RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780456|ref|YP_003064869.1| 30S ribosomal protein S1
[Candidatus Liberibacter asiaticus str. psy62]
(576 letters)
>gnl|CDD|180520 PRK06299, rpsA, 30S ribosomal protein S1; Reviewed.
Length = 565
Score = 792 bits (2049), Expect = 0.0
Identities = 309/565 (54%), Positives = 410/565 (72%), Gaps = 5/565 (0%)
Query: 1 MSFTNPSREDFATLLEESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFM 60
N E FA L EES + + E + KG VV ++KD V+VDVGLK EGRIP EF
Sbjct: 5 AQNQNDMEESFAELFEESLKESETREGSIVKGTVVAIDKDYVLVDVGLKSEGRIPLEEFK 64
Query: 61 GKGQYTPIKVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFN 120
+ +KVGDEVEVYVER E+ FGE V SR+KA R W+K+E F GE +EGVI
Sbjct: 65 NEQGELEVKVGDEVEVYVERIEDGFGETVLSREKAKRLEAWDKLEKAFENGEIVEGVING 124
Query: 121 QVKGGMTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVL 180
+VKGG TVDLNG AFLP SQ+D+RPVRD PL + F+++K+DK+R NIVVSRRAVL
Sbjct: 125 KVKGGFTVDLNGVEAFLPGSQVDVRPVRDTDPLEGKELEFKVIKLDKKRNNIVVSRRAVL 184
Query: 181 EESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKV 240
EE RAE+R E+++ LEEGQV+EG VKNITDYG FVDL GVDGLLH+TDI+W R+ HPS+V
Sbjct: 185 EEERAEEREELLENLEEGQVVEGVVKNITDYGAFVDLGGVDGLLHITDISWKRVNHPSEV 244
Query: 241 LSIGQQVKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFV 300
+++G +VKVK+++ ++E R+SLG+KQL ++PW+ ++ KY GSKV G VTN+TDYG FV
Sbjct: 245 VNVGDEVKVKVLKFDKEKKRVSLGLKQLGEDPWEAIEKKYPVGSKVKGKVTNITDYGAFV 304
Query: 301 ELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPW 360
EL+ GIEGL H+S++SWTKKN HPSK++SVGQ+VEV++LE++ ++RISLGLKQ NPW
Sbjct: 305 ELEEGIEGLVHVSEMSWTKKNKHPSKVVSVGQEVEVMVLEIDEEKRRISLGLKQCKENPW 364
Query: 361 EEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDI 420
EEF++ +P G VEG+VKN TDFG F+GL+ +DG++HLSD+ W++ GE+ + Y KGD
Sbjct: 365 EEFAEKYPVGDVVEGKVKNITDFGAFVGLEGGIDGLVHLSDISWDKKGEEAVELYKKGDE 424
Query: 421 VKAVVLDIDVGKERISLGVKQLSGSAPDVVDSVSSLRKNDVVSCEVISVSEGGIEVSLID 480
V+AVVL +DV KERISLG+KQL + + +K +V+ V V + G V L D
Sbjct: 425 VEAVVLKVDVEKERISLGIKQLEEDPFE--EFAKKHKKGSIVTGTVTEVKDKGAFVELED 482
Query: 481 HKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKALEIAEEKGA 540
G+ IR S+LSRDRV+ G V+A V+N+ +K+ ++SLSIKAL+ AEEK A
Sbjct: 483 --GVEGLIRASELSRDRVEDATEVLKVGDEVEAKVINIDRKNRRISLSIKALDEAEEKEA 540
Query: 541 VAQFGS-SDSGASLGDILGMALKNR 564
+A++ S SDS +LGD+L ALK +
Sbjct: 541 IAEYNSASDSKTTLGDLLKAALKGK 565
>gnl|CDD|162009 TIGR00717, rpsA, ribosomal protein S1. This model provides trusted
hits to most long form (6 repeat) examples of RpsA.
Among homologs with only four repeats are some to which
other (perhaps secondary) functions have been assigned.
Length = 516
Score = 538 bits (1387), Expect = e-153
Identities = 259/522 (49%), Positives = 364/522 (69%), Gaps = 6/522 (1%)
Query: 9 EDFATLLEESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGKGQYTPI 68
E FA LLEES ++ + KG VV + KDTV VDVGLK EGRIP+ EF I
Sbjct: 1 ESFAQLLEESLKTEETRPGSIVKGTVVAINKDTVFVDVGLKSEGRIPKEEF--LDAPLEI 58
Query: 69 KVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFNQVKGGMTV 128
+VGDEVEVY++R E+ FGE V SR+KA R +W K+E + G +EG I +VKGG V
Sbjct: 59 QVGDEVEVYLDRVEDRFGETVLSREKAQRHELWIKLEKAYEEGSIVEGKIVGKVKGGFIV 118
Query: 129 DLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVLEESRAEQR 188
DLNG AFLP SQ+D++P++D+ L+ + F+I+K+D++R NIVVSRRA LEE R++ R
Sbjct: 119 DLNGVEAFLPGSQVDVKPIKDLDSLIGKTLKFKIIKLDQKRNNIVVSRRAYLEEERSQAR 178
Query: 189 SEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQQVK 248
E+++ L+EG V++G VKNITD+G FVDL GVDGLLH+TD++W R+ HPS+ + +GQ+VK
Sbjct: 179 EELLENLKEGDVVKGVVKNITDFGAFVDLGGVDGLLHITDMSWKRVKHPSEYVKVGQEVK 238
Query: 249 VKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSGIEG 308
VK+I+ ++E RISL +KQL ++PW+ ++ K+ G K++G VTNLTDYGVFVE++ GIEG
Sbjct: 239 VKVIKFDKEKGRISLSLKQLGEDPWEAIEKKFPVGDKITGRVTNLTDYGVFVEIEEGIEG 298
Query: 309 LAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPWEEFSKSHP 368
L H+S++SW KKN HPSK++ G +VEV+IL+++P R+R+SLGLKQ NPWE+F + HP
Sbjct: 299 LVHVSEMSWVKKNSHPSKVVKKGDEVEVMILDIDPERRRLSLGLKQCKANPWEQFEEKHP 358
Query: 369 PGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDIVKAVVLDI 428
G V G++K TDFG F+ L+ +DG+IHLSD+ W++ G + Y KGD ++AVVL +
Sbjct: 359 VGDRVTGKIKKITDFGAFVELEGGIDGLIHLSDISWDKDGREADHLYKKGDEIEAVVLAV 418
Query: 429 DVGKERISLGVKQLSGSAPDVVDSVSSLRKNDVVSCEVISVSEGGIEVSLIDHKGINSFI 488
D K+RISLGVKQL+ + + + + VV +V + + G V L G+ I
Sbjct: 419 DKEKKRISLGVKQLTENPWEKF--AAKYKVGSVVKGKVTEIKDFGAFVELPG--GVEGLI 474
Query: 489 RRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIK 530
R S+LS +R + G V+A VV++ KK+ KVSLS+K
Sbjct: 475 RNSELSENRDEDKTDEIKVGDEVEAKVVDIDKKNRKVSLSVK 516
Score = 202 bits (515), Expect = 2e-52
Identities = 125/425 (29%), Positives = 222/425 (52%), Gaps = 23/425 (5%)
Query: 121 QVKGGMTVDLNGEVAFL-----PRSQIDIRPVRDVTPLMHEPQLFE--ILKMDKRRGNIV 173
+ G V +N + F+ +I D + E + +++ R G V
Sbjct: 20 SIVKGTVVAINKDTVFVDVGLKSEGRIPKEEFLDAPLEIQVGDEVEVYLDRVEDRFGETV 79
Query: 174 VSRRAVLEESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHR 233
+SR + R E ++ + EEG ++EG + G VDL+GV+ L + +
Sbjct: 80 LSRE---KAQRHELWIKLEKAYEEGSIVEGKIVGKVKGGFIVDLNGVEAFLPGSQVDVKP 136
Query: 234 ILHPSKVLSIGQQVKVKIIRINQETHRISLGMKQL----EKNPWDDVQDKYVEGSKVSGV 289
I + IG+ +K KII+++Q+ + I + + +++ + EG V GV
Sbjct: 137 IKDLDSL--IGKTLKFKIIKLDQKRNNIVVSRRAYLEEERSQAREELLENLKEGDVVKGV 194
Query: 290 VTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRIS 349
V N+TD+G FV+L G++GL HI+ +SW K+ HPS+ + VGQ+V+V +++ + + RIS
Sbjct: 195 VKNITDFGAFVDL-GGVDGLLHITDMSW-KRVKHPSEYVKVGQEVKVKVIKFDKEKGRIS 252
Query: 350 LGLKQALINPWEEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGE 409
L LKQ +PWE K P G ++ G V N TD+G+F+ ++E ++G++H+S++ W +
Sbjct: 253 LSLKQLGEDPWEAIEKKFPVGDKITGRVTNLTDYGVFVEIEEGIEGLVHVSEMSWVKKNS 312
Query: 410 KVIAEYAKGDIVKAVVLDIDVGKERISLGVKQLSGSAPDVVDSVSSLRKNDVVSCEVISV 469
KGD V+ ++LDID + R+SLG+KQ + + + D V+ ++ +
Sbjct: 313 HPSKVVKKGDEVEVMILDIDPERRRLSLGLKQCKANPWEQFEEKHP--VGDRVTGKIKKI 370
Query: 470 SEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGR-FSKGQIVDACVVNVSKKDGKVSLS 528
++ G V L GI+ I SD+S D+ ++ + KG ++A V+ V K+ ++SL
Sbjct: 371 TDFGAFVELEG--GIDGLIHLSDISWDKDGREADHLYKKGDEIEAVVLAVDKEKKRISLG 428
Query: 529 IKALE 533
+K L
Sbjct: 429 VKQLT 433
Score = 45.5 bits (108), Expect = 4e-05
Identities = 57/260 (21%), Positives = 108/260 (41%), Gaps = 26/260 (10%)
Query: 282 EGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEV 341
GS V G V + VFV++ EG + + + VG +VEV + V
Sbjct: 18 PGSIVKGTVVAINKDTVFVDVGLKSEGRIPKEEF------LDAPLEIQVGDEVEVYLDRV 71
Query: 342 NPARKRISLGLKQAL-INPWEEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGM---- 396
L ++A W + K++ G+ VEG++ K G + L+G+
Sbjct: 72 EDRFGETVLSREKAQRHELWIKLEKAYEEGSIVEGKIVGKVKGGFIV----DLNGVEAFL 127
Query: 397 -IHLSDLDWNRPGEKVIAEYAKGDIVKAVVLDIDVGKERISLGVKQL--SGSAPDVVDSV 453
D+ + + +I G +K ++ +D + I + + + + +
Sbjct: 128 PGSQVDVKPIKDLDSLI-----GKTLKFKIIKLDQKRNNIVVSRRAYLEEERSQAREELL 182
Query: 454 SSLRKNDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDA 513
+L++ DVV V ++++ G +D G++ + +D+S RV GQ V
Sbjct: 183 ENLKEGDVVKGVVKNITDFGA---FVDLGGVDGLLHITDMSWKRVKHPSEYVKVGQEVKV 239
Query: 514 CVVNVSKKDGKVSLSIKALE 533
V+ K+ G++SLS+K L
Sbjct: 240 KVIKFDKEKGRISLSLKQLG 259
>gnl|CDD|178853 PRK00087, PRK00087, 4-hydroxy-3-methylbut-2-enyl diphosphate
reductase/S1 RNA-binding domain protein; Reviewed.
