RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 011002
(496 letters)
>gnl|CDD|188051 TIGR00446, nop2p, NOL1/NOP2/sun family putative RNA methylase.
[Protein synthesis, tRNA and rRNA base modification].
Length = 264
Score = 331 bits (851), Expect = e-112
Identities = 139/278 (50%), Positives = 174/278 (62%), Gaps = 15/278 (5%)
Query: 106 LRTNTLKTRRRDLADVLINRGVNLDPLSKWSKVGLVVYDSQVPIGATPEYMAGFYMLQSA 165
+R NTLK DL + L NRGV L+P + V +S IG+TPEY+ G+Y Q A
Sbjct: 1 IRVNTLKINVEDLLERLENRGVVLEPTCEEYFFE--VKESPFSIGSTPEYLFGYYYPQEA 58
Query: 166 SSFLPVMALAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHR 225
SS +P +AL P+E ERV+DMAAAPGGKTT I+ LMKN G I ANE+ SR K+L +N++R
Sbjct: 59 SSMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINR 118
Query: 226 MGVTNTIVCNYDGNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSY 285
MGV NTIV N DG + L D +LLDAPCSG GVI KD S K + S EDI+ CS
Sbjct: 119 MGVLNTIVINADGRKFGAY--LLKFDAILLDAPCSGEGVIRKDPSRKRNWSEEDIKYCSL 176
Query: 286 LQKQLILAAIDMVDANSKSGGYIVYSTCSIMVTENEAVIDYALKKR-DVKLVPCGLDFGR 344
LQK+LI AAID + K GG +VYSTCS+ V ENE VIDY L+KR DV G
Sbjct: 177 LQKELIDAAIDAL----KPGGVLVYSTCSLEVEENEEVIDYILRKRPDVVEEI---IKGD 229
Query: 345 QGFVRFREHRFHPSLEKTRRFYPHVHNMDGFFVAKLKK 382
+ F ++ R +P ++ +GFFVAKL+K
Sbjct: 230 EFFGINIG---KGEVKGALRVFPQNYDCEGFFVAKLRK 264
>gnl|CDD|223222 COG0144, Sun, tRNA and rRNA cytosine-C5-methylases [Translation,
ribosomal structure and biogenesis].
Length = 355
Score = 328 bits (843), Expect = e-109
Identities = 130/321 (40%), Positives = 181/321 (56%), Gaps = 15/321 (4%)
Query: 65 KLDLGSYYGYNEFLIGALVEMFPPVELMELIESFEKPRPICLRTNTLKTRRRDLADVLIN 124
L Y + E+L+ L + E + + +P P LR NTLK +L + L
Sbjct: 45 ILRPAFRYSHPEWLVEKLPDALGEDEAEAIAAALLRPPPRSLRVNTLKADVEELLEALEE 104
Query: 125 RGVNLDPLSKWSKVGLVVYDSQVPIGATPEYMAGFYMLQSASSFLPVMALAPQEKERVID 184
GV + W ++ ++ PIG PE+ G +Q +S LP + L P+ ERV+D
Sbjct: 105 AGVLDEK--PWVLDEVLRIEASGPIGRLPEFAEGLIYVQDEASQLPALVLDPKPGERVLD 162
Query: 185 MAAAPGGKTTYIAALMKNTGLI-YANEMKASRLKSLTANLHRMGVTNTIVCNYDGNELPK 243
+ AAPGGKTT++A LM+N G I A ++ RLK L NL R+GV N IV N D L +
Sbjct: 163 LCAAPGGKTTHLAELMENEGAIVVAVDVSPKRLKRLRENLKRLGVRNVIVVNKDARRLAE 222
Query: 244 VL-GLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAIDMVDANS 302
+L G DR+LLDAPCSGTGVI +D VK ++ EDI + + LQK+++ AA+ ++
Sbjct: 223 LLPGGEKFDRILLDAPCSGTGVIRRDPDVKWRRTPEDIAELAKLQKEILAAALKLL---- 278
Query: 303 KSGGYIVYSTCSIMVTENEAVIDYALKKR-DVKLVPCGLDFGRQGFVRFREHRFHPSLEK 361
K GG +VYSTCS+ ENE V++ L++ D +L P L +G E L K
Sbjct: 279 KPGGVLVYSTCSLTPEENEEVVERFLERHPDFELEPVRLPWG-----PLFEGLG-SELGK 332
Query: 362 TRRFYPHVHNMDGFFVAKLKK 382
TRR YPHVH DGFF+AKL+K
Sbjct: 333 TRRLYPHVHGTDGFFIAKLRK 353
>gnl|CDD|201649 pfam01189, Nol1_Nop2_Fmu, NOL1/NOP2/sun family.
