR KTG ++CK AL GD + A L + G A++ GRK
Sbjct: 1 SASSKELLMKLRRKTGYSFINCKKALETCGGDLKQAESWLHKQAQKEGWSKAARLHGRKT 60
Query: 58 SEGLIGIARDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPF- 116
EGLIG+ ++G +VEVN ETD +++N FQ LV +A L +L + L+
Sbjct: 61 KEGLIGLLQEGDTT-VLVEVNCETDFVSRNLKFQQLVQQVALGTLLHCQNLKDQLSTYSK 119
Query: 117 --------------DHSGITVGDGIKQQIAITGECIKLRRSALLCVSEG-VISSYLHASP 161
++ D + I GE + L+R+A + V G + SY+H +
Sbjct: 120 GFLNSSELSELPAGPEREGSLKDQLALAIGKLGENMILKRAAWVKVPAGFYVGSYVHGAM 179
Query: 162 SEG------LGSIGVLVALQSSAEDKELLSAIGEKIAVHVMLASPSVISVQMLDPSIVAN 215
LG G LV ++S L + +G ++ HV+ +P +SV LD
Sbjct: 180 HSPSLHNLVLGKYGALVICETSELKANL-ADLGRRLGQHVVGMAP--LSVGSLD------ 230
Query: 216 KRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSI 275
E +L Q +++DPS T+ +++
Sbjct: 231 -------------------------DEPGGEAETKMLSQPYLLDPSITLGQYVQP----- 260
Query: 276 GASIEVVGVSHFVVG----KENDD 295
+ VV F G + +
Sbjct: 261 -HGVSVVDFVRFECGEGEDAADAE 283
>1tfe_A Elongation factor TS; 1.70A {Thermus thermophilus} SCOP: d.43.1.1
Length = 145
Score = 94.4 bits (234), Expect = 2e-20
Identities = 42/145 (28%), Positives = 73/145 (50%), Gaps = 8/145 (5%)
Query: 149 SEGVISSYLHASPSEGLGSIGVLVALQSSAED---KELLSAIGEKIAVHVMLASPSVISV 205
EG+I Y+H + +GVLV L + EL + + +A+H+ + +P +S
Sbjct: 2 REGIIGHYIHHN-----QRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSA 56
Query: 206 QMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVS 265
+ + + +R Y+ AL+ GK I EKI G+++ + +E VLL Q FV D V
Sbjct: 57 EEIPAEELEKERQIYIQAALNEGKPQQIAEKIAEGRLKKYLEEVVLLEQPFVKDDKVKVK 116
Query: 266 DFLKESEKSIGASIEVVGVSHFVVG 290
+ ++++ IG +I V F +G
Sbjct: 117 ELIQQAIAKIGENIVVRRFCRFELG 141
>1aip_C EF-TS, elongation factor TS; nucleotide exchange, GTP-binding,
complex of two elongation factors; 3.00A {Thermus
thermophilus} SCOP: a.5.2.2 d.43.1.1
Length = 196
Score = 82.1 bits (202), Expect = 1e-16
Identities = 43/119 (36%), Positives = 68/119 (57%), Gaps = 3/119 (2%)
Query: 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEG 60
MS++ + K+LR TGAG+MD K AL +A D E A+ +LR +GAM A+K+ R+ EG
Sbjct: 1 MSQMELI--KKLREATGAGMMDVKRALEDAGWDEEKAVQLLRERGAMKAAKKADREAREG 58
Query: 61 LIGIA-RDGYKKASIVEVNVETDSLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDH 118
+IG + +VE+N ETD +A+N FQ+L ++A + + +P +
Sbjct: 59 IIGHYIHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAEE 117
Score = 81.0 bits (199), Expect = 3e-16
Identities = 36/164 (21%), Positives = 74/164 (45%), Gaps = 7/164 (4%)
Query: 127 IKQQIAITGECIKLRRSALLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAEDKELLSA 186
++++ A+ R + + + + + +G + L EL
Sbjct: 39 LRERGAMKAAKKADREAREGIIGHYIHHN-------QRVGVLVELNCETDFVARNELFQN 91
Query: 187 IGEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKIVNGKMQSFC 246
+ + +A+H+ + +P +S + + + +R Y+ AL+ GK I EKI G+++ +
Sbjct: 92 LAKDLAMHIAMMNPRYVSAEEIPAEELEKERQIYIQAALNEGKPQQIAEKIAEGRLKKYL 151
Query: 247 KECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVG 290
+E VLL Q FV D V + ++++ IG +I V F +G
Sbjct: 152 EEVVLLEQPFVKDDKVKVKELIQQAIAKIGENIVVRRFCRFELG 195
>2cp9_A EF-TS, EF-TSMT, elongation factor TS, mitochondrial; UBA,
structural genomics, human, NPPSFA; NMR {Homo sapiens}
SCOP: a.5.2.2
Length = 64
Score = 77.8 bits (192), Expect = 2e-15
Identities = 17/60 (28%), Positives = 24/60 (40%)
Query: 1 MSKVSAVAVKELRGKTGAGIMDCKNALLEAKGDSELAIDILRTKGAMAASKREGRKVSEG 60
S S + +LR KTG ++CK AL GD + A L + + S G
Sbjct: 5 SSGSSKELLMKLRRKTGYSFVNCKKALETCGGDLKQAEIWLHKEAQKEGWSKAASGPSSG 64
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 42.2 bits (99), Expect = 1e-04
Identities = 55/299 (18%), Positives = 88/299 (29%), Gaps = 115/299 (38%)
Query: 3 KVSAVAVKELR----GKTG--AGIMDCKNALLEAKGDS--------ELAIDIL------- 41