Length = 647
Score = 344 bits (884), Expect = 5e-95
Identities = 145/344 (42%), Positives = 218/344 (63%), Gaps = 5/344 (1%)
Query: 29 VTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGKGQYTP---IKVGDEVEVYVERTENSF 85
+ KG VV + ++ V VDVG K EG IP RE + +KVGDE+EV V + E+
Sbjct: 305 IVKGTVVSVNENEVFVDVGYKSEGVIPLRELTLDEISSLKESVKVGDEIEVKVLKLEDED 364
Query: 86 GEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFNQVKGGMTVDLNGEVAFLPRSQIDIR 145
G V S+ +A RE W+++E F GE ++G + VKGG+ VD G AFLP S +++
Sbjct: 365 GYVVLSKKEADREKAWKELEEAFENGEPVKGKVKEVVKGGLLVDYGGVRAFLPASHVELG 424
Query: 146 PVRDVTPLMHEPQLFEILKMD-KRRGNIVVSRRAVLEESRAEQRSEIVQKLEEGQVIEGT 204
V D++ + +I++ + KRR +V+SR+A+LEE + +++ E LEEG V+EG
Sbjct: 425 YVEDLSEYKGQELEVKIIEFNRKRRKKVVLSRKAILEEEKEKKKEETWNSLEEGDVVEGE 484
Query: 205 VKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRINQETHRISLG 264
VK +TD+G FVD+ GVDGLLHV++I+W R+ PS VL +G ++KV I+ I++E ++SL
Sbjct: 485 VKRLTDFGAFVDIGGVDGLLHVSEISWGRVEKPSDVLKVGDEIKVYILDIDKENKKLSLS 544
Query: 265 MKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHP 324
+K+L +PW++V++KY GS V G V + +G FVEL+ G++GL HISQISW K+ P
Sbjct: 545 LKKLLPDPWENVEEKYPVGSIVLGKVVRIAPFGAFVELEPGVDGLVHISQISW-KRIDKP 603
Query: 325 SKILSVGQQVEVVILEVNPARKRISLGLKQALINPWEEFSKSHP 368
+LS G++V+ ILEV+P KRI L +K+ P +
Sbjct: 604 EDVLSEGEEVKAKILEVDPEEKRIRLSIKEVEEEPGDIEKVELE 647
Score = 182 bits (464), Expect = 2e-46
Identities = 106/368 (28%), Positives = 196/368 (53%), Gaps = 32/368 (8%)
Query: 101 WEKIEAKFRAGERIEGVIFNQVKGGMTVDLNGEV-AFLPRSQIDIRPVRDVTPLMHEPQL 159
++E + R G+ ++G + + + + VD+ + +P ++ + + + +
Sbjct: 293 MNELEKQIRRGDIVKGTVVSVNENEVFVDVGYKSEGVIPLRELTLDEISSLKESVKVGDE 352
Query: 160 FE--ILKMDKRRGNIVVSRRAVLEESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDL 217
E +LK++ G +V+S++ E + E+ + E G+ ++G VK + G+ VD
Sbjct: 353 IEVKVLKLEDEDGYVVLSKKEADRE---KAWKELEEAFENGEPVKGKVKEVVKGGLLVDY 409
Query: 218 SGVDGLLHVTDIAWHRILHPSKVLS--IGQQVKVKIIRINQETHR-ISLGMKQL------ 268
GV L A H L + LS GQ+++VKII N++ + + L K +
Sbjct: 410 GGVRAFLP----ASHVELGYVEDLSEYKGQELEVKIIEFNRKRRKKVVLSRKAILEEEKE 465
Query: 269 --EKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSK 326
++ W+ ++ EG V G V LTD+G FV++ G++GL H+S+ISW + PS
Sbjct: 466 KKKEETWNSLE----EGDVVEGEVKRLTDFGAFVDIG-GVDGLLHVSEISWGR-VEKPSD 519
Query: 327 ILSVGQQVEVVILEVNPARKRISLGLKQALINPWEEFSKSHPPGTEVEGEVKNKTDFGLF 386
+L VG +++V IL+++ K++SL LK+ L +PWE + +P G+ V G+V FG F
Sbjct: 520 VLKVGDEIKVYILDIDKENKKLSLSLKKLLPDPWENVEEKYPVGSIVLGKVVRIAPFGAF 579
Query: 387 IGLDEHLDGMIHLSDLDWNR--PGEKVIAEYAKGDIVKAVVLDIDVGKERISLGVKQLSG 444
+ L+ +DG++H+S + W R E V++E G+ VKA +L++D ++RI L +K++
Sbjct: 580 VELEPGVDGLVHISQISWKRIDKPEDVLSE---GEEVKAKILEVDPEEKRIRLSIKEVEE 636
Query: 445 SAPDVVDS 452
D+
Sbjct: 637 EPGDIEKV 644
Score = 150 bits (382), Expect = 7e-37
Identities = 99/370 (26%), Positives = 191/370 (51%), Gaps = 25/370 (6%)
Query: 181 EESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSG-VDGLLHVTDIAWHRILHPSK 239
E + E +E+ +++ G +++GTV ++ + VFVD+ +G++ + ++ I +
Sbjct: 286 ENEQLEYMNELEKQIRRGDIVKGTVVSVNENEVFVDVGYKSEGVIPLRELTLDEISSLKE 345
Query: 240 VLSIGQQVKVKIIRINQETHRISLGMKQLE-KNPWDDVQDKYVEGSKVSGVVTNLTDYGV 298
+ +G +++VK++++ E + L K+ + + W ++++ + G V G V + G+
Sbjct: 346 SVKVGDEIEVKVLKLEDEDGYVVLSKKEADREKAWKELEEAFENGEPVKGKVKEVVKGGL 405
Query: 299 FVELQSGIEGLAHISQISWTKKNIHPSKILS--VGQQVEVVILEVNPARKRISLGLKQAL 356
V+ G+ S + + + LS GQ++EV I+E N R++ + ++A+
Sbjct: 406 LVDY-GGVRAFLPASHVE-----LGYVEDLSEYKGQELEVKIIEFNRKRRKKVVLSRKAI 459
Query: 357 INPW-----EEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKV 411
+ EE S G VEGEVK TDFG F+ + +DG++H+S++ W R EK
Sbjct: 460 LEEEKEKKKEETWNSLEEGDVVEGEVKRLTDFGAFVDI-GGVDGLLHVSEISWGRV-EKP 517
Query: 412 IAEYAKGDIVKAVVLDIDVGKERISLGVKQLSGSAPDVVDSVSSLRK-NDVVSCEVISVS 470
GD +K +LDID +++SL +K+L PD ++V +V +V+ ++
Sbjct: 518 SDVLKVGDEIKVYILDIDKENKKLSLSLKKLL---PDPWENVEEKYPVGSIVLGKVVRIA 574
Query: 471 EGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIK 530
G V L G++ + S +S R+D+ S+G+ V A ++ V ++ ++ LSIK
Sbjct: 575 PFGAFVEL--EPGVDGLVHISQISWKRIDKPEDVLSEGEEVKAKILEVDPEEKRIRLSIK 632
Query: 531 ALEIAEEKGA 540
E+ EE G
Sbjct: 633 --EVEEEPGD 640
Score = 64.2 bits (157), Expect = 9e-11
Identities = 63/312 (20%), Positives = 140/312 (44%), Gaps = 45/312 (14%)
Query: 250 KIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSGIEGL 309
++I+ E + + + ++++ + G V G V ++ + VFV++ EG+
Sbjct: 270 EVIKKMSELDNMEEVEENEQLEYMNELEKQIRRGDIVKGTVVSVNENEVFVDVGYKSEGV 329
Query: 310 AHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQA-LINPWEEFSKSHP 368
+ +++ + + + VG ++EV +L++ + L K+A W+E ++
Sbjct: 330 IPLRELTL-DEISSLKESVKVGDEIEVKVLKLEDEDGYVVLSKKEADREKAWKELEEAFE 388
Query: 369 PGTEVEGEVKNKTDFGLFIGLDE--------HLDGMIHLSDLDWNRPGEKVIAEYAKGDI 420
G V+G+VK GL + H++ + ++ DL EY KG
Sbjct: 389 NGEPVKGKVKEVVKGGLLVDYGGVRAFLPASHVE-LGYVEDLS----------EY-KGQE 436
Query: 421 VKAVVLDIDVGKERISLGVKQLSGSAPDVVDSV---------SSLRKNDVVSCEVISVSE 471
++ +++ + + K++ S +++ +SL + DVV EV +++
Sbjct: 437 LEVKIIEFNRKRR------KKVVLSRKAILEEEKEKKKEETWNSLEEGDVVEGEVKRLTD 490
Query: 472 GGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKA 531
G + +D G++ + S++S RV++ G + ++++ K++ K+SLS+K
Sbjct: 491 FG---AFVDIGGVDGLLHVSEISWGRVEKPSDVLKVGDEIKVYILDIDKENKKLSLSLKK 547
Query: 532 L-----EIAEEK 538
L E EEK
Sbjct: 548 LLPDPWENVEEK 559
>gnl|CDD|180655 PRK06676, rpsA, 30S ribosomal protein S1; Reviewed.