Length = 277
Score = 305 bits (784), Expect = e-101
Identities = 129/290 (44%), Positives = 168/290 (57%), Gaps = 15/290 (5%)
Query: 94 LIESFEKPRPICLRTNTLKTRRRDLADVLINRGVNLDPLSKWSKVGLVVYDSQVPIGATP 153
++E+ P LR N LKT+R L L GV L+PL ++ L V D IG+ P
Sbjct: 1 ILEANNCSPPGTLRKNVLKTKRWSLLQALELAGVQLEPLGRYPH-ALPVGDLPYSIGSLP 59
Query: 154 EYMAGFYMLQSASSFLPVMALAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKA 213
+ G +Q ASS L +AL PQE E ++DM AAPGGKTT+IA LMKN G + A +
Sbjct: 60 PFENGAVTVQDASSQLDAIALNPQEDEFILDMCAAPGGKTTHIAELMKNEGTVVAVDRNK 119
Query: 214 SRLKSLTANLHRMGVTNTIVCN-YDGNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVK 272
RLK + AN+ R+GV N IV K+LG DR+LLDAPCSGTGVI +D +K
Sbjct: 120 QRLKRVYANIQRLGVFNIIVQEGDARQIDQKLLG-GEFDRILLDAPCSGTGVIRRDPDIK 178
Query: 273 TSKSLEDIQKCSYLQKQLILAAIDMVDANSKSGGYIVYSTCSIMVTENEAVIDYALKKR- 331
+ DI + + LQK+L+ AA D+V K GG +VYSTCS++ ENEAVI Y L+KR
Sbjct: 179 WLRREADIAQLAELQKELLKAAWDLV----KPGGVLVYSTCSVLPEENEAVIKYFLQKRP 234
Query: 332 DVKLVPCGLDFGRQGFVRFREHRFHPSLEKTRRFYPHVHNMDGFFVAKLK 381
DV+LVP GL G+ ++ + PH N DGFF AKL+
Sbjct: 235 DVELVPTGLSEGKIALA-------KRIVKGGLQSLPHELNRDGFFFAKLR 277
Score = 30.8 bits (70), Expect = 1.3
Identities = 29/179 (16%), Positives = 57/179 (31%), Gaps = 38/179 (21%)
Query: 253 VLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAI--DMVDANSKSG--GYI 308
+L CS G + K+ +KT + L + L LA + + + + G +
Sbjct: 1 ILEANNCSPPGTLRKN-VLKTKR--WS------LLQALELAGVQLEPLGRYPHALPVGDL 51
Query: 309 VYSTCSIMVTENEAVIDYALKKRDVK--LVPCGLDFG-------------------RQGF 347
YS S+ EN AV + L P +F +G
Sbjct: 52 PYSIGSLPPFENGAVTVQDASSQLDAIALNPQEDEFILDMCAAPGGKTTHIAELMKNEGT 111
Query: 348 VRFREHRFHPSLEKTRRFYPHVHNMDGFFVAKLKKMSNSKKTSAGPQPSETVEQQTPES 406
V + + ++ +R Y ++ + F + + + + + P S
Sbjct: 112 VVAVD----RNKQRLKRVYANIQRLGVFNIIVQEGDARQIDQKLLGGEFDRILLDAPCS 166
>gnl|CDD|237857 PRK14902, PRK14902, 16S rRNA methyltransferase B; Provisional.
Length = 444
Score = 213 bits (545), Expect = 6e-64
Identities = 101/312 (32%), Positives = 163/312 (52%), Gaps = 17/312 (5%)
Query: 72 YGYNEFLIGALVEMFPPVELMELIESFEKPRPICLRTNTLKTRRRDLADVLINRGVNLDP 131
Y + +L+ ++ + + +++ES +P +R NTLK +L + L G ++
Sbjct: 147 YSHPVWLVKRWIDQYGEEKAEKILESLNEPPKASIRVNTLKISVEELIEKLEEEGYEVEE 206
Query: 132 LSKWSKVGLVVYDSQVPIGATPEYMAGFYMLQSASSFLPVMALAPQEKERVIDMAAAPGG 191
S S LV+ + I T + G +Q SS L AL P+ + V+D AAPGG
Sbjct: 207 -SLLSPEALVI--EKGNIAGTDLFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPGG 263
Query: 192 KTTYIAALMKNTGLIYANEMKASRLKSLTANLHRMGVTNTIVCNYDGNELPKVLGLNTVD 251
KTT+IA L+KNTG + A ++ +LK + N R+G+TN D ++ + D
Sbjct: 264 KTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFA-EKFD 322
Query: 252 RVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAIDMVDANSKSGGYIVYS 311
++L+DAPCSG GVI + +K +K+ EDI+ +Q + IL + V K GG +VYS
Sbjct: 323 KILVDAPCSGLGVIRRKPDIKYNKTKEDIESLQEIQLE-IL---ESVAQYLKKGGILVYS 378
Query: 312 TCSIMVTENEAVIDYALKKR-DVKLVPCGLDFGRQGFVRFREHRFHPSLEKTRRFYPHVH 370
TC+I ENE VI+ L++ + +LVP L + + + + + P+ +
Sbjct: 379 TCTIEKEENEEVIEAFLEEHPEFELVP--LQHEKP------DELVYEVKDGYLQILPNDY 430
Query: 371 NMDGFFVAKLKK 382
DGFF+AKL+K
Sbjct: 431 GTDGFFIAKLRK 442
>gnl|CDD|183387 PRK11933, yebU, rRNA (cytosine-C(5)-)-methyltransferase RsmF;
Reviewed.
Length = 470
Score = 207 bits (530), Expect = 2e-61
Identities = 116/336 (34%), Positives = 171/336 (50%), Gaps = 48/336 (14%)
Query: 84 EMFPPVELMELIESFEKPRPICLRTNTLKTRRRDLADVLINRGVNLDPLSKWSKVGLVV- 142
M + + + I + ++P +R NTLK D ++ G L P+ W + G +
Sbjct: 15 AMPSHLSMDDFIAACQRPLRRSIRVNTLKISVADFLQLMAPYGWTLTPIP-WCEEGFWIE 73
Query: 143 --YDSQVPIGATPEYMAGFYMLQSASSFLPVMAL--APQEKERVIDMAAAPGGKTTYIAA 198
+ +P+G T E+++G + +Q ASS LPV AL +RV+DMAAAPG KTT IAA
Sbjct: 74 RDDEDALPLGNTAEHLSGLFYIQEASSMLPVAALFADDNAPQRVLDMAAAPGSKTTQIAA 133
Query: 199 LMKNTGLIYANEMKASRLKSLTANLHRMGVTNTIVCNYD----GNELPKVLGLNTVDRVL 254
LM N G I ANE ASR+K L AN+ R GV+N + ++D G LP+ T D +L
Sbjct: 134 LMNNQGAIVANEYSASRVKVLHANISRCGVSNVALTHFDGRVFGAALPE-----TFDAIL 188
Query: 255 LDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAIDMVDANSKSGGYIVYSTCS 314
LDAPCSG G + KD + S E + + Q++LI +A + K GG +VYSTC+
Sbjct: 189 LDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHAL----KPGGTLVYSTCT 244
Query: 315 IMVTENEAVIDYALKKR---DVKLVPCGLDFGRQGFVRFREHRFHPSLEKTR------RF 365
+ EN+AV + LK+ V+ P G F P EK
Sbjct: 245 LNREENQAVCLW-LKETYPDAVEFEPLGDLF--------------PGAEKALTEEGFLHV 289
Query: 366 YPHVHNMDGFFVAKLKKMSNSKKTSAGPQPSETVEQ 401
+P +++ +GFFVA+L+K + S P+ +
Sbjct: 290 FPQIYDSEGFFVARLRKTA-----SVPRLPAPKYKV 320
>gnl|CDD|237856 PRK14901, PRK14901, 16S rRNA methyltransferase B; Provisional.