K+ ELR G TG G++ A+ A+ DS AI +L
Sbjct: 254 KLLGFTPGELRSYLKGATGHSQGLV---TAVAIAETDSWESFFVSVRKAITVLFFIGVRC 310
Query: 42 -----RT---KGAMAASKREGRKVSEG----LIGIARDGYKKA---SIVEVNV---ETD- 82
T + S EG ++ I + ++ + + N
Sbjct: 311 YEAYPNTSLPPSILEDSLENN----EGVPSPMLSI-SNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 83 ---SLAKNTDFQSLVSNIAGIALSTDGSLDNVLAMPFDHSGITVGDGIKQ-QIAITGECI 138
SL N ++LV ++G S G L+ L G+ Q +I +
Sbjct: 366 VEISLV-NGA-KNLV--VSGPPQSLYG-LNLTLR------KAKAPSGLDQSRIPFSER-- 412
Query: 139 KLRRSA-LLCVSEGVISSYLHASPSEGLGSIGVLVALQSSAED-KELLSAIGEKIAVHVM 196
KL+ S L ++S H S L +++ + L
Sbjct: 413 KLKFSNRFL-----PVASPFH-SH-----------LLVPASDLINKDLVKNNVSFNAK-D 454
Query: 197 LASPSVISVQMLDPSIVANKRAHYMTEALDSGK-----SGNIVEKIVNGKMQSFCKECV 250
+ I V Y T G SG+I E+IV + V
Sbjct: 455 IQ----IPV--------------YDTF---DGSDLRVLSGSISERIV--DC--IIRLPV 488
Score = 27.2 bits (60), Expect = 4.5
Identities = 14/50 (28%), Positives = 24/50 (48%), Gaps = 12/50 (24%)
Query: 201 SVISVQMLDPSIVANKRAHYMTEALDSGK------SGNIVEKIVNGKMQS 244
S++ + + +P N H+ E GK S I E IV+GK+++
Sbjct: 1660 SILDIVINNP---VNLTIHFGGE---KGKRIRENYSAMIFETIVDGKLKT 1703
>2j01_T 50S ribosomal protein L19; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: b.34.5.6
PDB: 2hgq_S 2hgj_S 2hgu_S 2j03_T 2jl6_T 2jl8_T 2v47_T
2v49_T 2wdi_T 2wdj_T 2wdl_T 2wdn_T 2wh2_T 2wh4_T 3hux_T
3huz_T 3f1f_T 1vsp_N 1vsa_N 3d5d_T ...
Length = 146
Score = 29.2 bits (65), Expect = 0.99
Identities = 5/50 (10%), Positives = 16/50 (32%), Gaps = 2/50 (4%)
Query: 188 GEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKI 237
G + L SP + + ++ + +++ S + +
Sbjct: 69 GVGVERIFPLHSPLIQKIDIVQRGRARRAKLYFIRNL--SDREIRRKLRA 116
>1tt5_B Ubiquitin-activating enzyme E1C isoform 1; cell cycle, ligase;
2.60A {Homo sapiens} SCOP: c.111.1.2 PDB: 3dbl_B 3dbr_B
3dbh_B 1yov_B 1r4m_B 1r4n_B*
Length = 434
Score = 27.0 bits (59), Expect = 4.9
Identities = 10/47 (21%), Positives = 17/47 (36%)
Query: 246 CKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVVGVSHFVVGKE 292
C C L Q PS + + L S ++ ++ + GK
Sbjct: 335 CPACSQLPQNIQFSPSAKLQEVLDYLTNSASLQMKSPAITATLEGKN 381
>3i1n_P 50S ribosomal protein L19; ribosome structure, protein-RNA complex,
acetylation, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_P 3e1b_I 3e1d_I 1vs6_P
3i1p_P 3i1r_P 3i1t_P 3i20_P 3i22_P 2qam_P* 1p85_N 1p86_N
2awb_P 2gya_N 2gyc_N 2aw4_P 2i2v_P 2j28_P 2i2t_P*
2qao_P* ...
Length = 115
Score = 26.3 bits (58), Expect = 7.6
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 188 GEKIAVHVMLASPSVISVQMLDPSIVANKRAHYMTEALDSGKSGNIVEKI 237
GE + SP V S+ + V + +Y+ E +GK+ I E++
Sbjct: 67 GEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLRER--TGKAARIKERL 114
>2g9t_A ORF1A polyprotein; NSP10, viral protein; 2.10A {Sars coronavirus}
SCOP: g.86.1.1 PDB: 2ga6_A
Length = 152
Score = 26.4 bits (58), Expect = 7.9
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 230 SGNIVEKIVNGKMQSFCKECVLLHQGFVVDPSKTVSDFLKESEKSIGASIEVV 282
+GN E N + SFC F VDP+K D+L + I ++++
Sbjct: 1 AGNATEVPANSTVLSFC--------AFAVDPAKAYKDYLASGGQPITNCVKML 45
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.313 0.131 0.351
Gapped
Lambda K H
0.267 0.0716 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,271,594
Number of extensions: 97677
Number of successful extensions: 236
Number of sequences better than 10.0: 1
Number of HSP's gapped: 217
Number of HSP's successfully gapped: 19
Length of query: 296
Length of database: 5,693,230
Length adjustment: 92
Effective length of query: 204
Effective length of database: 3,462,782
Effective search space: 706407528
Effective search space used: 706407528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (25.4 bits)