Length = 390
Score = 328 bits (844), Expect = 2e-90
Identities = 149/361 (41%), Positives = 220/361 (60%), Gaps = 8/361 (2%)
Query: 11 FATLLEESFTK-KDLAENCVTKGIVVGLEKDTVVVDV-GLKFEGRIPRREFMGKGQYTP- 67
EES K++ V G V+ +E V V++ G K EG IP E
Sbjct: 1 MMEEFEESLNSVKEVEVGDVVTGEVLKVEDKQVFVNIEGYKVEGVIPISELSNDHIEDIN 60
Query: 68 --IKVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFNQVKGG 125
+KVGDE+EVYV + E+ G + S+ + E W+K+E KF GE +E + VKGG
Sbjct: 61 DVVKVGDELEVYVLKVEDGEGNLLLSKRRLEAEKAWDKLEEKFEEGEVVEVKVTEVVKGG 120
Query: 126 MTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVLEESRA 185
+ VD+ G F+P S I R V D + + +I+++D + +++SRRAV+EE RA
Sbjct: 121 LVVDVEGVRGFIPASLISTRFVEDFSDFKGKTLEVKIIELDPEKNRVILSRRAVVEEERA 180
Query: 186 EQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQ 245
++ E++ L+EG V+EGTV +TD+G FVD+ GVDGL+H+++++ R+ PS+V+S+GQ
Sbjct: 181 AKKEELLSSLKEGDVVEGTVARLTDFGAFVDIGGVDGLVHISELSHERVEKPSEVVSVGQ 240
Query: 246 QVKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSG 305
+V+VK++ I+ ET RISL +K PW+ V++K EG + G V LTD+G FVE+ G
Sbjct: 241 EVEVKVLSIDWETERISLSLKDTLPGPWEGVEEKLPEGDVIEGTVKRLTDFGAFVEVLPG 300
Query: 306 IEGLAHISQISWTKKNI-HPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPWEEFS 364
+EGL HISQIS K+I PS++L GQ+V+V +LEVN KRISL +K P EE
Sbjct: 301 VEGLVHISQISH--KHIATPSEVLEEGQEVKVKVLEVNEEEKRISLSIKALEEAPAEEED 358
Query: 365 K 365
+
Sbjct: 359 R 359
Score = 181 bits (461), Expect = 5e-46
Identities = 97/289 (33%), Positives = 164/289 (56%), Gaps = 18/289 (6%)
Query: 162 ILKMDKRRGNIVVSRRAVLEESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVD 221
+LK++ GN+++S+R + E + ++ +K EEG+V+E V + G+ VD+ GV
Sbjct: 73 VLKVEDGEGNLLLSKRRLEAE---KAWDKLEEKFEEGEVVEVKVTEVVKGGLVVDVEGVR 129
Query: 222 GLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRINQETHRISLGMKQLEK----NPWDDVQ 277
G + + I+ + S G+ ++VKII ++ E +R+ L + + + +++
Sbjct: 130 GFIPASLISTRFVEDFSDF--KGKTLEVKIIELDPEKNRVILSRRAVVEEERAAKKEELL 187
Query: 278 DKYVEGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVV 337
EG V G V LTD+G FV++ G++GL HIS++S + PS+++SVGQ+VEV
Sbjct: 188 SSLKEGDVVEGTVARLTDFGAFVDI-GGVDGLVHISELSHERVE-KPSEVVSVGQEVEVK 245
Query: 338 ILEVNPARKRISLGLKQALINPWEEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMI 397
+L ++ +RISL LK L PWE + P G +EG VK TDFG F+ + ++G++
Sbjct: 246 VLSIDWETERISLSLKDTLPGPWEGVEEKLPEGDVIEGTVKRLTDFGAFVEVLPGVEGLV 305
Query: 398 HLSDLDWNR---PGEKVIAEYAKGDIVKAVVLDIDVGKERISLGVKQLS 443
H+S + P E V+ E G VK VL+++ ++RISL +K L
Sbjct: 306 HISQISHKHIATPSE-VLEE---GQEVKVKVLEVNEEEKRISLSIKALE 350
Score = 131 bits (331), Expect = 6e-31
Identities = 113/395 (28%), Positives = 199/395 (50%), Gaps = 36/395 (9%)
Query: 192 VQKLEEGQVIEGTVKNITDYGVFVDLSG--VDGLLHVTDIAWHRILHPSKVLSIGQQVKV 249
V+++E G V+ G V + D VFV++ G V+G++ +++++ I + V+ +G +++V
Sbjct: 12 VKEVEVGDVVTGEVLKVEDKQVFVNIEGYKVEGVIPISELSNDHIEDINDVVKVGDELEV 71
Query: 250 KIIRINQETHRISLGMKQLEKNP-WDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSGIEG 308
++++ + L ++LE WD +++K+ EG V VT + G+ V++ G+ G
Sbjct: 72 YVLKVEDGEGNLLLSKRRLEAEKAWDKLEEKFEEGEVVEVKVTEVVKGGLVVDV-EGVRG 130
Query: 309 LAHISQISWTKKNIHPSKILS--VGQQVEVVILEVNPARKRISLG----LKQALINPWEE 362
S IS + S G+ +EV I+E++P + R+ L +++ EE
Sbjct: 131 FIPASLIS-----TRFVEDFSDFKGKTLEVKIIELDPEKNRVILSRRAVVEEERAAKKEE 185
Query: 363 FSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNR---PGEKVIAEYAKGD 419
S G VEG V TDFG F+ + +DG++H+S+L R P E V + G
Sbjct: 186 LLSSLKEGDVVEGTVARLTDFGAFVDIGG-VDGLVHISELSHERVEKPSEVV----SVGQ 240
Query: 420 IVKAVVLDIDVGKERISLGVKQLSGSAPDVVDSVSS-LRKNDVVSCEVISVSEGGIEVSL 478
V+ VL ID ERISL +K + P + V L + DV+ V +++ G V +
Sbjct: 241 EVEVKVLSIDWETERISLSLKD---TLPGPWEGVEEKLPEGDVIEGTVKRLTDFGAFVEV 297
Query: 479 IDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKALE--IAE 536
+ G+ + S +S + +GQ V V+ V++++ ++SLSIKALE AE
Sbjct: 298 LP--GVEGLVHISQISHKHIATPSEVLEEGQEVKVKVLEVNEEEKRISLSIKALEEAPAE 355
Query: 537 EKGAVAQF-----GSSDSGASLGDILGMALKNRGN 566
E+ ++ ++G SLGD++G LK
Sbjct: 356 EEDRREEYRQYELPEEETGFSLGDLIGDKLKKLKL 390
Score = 40.6 bits (96), Expect = 0.001
Identities = 23/89 (25%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 448 DVVDSVSSLRKNDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSK 507
+ ++SV + DVV+ EV+ V + + V++ +K I S+LS D ++
Sbjct: 7 ESLNSVKEVEVGDVVTGEVLKVEDKQVFVNIEGYKV-EGVIPISELSNDHIEDINDVVKV 65
Query: 508 GQIVDACVVNVSKKDGKVSLSIKALEIAE 536
G ++ V+ V +G + LS + LE +
Sbjct: 66 GDELEVYVLKVEDGEGNLLLSKRRLEAEK 94
>gnl|CDD|172339 PRK13806, rpsA, 30S ribosomal protein S1; Provisional.
Length = 491
Score = 310 bits (797), Expect = 5e-85
Identities = 160/454 (35%), Positives = 248/454 (54%), Gaps = 11/454 (2%)
Query: 5 NPSREDFATLLE--ESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGK 62
E FA LLE E K +L G V+ + +D+V VD G K +G + R E +
Sbjct: 11 LDESESFAELLEAYEGERKTELRVGDKITGTVIAITEDSVFVDTGSKVDGVVDRAELLDA 70
Query: 63 GQYTPIKVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFNQV 122
+ VGDEVE+YV E S+ + + G +E + G +EG +
Sbjct: 71 DGELTVAVGDEVELYVVSVNG--QEIRLSKALSGQGGA-AMLEEAYENGVPVEGKVTGTC 127
Query: 123 KGGMTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVLEE 182
KGG V++ G AF P SQID+R V D + + F I ++++ NIVVSRRA+LE
Sbjct: 128 KGGFNVEVLGRRAFCPVSQIDLRYVEDPESYVGQTFQFLITRVEENGRNIVVSRRALLER 187
Query: 183 SRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLS-GVDGLLHVTDIAWHRILHPSKVL 241
+ E ++ ++EG V+EGTV + +G FV+L+ GV+G++H+++++W R+ + +
Sbjct: 188 EQKEALEAFMETVKEGDVVEGTVTRLAPFGAFVELAPGVEGMVHISELSWSRVQKADEAV 247
Query: 242 SIGQQVKVKIIRINQETH----RISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYG 297
S+G V+VK++ I + RISL +KQ +PWD V D+ G KV+G V L +G
Sbjct: 248 SVGDTVRVKVLGIERAKKGKGLRISLSIKQAGGDPWDTVGDRLKAGDKVTGKVVRLAPFG 307
Query: 298 VFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALI 357
FVE+ GIEGL H+S++SWT++ P +++ G V V I +++PA++RISL L+ A
Sbjct: 308 AFVEILPGIEGLVHVSEMSWTRRVNKPEDVVAPGDAVAVKIKDIDPAKRRISLSLRDAEG 367
Query: 358 NPWEEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAK 417
+PW + ++ PGT V G V+ + FGLF+ L + G++ S + +
Sbjct: 368 DPWADVAERFAPGTTVTGTVEKRAQFGLFVNLAPGVTGLLPASVIS-RAGKPATYEKLKP 426
Query: 418 GDIVKAVVLDIDVGKERISLGVKQLSGSAPDVVD 451
GD V VV +ID K +ISL +GS D D
Sbjct: 427 GDSVTLVVEEIDTAKRKISLAPAGAAGSGADDDD 460
>gnl|CDD|105491 PRK12269, PRK12269, bifunctional cytidylate kinase/ribosomal
protein S1; Provisional.
Length = 863
Score = 301 bits (772), Expect = 3e-82
Identities = 198/560 (35%), Positives = 301/560 (53%), Gaps = 29/560 (5%)
Query: 15 LEESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGKGQYTPIKVGDEV 74
L+E ++ + V G VV + TV VD+G K EGR+P EF P K GD V
Sbjct: 310 LQERYSFEAPEPGSVRMGTVVQVNAGTVFVDIGGKSEGRVPVEEFEA-----PPKAGDGV 364
Query: 75 EVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVI--FNQVKGGMTVDLN- 131
VYVER +G + S+ KA R G+ K+ R G +EG I + K G VDL
Sbjct: 365 RVYVERV-TPYGPEL-SKTKADRLGLKVKLRDAERDGTPVEGRIVRLTEKKSGFEVDLGA 422
Query: 132 GEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDK---RRGN--IVVSRRAVLEESRAE 186
G +AFLP SQ D + V L+ F I ++ + RGN IV++RR LEE +
Sbjct: 423 GMMAFLPISQSDCQKVDAPESLIGLTSKFYIERISQSKQHRGNDNIVINRRRYLEERARQ 482
Query: 187 QRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQQ 246
R E + + G VK+ T +G F+DL G DGLLHV D++W + P + + GQ
Sbjct: 483 AREEFFNSVHIEDSVSGVVKSFTSFGAFIDLGGFDGLLHVNDMSWGHVARPREFVKKGQT 542
Query: 247 VKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSGI 306
+++K+IR++Q RI+L +K + +PW + ++K+ V G VT + D+G F+EL GI
Sbjct: 543 IELKVIRLDQAEKRINLSLKHFQPDPWLEFENKFGVNDVVKGRVTKIADFGAFIELAEGI 602
Query: 307 EGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPWEEFSKS 366
EGLAHIS+ SW KK PS ++ +G +VE +IL + R+SLGLKQ NPWEE
Sbjct: 603 EGLAHISEFSWVKKTSKPSDMVKIGDEVECMILGYDIQAGRVSLGLKQVTANPWEEIEAR 662
Query: 367 HPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDIVKAVVL 426
+P G + T+ G FI ++E +DG +H+ DL W + E G ++ +V+
Sbjct: 663 YPVGARFTRRIVKVTNAGAFIEMEEGIDGFLHVDDLSWVKRTRPADHELEVGKEIECMVI 722
Query: 427 DIDVGKERISLGVKQLSGSAPDVVDSVSSLRKNDVVSCEVISVSEGGIEVSLIDHKGINS 486
+ D RI LGVKQLS + V + + V EV SV++ GI V + G+
Sbjct: 723 ECDPQARRIRLGVKQLSDNPWQVFANAYGV--GSTVEGEVSSVTDFGIFVRV--PGGVEG 778
Query: 487 FIRRSDLSRDRVDQDPG----RFSKGQIVDACVVNVSKKDGKVSLSIKALEIAEEKGAVA 542
+R+ L +R D DPG +++ G V A +V+++ KD KV+ S++ + ++ ++
Sbjct: 779 LVRKQHLVENR-DGDPGEALRKYAVGDRVKAVIVDMNVKDRKVAFSVRDYQRKVQRDELS 837
Query: 543 QFGSSDSGA-----SLGDIL 557
++ S+ G +LGD++
Sbjct: 838 RYMSAPRGEDEGSFTLGDLM 857
>gnl|CDD|181161 PRK07899, rpsA, 30S ribosomal protein S1; Reviewed.