Length = 434
Score = 193 bits (492), Expect = 3e-56
Identities = 99/318 (31%), Positives = 157/318 (49%), Gaps = 31/318 (9%)
Query: 68 LGSYYGYNEFLIGALVEMFPPVELMELIESFEKPRPICLRTNTLKTRRRDLADVLINRGV 127
L + + ++L+ +E E +L + F +P + LR N L+T ++ L G+
Sbjct: 143 LAILHSFPDWLVKLWLEWLGLEEAEQLCKWFNQPPSLDLRINPLRTSLEEVQAALAEAGI 202
Query: 128 NLDPLSKWSKVGLVVYDSQVPIGATPEYMAGFYMLQSASSFLPVMALAPQEKERVIDMAA 187
P+ + GL + + I P Y G++ +Q S+ L L PQ E ++D A
Sbjct: 203 TATPIPGLPQ-GLRLTGNPGSIRQLPGYEEGWWTVQDRSAQLVAPLLDPQPGEVILDACA 261
Query: 188 APGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHRMGVTNTIVCNYDGNELPKVLG- 246
APGGKTT+IA LM + G I+A + ASRLK L N R+G+ + + D L ++
Sbjct: 262 APGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLLELKPQ 321
Query: 247 -LNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAIDMVDANSKSG 305
DR+LLDAPCSG G + + + ++ E IQ+ + LQ +L+ + ++ K G
Sbjct: 322 WRGYFDRILLDAPCSGLGTLHRHPDARWRQTPEKIQELAPLQAELLESLAPLL----KPG 377
Query: 306 GYIVYSTCSIMVTENEAVIDYAL-KKRDVKLVPCGLDFGRQGFVRFREHRFHPSLEKTRR 364
G +VY+TC++ ENEA I+ L + D KL P K +
Sbjct: 378 GTLVYATCTLHPAENEAQIEQFLARHPDWKLEP----------------------PKQKI 415
Query: 365 FYPHVHNMDGFFVAKLKK 382
+PH + DGFF+A L+K
Sbjct: 416 -WPHRQDGDGFFMAVLRK 432
>gnl|CDD|233025 TIGR00563, rsmB, ribosomal RNA small subunit methyltransferase
RsmB. This protein is also known as sun protein. The
reading frame was originally interpreted as two reading
frames, fmu and fmv. The recombinant protein from E.
coli was shown to methylate only C967 of small subunit
(16S) ribosomal RNA and to produce only m5C at that
position. The seed alignment is built from bacterial
sequences only. Eukaryotic homologs include Nop2, a
protein required for processing pre-rRNA, that is likely
also a rRNA methyltransferase, although the fine
specificity may differ. Cutoff scores are set to avoid
treating archaeal and eukaroytic homologs automatically
as functionally equivalent, although they may have very
similar roles [Protein synthesis, tRNA and rRNA base
modification].
Length = 426
Score = 160 bits (407), Expect = 3e-44
Identities = 95/326 (29%), Positives = 149/326 (45%), Gaps = 24/326 (7%)
Query: 59 EYVQQLKLDLGSYYGYNEFLIGALVEMFPPVELMELIESFEKPRPICLRTNTLKTRRRDL 118
E + L + Y + E+L+ L + +P + E+ + P+ LR N K R +
Sbjct: 122 EELLAEFNALDARYLHPEWLVKRLQKAYPGQW-QSICEANNQRPPMWLRINRTKHSRDEW 180
Query: 119 ADVLINRGVNLDPLSKWSKVGLVVYDSQVPIGATPEYMAGFYMLQSASSFLPVMALAPQE 178
+L G+ P V ++ + A P + G+ +Q AS+ LAPQ
Sbjct: 181 LALLAEAGMKGFPHDLAPDA--VRLETPAAVHALPGFEEGWVTVQDASAQWVATWLAPQN 238
Query: 179 KERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHRMGVTNTI-VCNYD 237
+E ++D AAPGGKTT+I L + A ++ RLK + NL R+G+T + D
Sbjct: 239 EETILDACAAPGGKTTHILELAPQ-AQVVALDIHEHRLKRVYENLKRLGLTIKAETKDGD 297
Query: 238 GNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAIDM 297
G + DR+LLDAPCS TGVI + +K + DI + + LQ +++ A +
Sbjct: 298 GRGPSQWAENEQFDRILLDAPCSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPL 357
Query: 298 VDANSKSGGYIVYSTCSIMVTENEAVIDYALKKRDVKLVPCGLDFGRQGFVRFREHRFHP 357
+ K+GG +VY+TCS++ EN I L++ DF F +
Sbjct: 358 L----KTGGTLVYATCSVLPEENSEQIKAFLQEH--------PDF------PFEKTGTPE 399
Query: 358 SLEKTR-RFYPHVHNMDGFFVAKLKK 382
+ + PH DGFF AKL K
Sbjct: 400 QVRDGGLQILPHAEEGDGFFYAKLIK 425
>gnl|CDD|236790 PRK10901, PRK10901, 16S rRNA methyltransferase B; Provisional.
Length = 427
Score = 140 bits (355), Expect = 9e-37
Identities = 102/344 (29%), Positives = 162/344 (47%), Gaps = 39/344 (11%)
Query: 43 VLSNFKDLSQKGTSRKEYVQQLKLDLGSYYGYNEFLIGALVEMFPPVELMELIESFEKPR 102
VL F + ++E + +L+ D + Y + +LI L + +P + ++ + +
Sbjct: 118 VLRRF--QRE----QEELLAELQADPVARYNHPSWLIKRLKKAYP-EQWQAILAANNQRP 170
Query: 103 PICLRTNTLKTRRRDLADVLINRGVNLDPLSKWSKVGLVVYDSQVPIGATPEYMAGFYML 162
P+ LR N R +L G+ P + + ++ VP+ P + G+ +
Sbjct: 171 PMWLRVNRRHHSRDAYLALLAEAGIEAFP-HAVGPDAIRL-ETPVPVHQLPGFAEGWVSV 228
Query: 163 QSASSFLPVMALAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTAN 222
Q A++ L LAPQ ERV+D AAPGGKT +I L ++ A ++ A RL+ + N
Sbjct: 229 QDAAAQLAATLLAPQNGERVLDACAAPGGKTAHILELAPQAQVV-ALDIDAQRLERVREN 287
Query: 223 LHRMGVTNTIVCNYDGNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQK 282
L R+G+ T++ D + + DR+LLDAPCS TGVI + +K + EDI
Sbjct: 288 LQRLGLKATVIVG-DARDPAQWWDGQPFDRILLDAPCSATGVIRRHPDIKWLRRPEDIAA 346
Query: 283 CSYLQKQLILAAI-DMVDANSKSGGYIVYSTCSIMVTENEAVIDYALKKR-DVKLVPCGL 340
+ LQ + IL A+ ++ K GG ++Y+TCSI+ ENE I L + D +L+ G
Sbjct: 347 LAALQSE-ILDALWPLL----KPGGTLLYATCSILPEENEQQIKAFLARHPDAELLDTGT 401
Query: 341 --DFGRQGFVRFREHRFHPSLEKTRRFYPHVHNMDGFFVAKLKK 382
GRQ P + DGFF A L K
Sbjct: 402 PQQPGRQ-------------------LLPGEEDGDGFFYALLIK 426
>gnl|CDD|184896 PRK14903, PRK14903, 16S rRNA methyltransferase B; Provisional.
Length = 431
Score = 132 bits (334), Expect = 5e-34
Identities = 80/292 (27%), Positives = 144/292 (49%), Gaps = 8/292 (2%)
Query: 46 NFKDLSQKGTSRKEYVQQLKLDLGSYYGYNEFLIGALVEMFPPVELMELIESFEKPRPIC 105
NFK L R V + K +L Y + ++L+ P ++ ++E ++P P
Sbjct: 107 NFKKLVNAVLRRLRTVPEPK-ELHLKYSHPKWLVNYWRSFLPEEAVLRIMEWNQEPLPTM 165
Query: 106 LRTNTLKTRRRDLADVLINRGVNLDPLSKWSKVGLVVYDSQVPIGATPEYMAGFYMLQSA 165
LR N+L R ++ +L G P K S L+V V + + G +Q
Sbjct: 166 LRVNSLAITREEVIKILAEEGTEAVP-GKHSPFSLIVRKLGVNMNDSRVIKDGLATVQGE 224
Query: 166 SSFLPVMALAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHR 225
SS + + + + RV+D AAPGGKTT IA LMK+ G I A ++ +++ + + R
Sbjct: 225 SSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKR 284
Query: 226 MGVTNTIVCNYDGNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSY 285
+ +++ + D L + + +T DR+L+DAPC+ G V + ED +K S
Sbjct: 285 LKLSSIEIKIADAERLTEYVQ-DTFDRILVDAPCTSLGTARNHPEVLRRVNKEDFKKLSE 343
Query: 286 LQKQLILAAIDMVDANSKSGGYIVYSTCSIMVTEN-EAVIDYALKKRDVKLV 336
+Q +++ A ++ + GG ++YSTC++ EN E V + +++D +++
Sbjct: 344 IQLRIVSQAWKLL----EKGGILLYSTCTVTKEENTEVVKRFVYEQKDAEVI 391
>gnl|CDD|237858 PRK14904, PRK14904, 16S rRNA methyltransferase B; Provisional.
Length = 445
Score = 113 bits (284), Expect = 4e-27
Identities = 55/168 (32%), Positives = 93/168 (55%), Gaps = 7/168 (4%)
Query: 163 QSASSFLPVMALAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTAN 222
Q+ + L + L PQ V+D+ AAPGGK+T++A LM+N G I A + +L+ + ++
Sbjct: 235 QNPTQALACLLLNPQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSH 294
Query: 223 LHRMGVTNTIVCNYDGNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQK 282
+G+ TI+ +G+ D +LLDAPC+GTGV+ + ++ + E + +
Sbjct: 295 ASALGI--TIIETIEGDARSFSPEE-QPDAILLDAPCTGTGVLGRRAELRWKLTPEKLAE 351
Query: 283 CSYLQKQLILAAIDMVDANSKSGGYIVYSTCSIMVTENEAVIDYALKK 330
LQ +L+ A ++ GG +VY+TCSI ENE I+ L++
Sbjct: 352 LVGLQAELLDHAASLLKP----GGVLVYATCSIEPEENELQIEAFLQR 395
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 38.4 bits (89), Expect = 0.007
Identities = 22/125 (17%), Positives = 55/125 (44%), Gaps = 11/125 (8%)
Query: 378 AKLKKMSNSKKTSAGPQPSETVEQQTPESNVSNG--------DKKTEENSEQVLMK---K 426
K ++ ++ + +A Q E ++Q N+ DK+ EN ++ + K +
Sbjct: 230 DKAQQKADFAQDNADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAENQKREIEKAQIE 289
Query: 427 ATTKAKDLKKKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKK 486
++ K A + ES ++EK + ++ ++++ V E+ +KT + +
Sbjct: 290 IKKNDEEALKAKDHKAFDLKQESKASEKEAEDKELEAQKKREPVAEDLQKTKPQVEAQPT 349
Query: 487 AGSKD 491
+ ++D
Sbjct: 350 SLNED 354
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 35.5 bits (82), Expect = 0.014
Identities = 28/135 (20%), Positives = 42/135 (31%), Gaps = 21/135 (15%)
Query: 181 RVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHRMGVT-NTIVCNYDGN 239
RV+D A G A + + E+ L G+ V D
Sbjct: 3 RVLDPGAGSGAFLLAAARAGPD-ARVVGVELDPEAAALARRRLALAGLAPRVRVVVGDAR 61
Query: 240 ELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAIDMVD 299
EL L + D VL + P K D L + + AA+ ++
Sbjct: 62 ELL-ELPDGSFDLVLGNPPYGPR--------AGDPKDNRD------LYDRFLAAALRLL- 105
Query: 300 ANSKSGGYIVYSTCS 314
K GG +V T +
Sbjct: 106 ---KPGGVLVVITPA 117
>gnl|CDD|216666 pfam01728, FtsJ, FtsJ-like methyltransferase. This family consists
of FtsJ from various bacterial and archaeal sources FtsJ
is a methyltransferase, but actually has no effect on
cell division. FtsJ's substrate is the 23S rRNA. The 1.5
A crystal structure of FtsJ in complex with its cofactor
S-adenosylmethionine revealed that FtsJ has a
methyltransferase fold. This family also includes the N
terminus of flaviviral NS5 protein. It has been
hypothesised that the N-terminal domain of NS5 is a
methyltransferase involved in viral RNA capping.