Length = 486
Score = 252 bits (645), Expect = 2e-67
Identities = 136/355 (38%), Positives = 221/355 (62%), Gaps = 13/355 (3%)
Query: 7 SREDFATLLEES---FTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGKG 63
S EDF ++++ F D+ E G VV +++D V++D+G K EG IP RE K
Sbjct: 18 SAEDFLAAIDKTIKYFNDGDIVE-----GTVVKVDRDEVLLDIGYKTEGVIPSRELSIKH 72
Query: 64 QYTP---IKVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFN 120
P ++VGDEVE V + E+ G + S+ +A E W IE + G +
Sbjct: 73 DVDPNEVVEVGDEVEALVLQKEDKEGRLILSKKRAQYERAWGTIEKIKEKDGVVTGTVIE 132
Query: 121 QVKGGMTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVL 180
VKGG+ +D+ G FLP S +++R VRD+ P + + +I+++DK R N+V+SRRA L
Sbjct: 133 VVKGGLILDI-GLRGFLPASLVEMRRVRDLQPYIGQEIEAKIIELDKNRNNVVLSRRAWL 191
Query: 181 EESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKV 240
E++++E RSE + +L++GQV +G V +I ++G FVDL GVDGL+HV++++W I HPS+V
Sbjct: 192 EQTQSEVRSEFLNQLQKGQVRKGVVSSIVNFGAFVDLGGVDGLVHVSELSWKHIDHPSEV 251
Query: 241 LSIGQQVKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFV 300
+ +GQ+V V+++ ++ + R+SL +K +++PW + G V G VT L +G FV
Sbjct: 252 VEVGQEVTVEVLDVDMDRERVSLSLKATQEDPWQQFARTHAIGQIVPGKVTKLVPFGAFV 311
Query: 301 ELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQA 355
++ GIEGL HIS+++ + P +++ VG +V V +++++ R+RISL LKQA
Sbjct: 312 RVEEGIEGLVHISELAERHVEV-PEQVVQVGDEVFVKVIDIDLERRRISLSLKQA 365
Score = 124 bits (313), Expect = 7e-29
Identities = 91/275 (33%), Positives = 163/275 (59%), Gaps = 19/275 (6%)
Query: 177 RAVLEESRAE-QR--SEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHR 233
R +L + RA+ +R I + E+ V+ GTV + G+ +D+ G+ G L + + R
Sbjct: 99 RLILSKKRAQYERAWGTIEKIKEKDGVVTGTVIEVVKGGLILDI-GLRGFLPASLVEMRR 157
Query: 234 I--LHPSKVLSIGQQVKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYV----EGSKVS 287
+ L P IGQ+++ KII +++ + + L + + +V+ +++ +G
Sbjct: 158 VRDLQPY----IGQEIEAKIIELDKNRNNVVLSRRAWLEQTQSEVRSEFLNQLQKGQVRK 213
Query: 288 GVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNI-HPSKILSVGQQVEVVILEVNPARK 346
GVV+++ ++G FV+L G++GL H+S++SW K+I HPS+++ VGQ+V V +L+V+ R+
Sbjct: 214 GVVSSIVNFGAFVDL-GGVDGLVHVSELSW--KHIDHPSEVVEVGQEVTVEVLDVDMDRE 270
Query: 347 RISLGLKQALINPWEEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNR 406
R+SL LK +PW++F+++H G V G+V FG F+ ++E ++G++H+S+L R
Sbjct: 271 RVSLSLKATQEDPWQQFARTHAIGQIVPGKVTKLVPFGAFVRVEEGIEGLVHISELA-ER 329
Query: 407 PGEKVIAEYAKGDIVKAVVLDIDVGKERISLGVKQ 441
E GD V V+DID+ + RISL +KQ
Sbjct: 330 HVEVPEQVVQVGDEVFVKVIDIDLERRRISLSLKQ 364
>gnl|CDD|180960 PRK07400, PRK07400, 30S ribosomal protein S1; Reviewed.
Length = 318
Score = 119 bits (299), Expect = 2e-27
Identities = 84/279 (30%), Positives = 136/279 (48%), Gaps = 20/279 (7%)
Query: 7 SREDFATLLEE---SFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGKG 63
+ EDFA LL++ F D + G V LE ++D+G K +P +E
Sbjct: 14 THEDFAALLDKYDYHFKPGD-----IVNGTVFSLEPRGALIDIGAKTAAFMPIQEMSINR 68
Query: 64 QYTPIKV---GDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFN 120
P +V + E ++ EN G+ S + WE++ + + +F
Sbjct: 69 VEGPEEVLQPNETREFFILSDENEDGQLTLSIRRIEYMRAWERVRQLQKEDATVRSEVFA 128
Query: 121 QVKGGMTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVL 180
+GG V + G F+P S I R ++ L+ E + L++D+ R +V+S R L
Sbjct: 129 TNRGGALVRIEGLRGFIPGSHISTRKPKE--ELVGEELPLKFLEVDEERNRLVLSHRRAL 186
Query: 181 EESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKV 240
E + + +LE G+V+ GTV+ I YG F+D+ GV GLLH+++I+ I P V
Sbjct: 187 VERK-------MNRLEVGEVVVGTVRGIKPYGAFIDIGGVSGLLHISEISHEHIETPHSV 239
Query: 241 LSIGQQVKVKIIRINQETHRISLGMKQLEKNPWDDVQDK 279
++ ++KV II ++ E RISL KQLE P D ++D
Sbjct: 240 FNVNDEMKVMIIDLDAERGRISLSTKQLEPEPGDMLKDP 278
Score = 65.2 bits (159), Expect = 5e-11
Identities = 66/259 (25%), Positives = 130/259 (50%), Gaps = 21/259 (8%)
Query: 102 EKIEAKFRAGERIEGVIFNQVKGGMTVDLNGEVA-FLPRSQIDIRPVRDVTPLMH--EPQ 158
+K + F+ G+ + G +F+ G +D+ + A F+P ++ I V ++ E +
Sbjct: 23 DKYDYHFKPGDIVNGTVFSLEPRGALIDIGAKTAAFMPIQEMSINRVEGPEEVLQPNETR 82
Query: 159 LFEILKMDKRRGNIVVSRRAVLEESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLS 218
F IL + G + +S R + E RA +R +QK E + V G V +
Sbjct: 83 EFFILSDENEDGQLTLSIRRI-EYMRAWERVRQLQK--EDATVRSEVFATNRGGALVRIE 139
Query: 219 GVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRINQETHRISLGMKQ--LEKNPWDDV 276
G+ G + + I+ + K +G+++ +K + +++E +R+ L ++ +E+
Sbjct: 140 GLRGFIPGSHISTRK----PKEELVGEELPLKFLEVDEERNRLVLSHRRALVERK----- 190
Query: 277 QDKYVEGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIH-PSKILSVGQQVE 335
++ G V G V + YG F+++ G+ GL HIS+IS ++I P + +V +++
Sbjct: 191 MNRLEVGEVVVGTVRGIKPYGAFIDI-GGVSGLLHISEIS--HEHIETPHSVFNVNDEMK 247
Query: 336 VVILEVNPARKRISLGLKQ 354
V+I++++ R RISL KQ
Sbjct: 248 VMIIDLDAERGRISLSTKQ 266
Score = 49.8 bits (119), Expect = 2e-06
Identities = 63/255 (24%), Positives = 122/255 (47%), Gaps = 13/255 (5%)
Query: 198 GQVIEGTVKNITDYGVFVDLSG-VDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRINQ 256
G ++ GTV ++ G +D+ + + +++ +R+ P +VL + + I+
Sbjct: 32 GDIVNGTVFSLEPRGALIDIGAKTAAFMPIQEMSINRVEGPEEVLQPNETREFFILSDEN 91
Query: 257 ETHRISLGMKQLE-KNPWDDVQDKYVEGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQI 315
E +++L ++++E W+ V+ E + V V G V ++ G+ G S I
Sbjct: 92 EDGQLTLSIRRIEYMRAWERVRQLQKEDATVRSEVFATNRGGALVRIE-GLRGFIPGSHI 150
Query: 316 SWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPWEEFSKSHPPGTEVEG 375
S T+K K VG+++ + LEV+ R R+ L ++AL+ E G V G
Sbjct: 151 S-TRK----PKEELVGEELPLKFLEVDEERNRLVLSHRRALV---ERKMNRLEVGEVVVG 202
Query: 376 EVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDIVKAVVLDIDVGKERI 435
V+ +G FI + + G++H+S++ E + + D +K +++D+D + RI
Sbjct: 203 TVRGIKPYGAFIDIG-GVSGLLHISEISHEHI-ETPHSVFNVNDEMKVMIIDLDAERGRI 260
Query: 436 SLGVKQLSGSAPDVV 450
SL KQL D++
Sbjct: 261 SLSTKQLEPEPGDML 275
Score = 28.6 bits (64), Expect = 5.1
Identities = 13/57 (22%), Positives = 31/57 (54%)
Query: 477 SLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKALE 533
+ ID G++ + S++S + ++ F+ + ++++ + G++SLS K LE
Sbjct: 212 AFIDIGGVSGLLHISEISHEHIETPHSVFNVNDEMKVMIIDLDAERGRISLSTKQLE 268
>gnl|CDD|183327 PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase;
Provisional.
Length = 693
Score = 88.6 bits (221), Expect = 4e-18
Identities = 32/81 (39%), Positives = 48/81 (59%), Gaps = 2/81 (2%)
Query: 190 EIVQKLEEGQVIEGTVKNITDYGVFVD-LSGVDGLLHVTDIAWHRILHPSKVLSIGQQVK 248
I + E G++ EG V I D+G FV+ L G DGL+H+++IA R+ VL G +VK
Sbjct: 614 GITAEPEVGEIYEGKVVRIVDFGAFVEILPGKDGLVHISEIADERVEKVEDVLKEGDEVK 673
Query: 249 VKIIRINQETHRISLGMKQLE 269
VK++ I+ + RI L K +
Sbjct: 674 VKVLEID-KRGRIRLSRKAVL 693
Score = 70.5 bits (174), Expect = 1e-12
Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 288 GVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKR 347
G V + D+G FVE+ G +GL HIS+I+ + +L G +V+V +LE++ R R
Sbjct: 627 GKVVRIVDFGAFVEILPGKDGLVHISEIADERVE-KVEDVLKEGDEVKVKVLEIDK-RGR 684
Query: 348 ISLGLKQAL 356
I L K L
Sbjct: 685 IRLSRKAVL 693
Score = 50.0 bits (121), Expect = 2e-06
Identities = 32/99 (32%), Positives = 48/99 (48%), Gaps = 14/99 (14%)
Query: 344 ARKRISLGLKQALINPWEEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLD 403
A++RI + + E G EG+V DFG F+ + DG++H+S++
Sbjct: 608 AKERI-----EGITAEPEV-------GEIYEGKVVRIVDFGAFVEILPGKDGLVHISEIA 655
Query: 404 WNRPGEKVIAEYAKGDIVKAVVLDIDVGKERISLGVKQL 442
R EKV +GD VK VL+ID + RI L K +
Sbjct: 656 DER-VEKVEDVLKEGDEVKVKVLEID-KRGRIRLSRKAV 692
Score = 30.0 bits (69), Expect = 1.7
Identities = 12/43 (27%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 491 SDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKALE 533
S+++ +RV++ +G V V+ + K+ G++ LS KA+
Sbjct: 652 SEIADERVEKVEDVLKEGDEVKVKVLEIDKR-GRIRLSRKAVL 693
>gnl|CDD|128611 smart00316, S1, Ribosomal protein S1-like RNA-binding domain.