Length = 177
Score = 35.3 bits (82), Expect = 0.029
Identities = 32/140 (22%), Positives = 57/140 (40%), Gaps = 30/140 (21%)
Query: 174 LAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYA---NEMKASRL-KSLTANLHRMGVT 229
L P + + V+D+ AAPGG + + G + A M+ + L + +T
Sbjct: 18 LKPGKGKTVLDLGAAPGGFSQVLLERGGA-GKVVAVDLGPMEPIQGVYFLRGD-----IT 71
Query: 230 NTIVCNYDGNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQ 289
+ +L ++L VD VL D + +G+ + D S++ Q
Sbjct: 72 DPET----LEKLRELLP-GKVDLVLSDGAPNVSGIENTD---------------SFISLQ 111
Query: 290 LILAAIDMVDANSKSGGYIV 309
L+LAA+ + + GG V
Sbjct: 112 LVLAALLLALEVLRPGGNFV 131
>gnl|CDD|223370 COG0293, FtsJ, 23S rRNA methylase [Translation, ribosomal structure
and biogenesis].
Length = 205
Score = 35.3 bits (82), Expect = 0.045
Identities = 36/160 (22%), Positives = 54/160 (33%), Gaps = 33/160 (20%)
Query: 181 RVIDMAAAPGGKTTYIAALMKNTGLIYA---NEMKA-SRLKSLTANLHRMGVTNTIVCNY 236
V+D+ AAPGG + A + G I A MK + L ++ ++
Sbjct: 48 VVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMKPIPGVIFLQGDITDEDTLEKLLEA- 106
Query: 237 DGNELPKVLGLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLILAAID 296
LG VD VL D + +G S D L A++
Sbjct: 107 --------LGGAPVDVVLSDMAPNTSGNRSVDH---------------ARSMYLCELALE 143
Query: 297 MVDANSKSGGYIVYSTCSIMVTENEAVIDYALKK--RDVK 334
K GG V + E+ + AL++ R VK
Sbjct: 144 FALEVLKPGGSFV---AKVFQGEDFEDLLKALRRLFRKVK 180
>gnl|CDD|215521 PLN02967, PLN02967, kinase.
Length = 581
Score = 36.2 bits (83), Expect = 0.045
Identities = 24/121 (19%), Positives = 45/121 (37%), Gaps = 6/121 (4%)
Query: 382 KMSNSKKTSAGPQPSETVEQQTPESNVSNG--DKKTEENSEQVLMKKATTKAKDLKKKTS 439
++ N +AG + E NG KK S + KK + + ++ S
Sbjct: 37 RLQNKFLLAAGSRKKIESALAVDEEPDENGAVSKKKPTRSVKRATKKTVVEISEPLEEGS 96
Query: 440 GLAENGNVESPSNEKRRKKRK----FPSREEISKVREEKRKTLREKVSSKKAGSKDKGNE 495
L N + K+ +R + ++ + + EK+ R KV +D+G+E
Sbjct: 97 ELVVNEDAALDKESKKTPRRTRRKAAAASSDVEEEKTEKKVRKRRKVKKMDEDVEDQGSE 156
Query: 496 K 496
Sbjct: 157 S 157
>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein. This protein is found to be part
of a large ribonucleoprotein complex containing the U3
snoRNA. Depletion of the Utp proteins impedes production
of the 18S rRNA, indicating that they are part of the
active pre-rRNA processing complex. This large RNP
complex has been termed the small subunit (SSU)
processome.
Length = 728
Score = 35.0 bits (81), Expect = 0.11
Identities = 24/123 (19%), Positives = 51/123 (41%), Gaps = 2/123 (1%)
Query: 374 GFFVAKLKKMSNSKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKD 433
G + + S K + E E E + K E+ + ++L K + KA+
Sbjct: 426 GPENGEKEAESKKLKKENKNEFKEKKESDEEEELEDEEEAKVEKVANKLL--KRSEKAQK 483
Query: 434 LKKKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDKG 493
+++ EN +++ S+ + K++ ++ SK+ + K + V KK K+K
Sbjct: 484 EEEEEELDEENPWLKTTSSVGKSAKKQDSKKKSSSKLDKAANKISKAAVKVKKKKKKEKS 543
Query: 494 NEK 496
+
Sbjct: 544 IDL 546
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 34.5 bits (79), Expect = 0.12
Identities = 25/111 (22%), Positives = 40/111 (36%), Gaps = 1/111 (0%)
Query: 386 SKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLKKKTSGLAENG 445
K S GP ++ + +K+ E+ E+ KK K + +K A+
Sbjct: 81 EKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEK 140
Query: 446 NVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDKGNEK 496
+++ KK + P E K RE R R K K +K E
Sbjct: 141 RPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPK-KPPKKKPPNKKKEP 190
Score = 33.3 bits (76), Expect = 0.29
Identities = 16/93 (17%), Positives = 37/93 (39%), Gaps = 2/93 (2%)
Query: 395 PSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLKKKTSGLAENGNVESPSNEK 454
+ ++ P+ ++ +E +K K + + + V + S K
Sbjct: 119 KKKEKPKEEPKDRKPK--EEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPK 176
Query: 455 RRKKRKFPSREEISKVREEKRKTLREKVSSKKA 487
+ K+K P++++ E++R+ RE V K
Sbjct: 177 KPPKKKPPNKKKEPPEEEKQRQAAREAVKGKPE 209
Score = 29.5 bits (66), Expect = 5.0
Identities = 17/77 (22%), Positives = 31/77 (40%), Gaps = 2/77 (2%)
Query: 420 EQVLMKKATTKAKDLKKKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLR 479
++V + A K E+G E E+ ++++K ++E K + RK
Sbjct: 78 KRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKK--KKKEKPKEEPKDRKPKE 135
Query: 480 EKVSSKKAGSKDKGNEK 496
E + K+K EK
Sbjct: 136 EAKEKRPPKEKEKEKEK 152
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional.
Length = 2084
Score = 34.7 bits (79), Expect = 0.12
Identities = 31/121 (25%), Positives = 52/121 (42%), Gaps = 8/121 (6%)
Query: 377 VAKLKKMSNSKKTSAGPQPSETVEQQTPESN--VSNGDKKTEENSEQVLMKKATTKAKDL 434
AK + + + + A + +E E++ E+ KK EE + KK KA++
Sbjct: 1347 AAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKK---KAEED 1403
Query: 435 KKKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDKGN 494
KKK L + + ++E ++K + +E K EE +K K KKA K
Sbjct: 1404 KKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAK---KKAEEAKKAE 1460
Query: 495 E 495
E
Sbjct: 1461 E 1461
Score = 33.2 bits (75), Expect = 0.43
Identities = 29/120 (24%), Positives = 50/120 (41%), Gaps = 9/120 (7%)
Query: 378 AKLKKMSNSKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKA--TTKAKDLK 435
A+ K + KK + ++ +++ E ++ KK E + KKA KA K
Sbjct: 1362 AEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDK----KKADELKKAAAAK 1417
Query: 436 KKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDKGNE 495
KK + + ++E ++K + +E K EE +K K KKA K +E
Sbjct: 1418 KKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAK---KKAEEAKKADE 1474
Score = 32.8 bits (74), Expect = 0.58
Identities = 29/120 (24%), Positives = 50/120 (41%), Gaps = 7/120 (5%)
Query: 381 KKMSNSKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQV--LMKKA--TTKAKDLKK 436
KK KK +A + ++ +++ E ++ KK E +++ KKA KA++ KK
Sbjct: 1405 KKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKK 1464
Query: 437 KTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDKGNEK 496
K + + + E ++ EE K +E +K K KKA K E
Sbjct: 1465 KAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAK---KKADEAKKAEEA 1521
Score = 31.3 bits (70), Expect = 1.5
Identities = 24/114 (21%), Positives = 47/114 (41%), Gaps = 5/114 (4%)
Query: 387 KKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLKKKTSGLAENGN 446
KK + ++ +++ E+ + K E + + A KA+ +KK + +
Sbjct: 1322 KKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKAD 1381
Query: 447 VESPSNEKRRKKRKFPSR-EEISKVREEKRKTLREKVSS----KKAGSKDKGNE 495
E+++K + + EE K +E +K K + KKA K K +E
Sbjct: 1382 AAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADE 1435
Score = 30.5 bits (68), Expect = 2.8
Identities = 25/121 (20%), Positives = 47/121 (38%), Gaps = 6/121 (4%)
Query: 381 KKMSNSKKTSAGPQPSETVEQQTPESN--VSNGDKKTEENSEQVLMKKATTKAKDLKKKT 438
KK +KK + + ++ +++ E+ KK EE + KA +A + +
Sbjct: 1302 KKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEA 1361
Query: 439 SGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSS----KKAGSKDKGN 494
+ + K++ EE K E K+K +K + K A +K K +
Sbjct: 1362 AEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKAD 1421
Query: 495 E 495
E
Sbjct: 1422 E 1422
Score = 29.7 bits (66), Expect = 4.9
Identities = 27/121 (22%), Positives = 45/121 (37%), Gaps = 6/121 (4%)
Query: 381 KKMSNSKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKK--ATTKAKDLKKKT 438
KK +++ K A + ++ + EE +E KK A KA KKK
Sbjct: 1328 KKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKA 1387
Query: 439 SGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSS----KKAGSKDKGN 494
+ + + E ++K + K +E +K EK + KKA K +
Sbjct: 1388 EEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKAD 1447
Query: 495 E 495
E
Sbjct: 1448 E 1448
Score = 29.3 bits (65), Expect = 5.5
Identities = 22/116 (18%), Positives = 46/116 (39%)
Query: 381 KKMSNSKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLKKKTSG 440
KK +KK + +E +++ E+ + KK + +++ K +AK ++
Sbjct: 1477 KKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKA 1536
Query: 441 LAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDKGNEK 496
E ++ +K + EE K E K+ + ++ +KA K E
Sbjct: 1537 DEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEA 1592
>gnl|CDD|233880 TIGR02469, CbiT, precorrin-6Y C5,15-methyltransferase
(decarboxylating), CbiT subunit. This model recognizes
the CbiT methylase which is responsible, in part (along
with CbiE), for methylating precorrin-6y (or
cobalt-precorrin-6y) at both the 5 and 15 positions as
well as the concomitant decarbozylation at C-12. In many
organisms, this protein is fused to the CbiE subunit.