Length = 72
Score = 78.4 bits (194), Expect = 5e-15
Identities = 32/72 (44%), Positives = 52/72 (72%), Gaps = 1/72 (1%)
Query: 196 EEGQVIEGTVKNITDYGVFVDL-SGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRI 254
E G V+EGTV IT +G FVDL +GV+GL+ +++++ R+ P +VL +G +VKVK++ +
Sbjct: 1 EVGDVVEGTVTEITPFGAFVDLGNGVEGLIPISELSDKRVKDPEEVLKVGDEVKVKVLSV 60
Query: 255 NQETHRISLGMK 266
++E RI L +K
Sbjct: 61 DEEKGRIILSLK 72
Score = 72.6 bits (179), Expect = 3e-13
Identities = 31/72 (43%), Positives = 46/72 (63%), Gaps = 1/72 (1%)
Query: 282 EGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEV 341
G V G VT +T +G FV+L +G+EGL IS++S K+ P ++L VG +V+V +L V
Sbjct: 2 VGDVVEGTVTEITPFGAFVDLGNGVEGLIPISELSD-KRVKDPEEVLKVGDEVKVKVLSV 60
Query: 342 NPARKRISLGLK 353
+ + RI L LK
Sbjct: 61 DEEKGRIILSLK 72
Score = 61.9 bits (151), Expect = 5e-10
Identities = 27/72 (37%), Positives = 36/72 (50%), Gaps = 1/72 (1%)
Query: 369 PGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDIVKAVVLDI 428
G VEG V T FG F+ L ++G+I +S+L R + GD VK VL +
Sbjct: 2 VGDVVEGTVTEITPFGAFVDLGNGVEGLIPISELSDKR-VKDPEEVLKVGDEVKVKVLSV 60
Query: 429 DVGKERISLGVK 440
D K RI L +K
Sbjct: 61 DEEKGRIILSLK 72
Score = 53.4 bits (129), Expect = 2e-07
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 2/74 (2%)
Query: 457 RKNDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVV 516
DVV V ++ G V L + G+ I S+LS RV G V V+
Sbjct: 1 EVGDVVEGTVTEITPFGAFVDLGN--GVEGLIPISELSDKRVKDPEEVLKVGDEVKVKVL 58
Query: 517 NVSKKDGKVSLSIK 530
+V ++ G++ LS+K
Sbjct: 59 SVDEEKGRIILSLK 72
Score = 44.9 bits (107), Expect = 5e-05
Identities = 23/67 (34%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 29 VTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGKGQYTP---IKVGDEVEVYVERTENSF 85
V +G V + VD+G EG IP E K P +KVGDEV+V V +
Sbjct: 5 VVEGTVTEITPFGAFVDLGNGVEGLIPISELSDKRVKDPEEVLKVGDEVKVKVLSVDEEK 64
Query: 86 GEAVFSR 92
G + S
Sbjct: 65 GRIILSL 71
Score = 39.9 bits (94), Expect = 0.002
Identities = 17/72 (23%), Positives = 35/72 (48%), Gaps = 3/72 (4%)
Query: 109 RAGERIEGVIFNQVKGGMTVDLNGEV-AFLPRSQIDIRPVRDVTP--LMHEPQLFEILKM 165
G+ +EG + G VDL V +P S++ + V+D + + ++L +
Sbjct: 1 EVGDVVEGTVTEITPFGAFVDLGNGVEGLIPISELSDKRVKDPEEVLKVGDEVKVKVLSV 60
Query: 166 DKRRGNIVVSRR 177
D+ +G I++S +
Sbjct: 61 DEEKGRIILSLK 72
>gnl|CDD|163340 TIGR03591, polynuc_phos, polyribonucleotide nucleotidyltransferase.
Members of this protein family are polyribonucleotide
nucleotidyltransferase, also called polynucleotide
phosphorylase. Some members have been shown also to have
additional functions as guanosine pentaphosphate
synthetase and as poly(A) polymerase (see model
TIGR02696 for an exception clade, within this family).
Length = 684
Score = 77.9 bits (193), Expect = 6e-15
Identities = 31/75 (41%), Positives = 46/75 (61%), Gaps = 2/75 (2%)
Query: 190 EIVQKLEEGQVIEGTVKNITDYGVFVD-LSGVDGLLHVTDIAWHRILHPSKVLSIGQQVK 248
I + E G++ EG V I D+G FV+ L G DGL+H+++IA R+ VL G +VK
Sbjct: 611 GITAEPEVGKIYEGKVVRIMDFGAFVEILPGKDGLVHISEIANERVEKVEDVLKEGDEVK 670
Query: 249 VKIIRINQETHRISL 263
VK++ I+ + RI L
Sbjct: 671 VKVLEID-KQGRIKL 684
Score = 56.0 bits (136), Expect = 2e-08
Identities = 23/64 (35%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 287 SGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARK 346
G V + D+G FVE+ G +GL HIS+I+ + +L G +V+V +LE++ +
Sbjct: 623 EGKVVRIMDFGAFVEILPGKDGLVHISEIANERVE-KVEDVLKEGDEVKVKVLEID-KQG 680
Query: 347 RISL 350
RI L
Sbjct: 681 RIKL 684
Score = 42.5 bits (101), Expect = 3e-04
Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 374 EGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDIVKAVVLDID 429
EG+V DFG F+ + DG++H+S++ R EKV +GD VK VL+ID
Sbjct: 623 EGKVVRIMDFGAFVEILPGKDGLVHISEIANERV-EKVEDVLKEGDEVKVKVLEID 677
>gnl|CDD|181215 PRK08059, PRK08059, general stress protein 13; Validated.
Length = 123
Score = 65.5 bits (160), Expect = 4e-11
Identities = 34/91 (37%), Positives = 50/91 (54%), Gaps = 3/91 (3%)
Query: 279 KYVEGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWT-KKNIHPSKILSVGQQVEVV 337
+Y GS V+G VT + YG FV L +GL HIS+I+ K+IH LSVG +V+V
Sbjct: 4 QYEVGSVVTGKVTGIQPYGAFVALDEETQGLVHISEITHGFVKDIH--DFLSVGDEVKVK 61
Query: 338 ILEVNPARKRISLGLKQALINPWEEFSKSHP 368
+L V+ + +ISL ++ P + K
Sbjct: 62 VLSVDEEKGKISLSIRATEEAPEAKRKKGKI 92
Score = 61.2 bits (149), Expect = 8e-10
Identities = 28/80 (35%), Positives = 46/80 (57%), Gaps = 1/80 (1%)
Query: 194 KLEEGQVIEGTVKNITDYGVFVDL-SGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKII 252
+ E G V+ G V I YG FV L GL+H+++I + LS+G +VKVK++
Sbjct: 4 QYEVGSVVTGKVTGIQPYGAFVALDEETQGLVHISEITHGFVKDIHDFLSVGDEVKVKVL 63
Query: 253 RINQETHRISLGMKQLEKNP 272
+++E +ISL ++ E+ P
Sbjct: 64 SVDEEKGKISLSIRATEEAP 83
Score = 42.0 bits (99), Expect = 4e-04
Identities = 25/72 (34%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 370 GTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAK-GDIVKAVVLDI 428
G+ V G+V +G F+ LDE G++H+S++ K I ++ GD VK VL +
Sbjct: 8 GSVVTGKVTGIQPYGAFVALDEETQGLVHISEI--THGFVKDIHDFLSVGDEVKVKVLSV 65
Query: 429 DVGKERISLGVK 440
D K +ISL ++
Sbjct: 66 DEEKGKISLSIR 77
Score = 32.3 bits (74), Expect = 0.39
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 4/49 (8%)
Query: 506 SKGQIVDACVVNVSKKDGKVSLSIKALEIAEE----KGAVAQFGSSDSG 550
S G V V++V ++ GK+SLSI+A E A E KG + S+ G
Sbjct: 53 SVGDEVKVKVLSVDEEKGKISLSIRATEEAPEAKRKKGKILIPNPSEQG 101
>gnl|CDD|181488 PRK08582, PRK08582, hypothetical protein; Provisional.
Length = 139
Score = 62.8 bits (153), Expect = 2e-10
Identities = 39/103 (37%), Positives = 54/103 (52%), Gaps = 5/103 (4%)
Query: 283 GSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTK-KNIHPSKILSVGQQVEVVILEV 341
GSK+ G VT +T++G FVEL G GL HIS+++ K+I+ L VG +VEV +L V
Sbjct: 6 GSKLQGKVTGITNFGAFVELPEGKTGLVHISEVADNYVKDIN--DHLKVGDEVEVKVLNV 63
Query: 342 NPARKRISLGLKQALINPWEEFSKSHPPGTEVEGE-VKNKTDF 383
K I L +K+A P + + G V K DF
Sbjct: 64 EDDGK-IGLSIKKAKDRPKRQHDRPRHEDNRGGGNDVAPKEDF 105
Score = 45.8 bits (109), Expect = 3e-05
Identities = 24/79 (30%), Positives = 49/79 (62%), Gaps = 2/79 (2%)
Query: 195 LEEGQVIEGTVKNITDYGVFVDL-SGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIR 253
+E G ++G V IT++G FV+L G GL+H++++A + + + L +G +V+VK++
Sbjct: 3 IEVGSKLQGKVTGITNFGAFVELPEGKTGLVHISEVADNYVKDINDHLKVGDEVEVKVLN 62
Query: 254 INQETHRISLGMKQLEKNP 272
+ + +I L +K+ + P
Sbjct: 63 VEDDG-KIGLSIKKAKDRP 80
Score = 32.7 bits (75), Expect = 0.25
Identities = 27/74 (36%), Positives = 46/74 (62%), Gaps = 6/74 (8%)
Query: 370 GTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAK-GDIVKAVVLDI 428
G++++G+V T+FG F+ L E G++H+S++ N K I ++ K GD V+ VL++
Sbjct: 6 GSKLQGKVTGITNFGAFVELPEGKTGLVHISEVADNYV--KDINDHLKVGDEVEVKVLNV 63
Query: 429 -DVGKERISLGVKQ 441
D GK I L +K+
Sbjct: 64 EDDGK--IGLSIKK 75
>gnl|CDD|180268 PRK05807, PRK05807, hypothetical protein; Provisional.
Length = 136
Score = 57.8 bits (140), Expect = 7e-09
Identities = 30/77 (38%), Positives = 50/77 (64%), Gaps = 1/77 (1%)
Query: 195 LEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRI 254
L+ G ++EGTV NIT++G FV++ G GL+H++++A + + L +VKVK+I I
Sbjct: 3 LKAGSILEGTVVNITNFGAFVEVEGKTGLVHISEVADTYVKDIREHLKEQDKVKVKVISI 62
Query: 255 NQETHRISLGMKQLEKN 271
+ + +ISL +KQ K
Sbjct: 63 D-DNGKISLSIKQAMKQ 78
Score = 48.2 bits (115), Expect = 5e-06
Identities = 30/98 (30%), Positives = 53/98 (54%), Gaps = 14/98 (14%)
Query: 283 GSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTK-KNIHPSKILSVGQQVEVVILEV 341
GS + G V N+T++G FVE++ G GL HIS+++ T K+I + L +V+V ++ +
Sbjct: 6 GSILEGTVVNITNFGAFVEVE-GKTGLVHISEVADTYVKDIR--EHLKEQDKVKVKVISI 62
Query: 342 NPARKRISLGLKQALINP---------WEEFSKSHPPG 370
+ +ISL +KQA+ W++ + G
Sbjct: 63 DD-NGKISLSIKQAMKQKKSVKPAEIDWQKEKNKNNNG 99
Score = 37.4 bits (87), Expect = 0.010
Identities = 28/73 (38%), Positives = 42/73 (57%), Gaps = 5/73 (6%)
Query: 370 GTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAK-GDIVKAVVLDI 428
G+ +EG V N T+FG F+ + E G++H+S++ K I E+ K D VK V+ I
Sbjct: 6 GSILEGTVVNITNFGAFVEV-EGKTGLVHISEVADTYV--KDIREHLKEQDKVKVKVISI 62
Query: 429 DVGKERISLGVKQ 441
D +ISL +KQ
Sbjct: 63 D-DNGKISLSIKQ 74
>gnl|CDD|180908 PRK07252, PRK07252, hypothetical protein; Provisional.
Length = 120
Score = 54.3 bits (131), Expect = 8e-08
Identities = 27/72 (37%), Positives = 44/72 (61%), Gaps = 3/72 (4%)
Query: 283 GSKVSGVVTNLTDYGVFVELQSGIEGLAHISQI-SWTKKNIHPSKILSVGQQVEVVILEV 341
G K+ G +T + YG FV L++G GL HIS+I + NIH ++L VG++V V +++
Sbjct: 4 GDKLKGTITGIKPYGAFVALENGTTGLIHISEIKTGFIDNIH--QLLKVGEEVLVQVVDF 61
Query: 342 NPARKRISLGLK 353
+ + SL L+
Sbjct: 62 DEYTGKASLSLR 73
Score = 52.0 bits (125), Expect = 4e-07
Identities = 24/73 (32%), Positives = 46/73 (63%), Gaps = 1/73 (1%)
Query: 198 GQVIEGTVKNITDYGVFVDL-SGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRINQ 256
G ++GT+ I YG FV L +G GL+H+++I I + ++L +G++V V+++ ++
Sbjct: 4 GDKLKGTITGIKPYGAFVALENGTTGLIHISEIKTGFIDNIHQLLKVGEEVLVQVVDFDE 63
Query: 257 ETHRISLGMKQLE 269
T + SL ++ LE
Sbjct: 64 YTGKASLSLRTLE 76
>gnl|CDD|179696 PRK03987, PRK03987, translation initiation factor IF-2 subunit
alpha; Validated.
Length = 262
Score = 52.1 bits (126), Expect = 4e-07
Identities = 25/74 (33%), Positives = 44/74 (59%), Gaps = 3/74 (4%)
Query: 196 EEGQVIEGTVKNITDYGVFVDL---SGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKII 252
EEG+++ GTVK + D+G FV L G +G +H++++A + + + GQ+V K+I
Sbjct: 7 EEGELVVGTVKEVKDFGAFVTLDEYPGKEGFIHISEVASGWVKNIRDHVKEGQKVVCKVI 66
Query: 253 RINQETHRISLGMK 266
R++ I L +K
Sbjct: 67 RVDPRKGHIDLSLK 80
Score = 50.6 bits (122), Expect = 1e-06
Identities = 29/76 (38%), Positives = 40/76 (52%), Gaps = 7/76 (9%)
Query: 282 EGSKVSGVVTNLTDYGVFVELQ--SGIEGLAHISQIS--WTKKNIHPSKILSVGQQVEVV 337
EG V G V + D+G FV L G EG HIS+++ W KNI + GQ+V
Sbjct: 8 EGELVVGTVKEVKDFGAFVTLDEYPGKEGFIHISEVASGWV-KNIR--DHVKEGQKVVCK 64
Query: 338 ILEVNPARKRISLGLK 353
++ V+P + I L LK
Sbjct: 65 VIRVDPRKGHIDLSLK 80
Score = 32.1 bits (74), Expect = 0.45
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 21/83 (25%)
Query: 369 PGTEVEGEVKNKTDFGLFIGLDEH--LDGMIHLSDL---------DWNRPGEKVIAEYAK 417
G V G VK DFG F+ LDE+ +G IH+S++ D + G+KV+ +
Sbjct: 8 EGELVVGTVKEVKDFGAFVTLDEYPGKEGFIHISEVASGWVKNIRDHVKEGQKVVCK--- 64
Query: 418 GDIVKAVVLDIDVGKERISLGVK 440
V+ +D K I L +K
Sbjct: 65 -------VIRVDPRKGHIDLSLK 80
>gnl|CDD|181471 PRK08563, PRK08563, DNA-directed RNA polymerase subunit E';
Provisional.
Length = 187
Score = 47.5 bits (114), Expect = 9e-06
Identities = 28/93 (30%), Positives = 45/93 (48%), Gaps = 16/93 (17%)
Query: 191 IVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSK----------- 239
+V K E +V+EG V + ++G FV + VDGLLH++ I I + K
Sbjct: 75 LVFKPELQEVVEGEVVEVVEFGAFVRIGPVDGLLHISQIMDDYISYDPKNGRLIGKESKR 134
Query: 240 VLSIGQQVKVKIIRI-----NQETHRISLGMKQ 267
VL +G V+ +I+ + +I L M+Q
Sbjct: 135 VLKVGDVVRARIVAVSLKERRPRGSKIGLTMRQ 167
Score = 35.6 bits (83), Expect = 0.033
Identities = 13/31 (41%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 286 VSGVVTNLTDYGVFVELQSGIEGLAHISQIS 316
V G V + ++G FV + ++GL HISQI
Sbjct: 85 VEGEVVEVVEFGAFVRI-GPVDGLLHISQIM 114
Score = 32.9 bits (76), Expect = 0.22
Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 16/84 (19%)
Query: 373 VEGEVKNKTDFGLFIGLDEHLDGMIHLS-------DLDWNRP---GEKVIAEYAKGDIVK 422
VEGEV +FG F+ + +DG++H+S D G++ GD+V+
Sbjct: 85 VEGEVVEVVEFGAFVRIGP-VDGLLHISQIMDDYISYDPKNGRLIGKESKRVLKVGDVVR 143
Query: 423 AVVLDI-----DVGKERISLGVKQ 441
A ++ + +I L ++Q
Sbjct: 144 ARIVAVSLKERRPRGSKIGLTMRQ 167
>gnl|CDD|162678 TIGR02063, RNase_R, ribonuclease R. This family consists of an
exoribonuclease, ribonuclease R, also called VacB. It is
one of the eight exoribonucleases reported in E. coli
and is broadly distributed throughout the bacteria. In
E. coli, double mutants of this protein and
polynucleotide phosphorylase are not viable. Scoring
between trusted and noise cutoffs to the model are
shorter, divergent forms from the Chlamydiae, and
divergent forms from the Campylobacterales (including
Helicobacter pylori) and Leptospira interrogans.
Length = 709
Score = 46.5 bits (111), Expect = 2e-05
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 11/72 (15%)
Query: 288 GVVTNLTDYGVFVEL-QSGIEGLAHISQISWTKKNIHP----------SKILSVGQQVEV 336
GV++ +T +G+FVEL + IEGL HIS + K+ +G +V+V
Sbjct: 633 GVISGVTSFGLFVELENNTIEGLVHISTLKDDYYVFDEKGLALVGERTGKVFRLGDRVKV 692
Query: 337 VILEVNPARKRI 348
+++ + +I
Sbjct: 693 RVVKADLDTGKI 704
Score = 46.1 bits (110), Expect = 2e-05
Identities = 19/77 (24%), Positives = 43/77 (55%), Gaps = 13/77 (16%)
Query: 198 GQVIEGTVKNITDYGVFVDL--SGVDGLLHVTDI---------AWHRILHPS--KVLSIG 244
G+ EG + +T +G+FV+L + ++GL+H++ + ++ KV +G
Sbjct: 628 GEEFEGVISGVTSFGLFVELENNTIEGLVHISTLKDDYYVFDEKGLALVGERTGKVFRLG 687
Query: 245 QQVKVKIIRINQETHRI 261
+VKV++++ + +T +I
Sbjct: 688 DRVKVRVVKADLDTGKI 704
Score = 38.8 bits (91), Expect = 0.004
Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 12/85 (14%)
Query: 362 EFSKSHPPGTEVEGEVKNKTDFGLFIGLDE-HLDGMIHLSDLD-----WNRPGEKVIAE- 414
E+ G E EG + T FGLF+ L+ ++G++H+S L ++ G ++ E
Sbjct: 621 EYMSEKI-GEEFEGVISGVTSFGLFVELENNTIEGLVHISTLKDDYYVFDEKGLALVGER 679
Query: 415 ----YAKGDIVKAVVLDIDVGKERI 435
+ GD VK V+ D+ +I
Sbjct: 680 TGKVFRLGDRVKVRVVKADLDTGKI 704
>gnl|CDD|177797 PLN00207, PLN00207, polyribonucleotide nucleotidyltransferase;
Provisional.
Length = 891
Score = 45.3 bits (107), Expect = 4e-05
Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 290 VTNLTDYGVFVELQSGIEGLAHISQIS--WTKKNIHPSKILSVGQQVEVVILEVN 342
+ ++ YG FVE+ G EGL HIS++S W K P VG +++V ++EVN
Sbjct: 762 IKSIAPYGAFVEIAPGREGLCHISELSSNWLAK---PEDAFKVGDRIDVKLIEVN 813
Score = 43.0 bits (101), Expect = 2e-04
Identities = 19/82 (23%), Positives = 43/82 (52%), Gaps = 2/82 (2%)
Query: 205 VKNITDYGVFVDLS-GVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIRINQETHRISL 263
+K+I YG FV+++ G +GL H+++++ + + P +G ++ VK+I +N + + L
Sbjct: 762 IKSIAPYGAFVEIAPGREGLCHISELSSNWLAKPEDAFKVGDRIDVKLIEVNDKGQ-LRL 820
Query: 264 GMKQLEKNPWDDVQDKYVEGSK 285
+ L + + +G
Sbjct: 821 SRRALLPEANSEKSSQKQQGGS 842
>gnl|CDD|131743 TIGR02696, pppGpp_PNP, guanosine pentaphosphate synthetase
I/polynucleotide phosphorylase. Sohlberg, et al.
present characterization of two proteins from
Streptomyces coelicolor. The protein in this family was
shown to have poly(A) polymerase activity and may be
responsible for polyadenylating RNA in this species.