The fused protein, when found in organisms catalyzing
the oxidative version of the cobalamin biosynthesis
pathway, is called CobL [Biosynthesis of cofactors,
prosthetic groups, and carriers, Heme, porphyrin, and
cobalamin].
Length = 124
Score = 32.7 bits (75), Expect = 0.14
Identities = 26/80 (32%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 174 LAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHRMGVTNTIV 233
L + + + D+ A G T A L+ N G +YA E L + NL R GV+N ++
Sbjct: 15 LRLRPGDVLWDIGAGTGSVTIEAARLVPN-GRVYAIERNPEALDLIERNLRRFGVSNIVI 73
Query: 234 CNYDGNELPKVLGLNTVDRV 253
D E P+ L L D V
Sbjct: 74 VEGDAPEAPEDL-LPDPDAV 92
>gnl|CDD|202251 pfam02475, Met_10, Met-10+ like-protein. The methionine-10 mutant
allele of N. crassa codes for a protein of unknown
function. However, homologous proteins have been found
in yeast suggesting this protein may be involved in
methionine biosynthesis, transport and/or utilisation.
Length = 199
Score = 33.5 bits (77), Expect = 0.16
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 5/83 (6%)
Query: 177 QEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHRMGVTNTIV-CN 235
+E E V+DM A G + IA K +YA E+ +K L N+ V I
Sbjct: 99 KEGEVVVDMFAGIGPFSIPIAKHSK-AKRVYAVELNPEAVKYLKENIKLNKVEGVISPIL 157
Query: 236 YDGNELPKVLGLNTVDRVLLDAP 258
D + V+ DRV+++ P
Sbjct: 158 GDVRD---VILEGVADRVIMNLP 177
>gnl|CDD|225151 COG2242, CobL, Precorrin-6B methylase 2 [Coenzyme metabolism].
Length = 187
Score = 33.0 bits (76), Expect = 0.18
Identities = 37/163 (22%), Positives = 61/163 (37%), Gaps = 38/163 (23%)
Query: 173 ALAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRLKSLTANLHRMGVTNTI 232
L P+ +R+ D+ A G T AL +G + A E L+ + N R GV N
Sbjct: 29 KLRPRPGDRLWDIGAG-TGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLE 87
Query: 233 VCNYDGNELPKVL-GLNTVDRVLLDAPCSGTGVISKDESVKTSKSLEDIQKCSYLQKQLI 291
V D P+ L L + D + I ++E+I +
Sbjct: 88 VVEGDA---PEALPDLPSPDAI----------FIGG------GGNIEEI----------L 118
Query: 292 LAAIDMVDANSKSGGYIVYSTCSIMVTENEAVIDYALKKRDVK 334
AA + + K GG +V + ++ E A AL++ +
Sbjct: 119 EAAWERL----KPGGRLVANAITL---ETLAKALEALEQLGGR 154
>gnl|CDD|217219 pfam02769, AIRS_C, AIR synthase related protein, C-terminal domain.
This family includes Hydrogen expression/formation
protein HypE, AIR synthases EC:6.3.3.1, FGAM synthase
EC:6.3.5.3 and selenide, water dikinase EC:2.7.9.3. The
function of the C-terminal domain of AIR synthase is
unclear, but the cleft formed between N and C domains is
postulated as a sulphate binding site.
Length = 150
Score = 32.3 bits (74), Expect = 0.23
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 136 SKVGLVVYDSQVPIGATPEYMAGFYMLQSASSFLPVMALAPQEKERVIDMAAAPG 190
S VG + +VPI E + ML S + ++ + P+E E V+ + G
Sbjct: 78 SGVGAEIDLDKVPIFE--ELLLPLEMLFSENQGRGLVVVVPEEAEAVLAILEEEG 130
>gnl|CDD|176554 cd08613, GDPD_GDE4_like_1, Glycerophosphodiester phosphodiesterase
domain of uncharacterized bacterial homologs of
mammalian glycerophosphodiester phosphodiesterase GDE4.
This subfamily corresponds to the glycerophosphodiester
phosphodiesterase domain (GDPD) present in
uncharacterized bacterial homologs of mammalian GDE4, a
transmembrane protein whose cellular function has not
been elucidated yet.
Length = 309
Score = 32.3 bits (74), Expect = 0.45
Identities = 41/162 (25%), Positives = 60/162 (37%), Gaps = 33/162 (20%)
Query: 53 KGTSRKEYVQQLK-LDLGSYYGYN-----EF-LIGALVEMFPPVELMELIESFEKPRPIC 105
G +R + +LK LD+G YGY F G V M P L E+ +F R
Sbjct: 104 SGVTRDHTMAELKTLDIG--YGYTADGGKTFPFRGKGVGMMP--TLDEVFAAFPDRR--- 156
Query: 106 LRTNTLKTRRRDLADVLINRGVNLDPLSKWSKVGLVVYDSQVPIGATPEYMAGFYMLQSA 165
N K+ ++L + L L + L VY PI A E
Sbjct: 157 FLIN-FKSDDAAEGELLAEK---LATLPRKRLQVLTVYGGDKPIAALRELTPD------- 205
Query: 166 SSFLPVMALAPQE-KERVIDMAAAPGGKTTYIAALMKNTGLI 206
+ L+ K+ +I+ A G T Y+ +NT L+
Sbjct: 206 -----LRTLSKASMKDCLIEYLA--LGWTGYVPDSCRNTTLL 240
>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional.
Length = 413
Score = 32.4 bits (74), Expect = 0.57
Identities = 28/94 (29%), Positives = 41/94 (43%), Gaps = 7/94 (7%)
Query: 404 PESNVSNGDKKTEENSEQVLMKKATTKAKDLKKKTSGLAENGNVESPSNEKRRKKRKFPS 463
SNV K+ + K ATT K KK E+ N ES +++KK+K
Sbjct: 27 IYSNVLVLSKEILSTFSEEENKVATTSTKKDKK------EDKNNESKKKSEKKKKKKKEK 80
Query: 464 REEISKVREEK-RKTLREKVSSKKAGSKDKGNEK 496
+E S+ + KT ++ +KK K K NE
Sbjct: 81 KEPKSEGETKLGFKTPKKSKKTKKKPPKPKPNED 114
>gnl|CDD|237568 PRK13943, PRK13943, protein-L-isoaspartate O-methyltransferase;
Provisional.