Reference 2 showed that a nearly identical
plasmid-encoded protein from Streptomyces antibioticus
is a bifunctional enzyme that acts also as a guanosine
pentaphosphate synthetase.
Length = 719
Score = 43.3 bits (102), Expect = 2e-04
Identities = 26/71 (36%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 283 GSKVSGVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSK---ILSVGQQVEVVIL 339
G + G V T +G FV L G +GL HISQI +LSVGQ+++V I
Sbjct: 648 GERFLGTVVKTTAFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLSVGQKIQVEIA 707
Query: 340 EVNPARKRISL 350
+++ R ++SL
Sbjct: 708 DID-DRGKLSL 717
Score = 41.0 bits (96), Expect = 8e-04
Identities = 28/73 (38%), Positives = 43/73 (58%), Gaps = 6/73 (8%)
Query: 196 EEGQVIEGTVKNITDYGVFVDL-SGVDGLLHVTDI----AWHRILHPSKVLSIGQQVKVK 250
E G+ GTV T +G FV L G DGLLH++ I R+ + VLS+GQ+++V+
Sbjct: 646 EVGERFLGTVVKTTAFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLSVGQKIQVE 705
Query: 251 IIRINQETHRISL 263
I I+ + ++SL
Sbjct: 706 IADID-DRGKLSL 717
Score = 27.5 bits (61), Expect = 9.2
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 3/63 (4%)
Query: 370 GTEVEGEVKNKTDFGLFIGLDEHLDGMIHLS---DLDWNRPGEKVIAEYAKGDIVKAVVL 426
G G V T FG F+ L DG++H+S L + E V + G ++ +
Sbjct: 648 GERFLGTVVKTTAFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLSVGQKIQVEIA 707
Query: 427 DID 429
DID
Sbjct: 708 DID 710
>gnl|CDD|129540 TIGR00448, rpoE, DNA-directed RNA polymerase (rpoE), archaeal and
eukaryotic form. This family seems to be confined to
the archea and eukaryotic taxa and are quite dissimilar
to E.coli rpoE.
Length = 179
Score = 39.4 bits (92), Expect = 0.003
Identities = 28/93 (30%), Positives = 45/93 (48%), Gaps = 16/93 (17%)
Query: 191 IVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSK----------- 239
+V K E G+++EG V I ++G FV L DGL HV+ + + K
Sbjct: 75 LVFKPELGEIVEGEVIEIVEFGAFVSLGPFDGLFHVSQVTDDYCYYDPKESALIGKETKK 134
Query: 240 VLSIGQQVKVKIIRIN-----QETHRISLGMKQ 267
VL G +V+ +I+ ++ E +I L M+Q
Sbjct: 135 VLDEGDKVRARIVALSLKDRRPEGSKIGLTMRQ 167
>gnl|CDD|161836 TIGR00358, 3_prime_RNase, VacB and RNase II family 3'-5'
exoribonucleases. This model is defined to identify a
pair of paralogous 3-prime exoribonucleases in E. coli,
plus the set of proteins apparently orthologous to one
or the other in other eubacteria. VacB was characterized
originally as required for the expression of virulence
genes, but is now recognized as the exoribonuclease
RNase R (Rnr). Its paralog in E. coli and H. influenzae
is designated exoribonuclease II (Rnb). Both are
involved in the degradation of mRNA, and consequently
have strong pleiotropic effects that may be difficult to
disentangle. Both these proteins share domain-level
similarity (RNB, S1) with a considerable number of other
proteins, and full-length similarity scoring below the
trusted cutoff to proteins associated with various
phenotypes but uncertain biochemistry; it may be that
these latter proteins are also 3-prime exoribonucleases.
Length = 654
Score = 35.8 bits (83), Expect = 0.030
Identities = 23/77 (29%), Positives = 42/77 (54%), Gaps = 11/77 (14%)
Query: 370 GTEVEGEVKNKTDFGLFIGLDEH-LDGMIHLSDLD-----WNRPGEKVIAE-----YAKG 418
GTE GE+ + T FG+F+ LD++ +DG+IH+S L +++ +I + Y G
Sbjct: 573 GTEFSGEISSVTRFGMFVRLDDNGIDGLIHISTLHNDYYVFDQEKMALIGKGTGKVYRIG 632
Query: 419 DIVKAVVLDIDVGKERI 435
D V + ++++ I
Sbjct: 633 DRVTVKLTEVNMETRSI 649
Score = 32.8 bits (75), Expect = 0.24
Identities = 25/81 (30%), Positives = 40/81 (49%), Gaps = 11/81 (13%)
Query: 283 GSKVSGVVTNLTDYGVFVEL-QSGIEGLAHIS----------QISWTKKNIHPSKILSVG 331
G++ SG ++++T +G+FV L +GI+GL HIS Q K+ +G
Sbjct: 573 GTEFSGEISSVTRFGMFVRLDDNGIDGLIHISTLHNDYYVFDQEKMALIGKGTGKVYRIG 632
Query: 332 QQVEVVILEVNPARKRISLGL 352
+V V + EVN + I L
Sbjct: 633 DRVTVKLTEVNMETRSIIFEL 653
>gnl|CDD|181696 PRK09202, nusA, transcription elongation factor NusA; Validated.
Length = 470
Score = 35.2 bits (82), Expect = 0.051
Identities = 18/85 (21%), Positives = 33/85 (38%), Gaps = 20/85 (23%)
Query: 188 RSEIVQKLEE--------------GQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHR 233
+ IVQK+ E G++I G VK + + VDL + +L +
Sbjct: 111 KQVIVQKIREAERERVYEEYKDRVGEIITGVVKRVERGNIIVDLGRAEAILPRKEQI--- 167
Query: 234 ILHPSKVLSIGQQVKVKIIRINQET 258
P + G +V+ + + +E
Sbjct: 168 ---PRENFRPGDRVRAYVYEVRKEA 189
Score = 34.5 bits (80), Expect = 0.084
Identities = 15/55 (27%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 26 ENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMGKGQYTPIKVGDEVEVYVER 80
+ G+V +E+ ++VD+G + E +PR+E + + + + GD V YV
Sbjct: 134 VGEIITGVVKRVERGNIIVDLG-RAEAILPRKEQIPRENF---RPGDRVRAYVYE 184
Score = 33.3 bits (77), Expect = 0.19
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 19/87 (21%)
Query: 68 IKVGDEVEVYVERTENSFGEAVFSRDKA----------LREGVWEKIEAKF--RAGERIE 115
+VGD +E +E + F R A +RE E++ ++ R GE I
Sbjct: 87 AEVGDYIEEEIESVD-------FGRIAAQTAKQVIVQKIREAERERVYEEYKDRVGEIIT 139
Query: 116 GVIFNQVKGGMTVDLNGEVAFLPRSQI 142
GV+ +G + VDL A LPR +
Sbjct: 140 GVVKRVERGNIIVDLGRAEAILPRKEQ 166
>gnl|CDD|185526 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2
subunit 1; Provisional.
Length = 319
Score = 34.6 bits (80), Expect = 0.064
Identities = 22/98 (22%), Positives = 54/98 (55%), Gaps = 3/98 (3%)
Query: 196 EEGQVIEGTVKNITDYGVFVDL---SGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKII 252
EE ++ V IT+ G +V L ++G++ +++++ RI +K++ +G+ V ++
Sbjct: 16 EEDDLVMVKVVRITEMGAYVSLLEYDDIEGMILMSELSKRRIRSINKLIRVGRHEVVVVL 75
Query: 253 RINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVV 290
R+++E I L K++ + ++K+ + KV ++
Sbjct: 76 RVDKEKGYIDLSKKRVSPEDIEACEEKFSKSKKVHSIM 113
Score = 31.2 bits (71), Expect = 0.84
Identities = 22/72 (30%), Positives = 38/72 (52%)
Query: 459 NDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNV 518
+D+V +V+ ++E G VSL+++ I I S+LS+ R+ G+ V+ V
Sbjct: 18 DDLVMVKVVRITEMGAYVSLLEYDDIEGMILMSELSKRRIRSINKLIRVGRHEVVVVLRV 77
Query: 519 SKKDGKVSLSIK 530
K+ G + LS K
Sbjct: 78 DKEKGYIDLSKK 89
Score = 27.7 bits (62), Expect = 8.4
Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 13/86 (15%)
Query: 290 VTNLTDYGVFVEL--QSGIEGLAHISQISWTKKNIHP-SKILSVGQQVEVVILEVNPARK 346
V +T+ G +V L IEG+ +S++S K+ I +K++ VG+ VV+L V+ +
Sbjct: 25 VVRITEMGAYVSLLEYDDIEGMILMSELS--KRRIRSINKLIRVGRHEVVVVLRVDKEKG 82
Query: 347 RISLGLKQALINPWEE------FSKS 366
I L K+ ++P + FSKS
Sbjct: 83 YIDLSKKR--VSPEDIEACEEKFSKS 106
>gnl|CDD|183253 PRK11642, PRK11642, exoribonuclease R; Provisional.
Length = 813
Score = 31.2 bits (71), Expect = 0.72
Identities = 22/62 (35%), Positives = 36/62 (58%), Gaps = 15/62 (24%)
Query: 381 TDFGLFIGLDE-HLDGMIHLSDLD-----WNRPGEKVIAE-----YAKGDIVK----AVV 425
T FG F+ LD+ +DG++H+S LD +++ G+++I E Y GD V+ AV
Sbjct: 655 TGFGFFVRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLIGESSGQTYRLGDRVEVRVEAVN 714
Query: 426 LD 427
+D
Sbjct: 715 MD 716
Score = 30.5 bits (69), Expect = 1.1
Identities = 23/88 (26%), Positives = 44/88 (50%), Gaps = 13/88 (14%)
Query: 198 GQVIEGTVKNITDYGVFVDLSG--VDGLLHVT---------DIAWHRILHPS--KVLSIG 244
G V +G + ++T +G FV L +DGL+HV+ D R++ S + +G
Sbjct: 644 GNVFKGVISSVTGFGFFVRLDDLFIDGLVHVSSLDNDYYRFDQVGQRLIGESSGQTYRLG 703
Query: 245 QQVKVKIIRINQETHRISLGMKQLEKNP 272
+V+V++ +N + +I + E+ P
Sbjct: 704 DRVEVRVEAVNMDERKIDFSLISSERAP 731
Score = 29.3 bits (66), Expect = 2.9
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 274 DDVQDKYVEGSKVSGVVTNLTDYGVFVELQS-GIEGLAHIS 313
D + D+ G+ GV++++T +G FV L I+GL H+S
Sbjct: 637 DFMLDQV--GNVFKGVISSVTGFGFFVRLDDLFIDGLVHVS 675
>gnl|CDD|178056 PLN02437, PLN02437, ribonucleoside--diphosphate reductase large
subunit.
Length = 813
Score = 30.9 bits (70), Expect = 0.91
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 464 CEVISVSEGGIEVSLIDHKGINSFIR 489
C VIS S GGI +S+ + + S+IR
Sbjct: 238 CAVISKSAGGIGLSVHNIRATGSYIR 263
>gnl|CDD|179920 PRK05054, PRK05054, exoribonuclease II; Provisional.
Length = 644
Score = 30.2 bits (69), Expect = 1.6
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 463 SCEVISVSEGGIEVSLIDHKGINSFIRRSDLS--RDRVD--QDPGRFS-KGQIV 511
+ E+I +S GG+ V L+++ G +FI S L RD + Q+ G KG+ V
Sbjct: 566 AAEIIDISRGGMRVRLLEN-GAVAFIPASFLHAVRDELVCNQENGTVQIKGETV 618
>gnl|CDD|169002 PRK07546, PRK07546, hypothetical protein; Provisional.
Length = 209
Score = 29.6 bits (67), Expect = 2.1
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 9/49 (18%)
Query: 175 SRRAVLEESRAEQRSEIVQKL----EEGQVIEGTVKNITDYGVFVDLSG 219
+RRA + +RAE ++ E G+V EGT+ N+ F+D G
Sbjct: 108 TRRAAYDAARAELPPAEADEVILLNERGEVCEGTITNV-----FLDRGG 151
>gnl|CDD|132427 TIGR03384, betaine_BetI, transcriptional repressor BetI. BetI is a
DNA-binding transcriptional repressor of the bet
(betaine) regulon. In sequence, it is related to TetR
(pfam00440). Choline, through BetI, induces the
expression of the betaine biosynthesis genes betA and
betB by derepression. The choline porter gene betT is
also part of this regulon in Escherichia coli. Note that
a different transcriptional regulator, ArcA, controls
the expression of bet regulon genes in response to
oxygen, as BetA is an oxygen-dependent enzyme.
Length = 189
Score = 29.2 bits (66), Expect = 2.9
Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 154 MHEPQLFEILKMDKRR--GNIVVSRRAVLEESRAEQRSEIVQKLEEG 198
MH PQL + +++ RR N++ R +L +AE+ +E + L +G
Sbjct: 114 MHSPQLARLQRINSRRLHSNLMSELRQLLPREQAERAAEGLAALIDG 160
>gnl|CDD|185269 PRK15371, PRK15371, effector protein YopJ; Provisional.
Length = 287
Score = 28.5 bits (64), Expect = 5.0
Identities = 24/96 (25%), Positives = 42/96 (43%), Gaps = 3/96 (3%)
Query: 391 EHLDGMIHLSDLDWNRPGEKVIAEYAKGDIVKAVVLDIDVGKERISLGVKQLSGSAPDVV 450
E L +I + D G + YA+ D+ L + + +K L S D+
Sbjct: 26 EELKNIITQLEDD-IADGSWIHKNYARTDLEVMPALVAQANNKYPEMNLK-LVTSPLDLS 83
Query: 451 DSVSSLRKNDVVSCE-VISVSEGGIEVSLIDHKGIN 485
+ +N V S ++++ GGI S+ID+K I+
Sbjct: 84 IEIKETIENGVESSRFIVNMGSGGIHFSVIDYKHID 119
>gnl|CDD|162623 TIGR01953, NusA, transcription termination factor NusA. This model
describes NusA, or N utilization substance protein A, a
bacterial transcription termination factor. It binds to
RNA polymerase alpha subunit and promotes termination at
certain RNA hairpin structures. It is named for the
interaction in E. coli of phage lambda antitermination
protein N with the N-utilization substance, consisting
of NusA, NusB, NusE (ribosomal protein S10), and nusG.
This model represents a region of NusA shared in all
bacterial forms, and including an S1 (pfam00575) and a
KH (pfam00013) RNA binding domains. Proteobacterial
forms have an additional C-terminal region, not included
in this model, with two repeats of 50-residue domain
rich in acidic amino acids.
Length = 341
Score = 28.4 bits (64), Expect = 5.2
Identities = 40/185 (21%), Positives = 79/185 (42%), Gaps = 24/185 (12%)
Query: 91 SRDKAL-REGVWEKIEA--------KFRAGERIEGVIFNQVKGGMTVDLNGEV---AFLP 138
+++K + E V E IE F E +E V ++ G + V EV P
Sbjct: 10 AKEKGISIETVIEAIEEALEQAYKKTFGQDENVE-VNIDRKTGDINVYRRKEVVEEVEDP 68
Query: 139 RSQIDIRPVRDVTPLMH--EPQLFEILKMDKRRGNIVVSRRAVLEESRAEQRSEIVQ--K 194
+I + R++ P + + EI + R +++ +L++ R +R +
Sbjct: 69 SLEISLEDAREIDPDVQIGDEVKKEIPPENFGRIAAQTAKQVILQKIREAERERVYDEFS 128
Query: 195 LEEGQVIEGTVKNITDYG-VFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKIIR 253
+EG++I GTVK + G ++V+L +G+L + P + IG ++K +
Sbjct: 129 SKEGEIISGTVKRVNRRGNLYVELGKTEGILPKKEQI------PGEKFRIGDRIKAYVYE 182
Query: 254 INQET 258
+ +
Sbjct: 183 VRKTA 187
>gnl|CDD|152518 pfam12083, DUF3560, Domain of unknown function (DUF3560). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria. This domain is about 120
amino acids in length. This domain has a conserved
GHHSE sequence motif.
Length = 127
Score = 28.4 bits (64), Expect = 5.4
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 6/43 (13%)
Query: 57 REFMGKGQYTPIKVGDEVEV----YVERTENSFGEAVFSRDKA 95
E + GQ PI VG E +ER N+ G+AV ++DKA
Sbjct: 36 AEAIPLGQ--PILVGHHSERRHRRDIERIHNTMGKAVEAQDKA 76
>gnl|CDD|181221 PRK08072, PRK08072, nicotinate-nucleotide pyrophosphorylase;
Provisional.
Length = 277
Score = 28.5 bits (64), Expect = 5.6
Identities = 27/90 (30%), Positives = 38/90 (42%), Gaps = 20/90 (22%)
Query: 368 PPGTEVEGEVKNKTDFGLFIG----------LDEHLDGMIHLSDLDWNRPGEKVIAEYAK 417
P EG K G+F G LDE ++ +H D D + GE +IA
Sbjct: 30 PDNLLGEGVFLAKDT-GVFAGRLVIEEGYKLLDERIEVELHKKDGDLVKKGE-IIAT--- 84
Query: 418 GDIVKAVVLDIDVGKERISLGVKQ-LSGSA 446
V+ V + G ER+ L + Q +SG A
Sbjct: 85 ---VQGPVASLLTG-ERVILNLIQRMSGIA 110
>gnl|CDD|181450 PRK08493, PRK08493, NADH dehydrogenase subunit G; Validated.
Length = 819
Score = 28.1 bits (63), Expect = 5.8
Identities = 16/58 (27%), Positives = 19/58 (32%), Gaps = 12/58 (20%)
Query: 369 PGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEY--AKGDIVKAV 424
E+ G V LDE L G +L D EY A DI + V
Sbjct: 772 EEEELTGSVY----------LDESLKGGAYLPSFDLKLNTSSFFREYRFASVDIKEQV 819
>gnl|CDD|171440 PRK12365, PRK12365, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 1046
Score = 28.0 bits (62), Expect = 7.7
Identities = 35/169 (20%), Positives = 68/169 (40%), Gaps = 36/169 (21%)
Query: 73 EVEVYVERTENSFGEAVFSRD--KALREGVWEKI---------------------EAKFR 109
E ++YV ++ + + RD KA R+ W+ + E FR
Sbjct: 85 ESQLYVNGLQDVARDYIVYRDDRKAHRKKSWQSLSVIRRDGTVVHFNPMKISAALEKAFR 144
Query: 110 AGERIEGVIFNQVK---GGMTVDLNGEVAFL--PRSQIDIRPVRDVTPLMHEPQLFEILK 164
A ++IEG+ + V +T ++ E+ +IDI ++D+ E QL +
Sbjct: 145 ATDKIEGMTPSSVLEEINALTQNIVEEILECCSQEDRIDIEKIQDIV----EQQLMVVGH 200
Query: 165 MDKRRGNIVVSR-RAVLEESRAE---QRSEIVQKLEEGQVIEGTVKNIT 209
D + I+ RA + +++ E I ++ E +G+ +T
Sbjct: 201 YDVAKNYILYREARARVRDNKEEDGSTEKTIAEEAYEVLSKDGSTYTMT 249
>gnl|CDD|180379 PRK06065, PRK06065, acetyl-CoA acetyltransferase; Provisional.
Length = 392
Score = 27.5 bits (61), Expect = 9.3
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 121 QVKGGMTVD--LNGEVAFLPRSQIDIRPVRD 149
Q+ +TV+ L EV P +D+ PV D
Sbjct: 188 QLGSKITVEDVLKSEVLVWPVQLLDVSPVSD 218
>gnl|CDD|162797 TIGR02290, M3_fam_3, oligoendopeptidase, pepF/M3 family. The M3
family of metallopeptidases contains several distinct
clades. Oligoendopeptidase F as characterized in
Lactococcus, the functionally equivalent
oligoendopeptidase B of group B Streptococcus, and
closely related sequences are described by TIGR00181.
The present family is quite similar but forms a distinct
clade, and a number of species have one member of each.
A greater sequence difference separates members of
TIGR02289, probable oligoendopeptidases of the M3 family
that probably should not be designated PepF.
Length = 587
Score = 27.7 bits (62), Expect = 9.7
Identities = 8/49 (16%), Positives = 17/49 (34%), Gaps = 3/49 (6%)
Query: 79 ERTENSFGEA---VFSRDKALREGVWEKIEAKFRAGERIEGVIFNQVKG 124
E S +A + D +R+ ++ + + I N + G
Sbjct: 183 EEETLSLEQALNLLRDPDAEVRKKAFKALLKAWEKNAPTLAAILNALAG 231
>gnl|CDD|181700 PRK09209, PRK09209, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 761
Score = 27.4 bits (61), Expect = 9.7
Identities = 12/23 (52%), Positives = 17/23 (73%), Gaps = 1/23 (4%)
Query: 527 LSIKA-LEIAEEKGAVAQFGSSD 548
L+I+A +E+A+EKGA F SD
Sbjct: 579 LTIQASMELAKEKGAYPVFKGSD 601
>gnl|CDD|132501 TIGR03461, pabC_Proteo, aminodeoxychorismate lyase. Members of
this protein family are aminodeoxychorismate lyase (ADC
lyase), EC 4.1.3.38, the PabC protein of PABA
biosynthesis. PABA (para-aminobenzoate) is a precursor
of folate, needed for de novo purine biosynthesis. This
enzyme is a pyridoxal-phosphate-binding protein in the
class IV aminotransferase family (pfam01063).
Length = 261
Score = 27.6 bits (62), Expect = 9.8
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 6/32 (18%)
Query: 197 EGQVIEGTVKNI---TDYGVF---VDLSGVDG 222
+G V+E T NI VF + GV G
Sbjct: 166 DGNVVECTAANIFWRKGNQVFTPDLSYCGVAG 197
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.315 0.136 0.381
Gapped
Lambda K H
0.267 0.0836 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 9,410,846
Number of extensions: 637684
Number of successful extensions: 1249
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1021
Number of HSP's successfully gapped: 117
Length of query: 576
Length of database: 5,994,473
Length adjustment: 99
Effective length of query: 477
Effective length of database: 3,855,281
Effective search space: 1838969037
Effective search space used: 1838969037
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 60 (26.7 bits)