Length = 322
Score = 31.7 bits (72), Expect = 0.81
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 190 GGKTTYIAALM----KNTGLIYANEMKASRLKSLTANLHRMGVTNTIVCNYDG 238
GG T Y AA+M GL+ + E + N+ R+G+ N I DG
Sbjct: 88 GGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDG 140
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 30.7 bits (70), Expect = 1.7
Identities = 11/44 (25%), Positives = 19/44 (43%)
Query: 173 ALAPQEKERVIDMAAAPGGKTTYIAALMKNTGLIYANEMKASRL 216
LA Q +RV+D+ PG +A + G + + + L
Sbjct: 14 LLAVQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAML 57
>gnl|CDD|130214 TIGR01144, ATP_synt_b, ATP synthase, F0 subunit b. This model
describes the F1/F0 ATP synthase b subunit in bacteria
only. Scoring just below the trusted cutoff are the
N-terminal domains of Mycobacterial b/delta fusion
proteins and a subunit from an archaeon, Methanosarcina
barkeri, in which the ATP synthase homolog differs in
architecture and is not experimentally confirmed. This
model helps resolve b from the related b' subunit.
Within the family is an example from a
sodium-translocating rather than proton-translocating
ATP synthase [Energy metabolism, ATP-proton motive force
interconversion].
Length = 147
Score = 29.7 bits (67), Expect = 2.0
Identities = 20/72 (27%), Positives = 40/72 (55%), Gaps = 7/72 (9%)
Query: 417 ENSEQVLMKKATTKAKDL----KKKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVRE 472
+ QV++K+A +A+++ K+ S + E E+ + R+K K +R EI +E
Sbjct: 49 QKKAQVILKEAKDEAQEIIENANKRGSEILEEAKAEA---REEREKIKAQARAEIEAEKE 105
Query: 473 EKRKTLREKVSS 484
+ R+ LR++V+
Sbjct: 106 QAREELRKQVAD 117
>gnl|CDD|152429 pfam11994, DUF3489, Protein of unknown function (DUF3489). This
family of proteins is functionally uncharacterized. This
protein is found in bacteria. Proteins in this family
are typically between 84 to 211 amino acids in length.
This protein has a single completely conserved residue W
that may be functionally important.
Length = 72
Score = 28.1 bits (63), Expect = 2.3
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 175 APQEKERVIDMAAAPGGKTTYIAALMKNTG 204
++ RVI M P G T IAA+ + TG
Sbjct: 8 EGSKQARVIAMLRRPEGAT--IAAISEATG 35
>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
Length = 1832
Score = 30.5 bits (69), Expect = 2.5
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 379 KLKKMSNSKKTSAG--PQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLKK 436
+++ + +K AG S+ ++ ES +SN +K EE+ + +KK K K K
Sbjct: 1519 EIENRNQEEKEPAGQGELESDKEKKGNLESVLSNQEKNIEEDYAESDIKKRKNK-KQYKS 1577
Query: 437 KT 438
T
Sbjct: 1578 NT 1579
>gnl|CDD|217884 pfam04086, SRP-alpha_N, Signal recognition particle, alpha subunit,
N-terminal. SRP is a complex of six distinct
polypeptides and a 7S RNA that is essential for
transferring nascent polypeptide chains that are
destined for export from the cell to the translocation
apparatus of the endoplasmic reticulum (ER) membrane.
SRP binds hydrophobic signal sequences as they emerge
from the ribosome, and arrests translation.
Length = 272
Score = 29.7 bits (67), Expect = 3.5
Identities = 33/150 (22%), Positives = 54/150 (36%), Gaps = 11/150 (7%)
Query: 350 FREHRFHPSLEKTRRFYPHVHNMDGFFVAKLKKM-SNSKKTSAGPQPSETVEQQTPESNV 408
FR+ + L + + + D +F +L+++ SKK + P+ T E+
Sbjct: 65 FRD-LYKNQLRQEKARTTYDEEFDEYFDQQLRELEKESKKQAKSPKAMRTFEE------- 116
Query: 409 SNGDKKTEENSEQVLMKKATTKAKDLKKKTS-GLAENGNVESPSNEKRRKKRKFPSREEI 467
S KKT ++ + K+ K K KK + + S N R +E
Sbjct: 117 SKKSKKTVDSMIERKPKEPGLKRKQRKKAQESATSPESSPSSTPNSSRPSTPHLLKAKEG 176
Query: 468 SKVREEKRKTLREKVSSKK-AGSKDKGNEK 496
R +K L SS K K K
Sbjct: 177 PSRRAKKAAKLSSTASSGDEKSPKSKAAPK 206
>gnl|CDD|227320 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 29.6 bits (67), Expect = 4.4
Identities = 17/82 (20%), Positives = 33/82 (40%), Gaps = 4/82 (4%)
Query: 109 NTLKTRRRDLADVLINRGVNLDPLSKWSKVGLVVY-DSQVPIGATPE---YMAGFYMLQS 164
+ +R A L ++ +GL+++ +QV GA + +A + +
Sbjct: 229 ASWLKAQRKQARFTGLSDAILLLIAGLLVIGLLLWMAAQVGAGALAQPGAALALLVIFAA 288
Query: 165 ASSFLPVMALAPQEKERVIDMA 186
+F P+ A Q +VI A
Sbjct: 289 LEAFEPLAPGAFQHLGQVIASA 310
>gnl|CDD|237628 PRK14156, PRK14156, heat shock protein GrpE; Provisional.
Length = 177
Score = 28.6 bits (64), Expect = 4.6
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 394 QPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLKKK-TSGLAENGNVESPSN 452
+ E VE E V ++T E SE ++ A +A + + K AE N++ +N
Sbjct: 9 EVEEEVEATETEETVEEVVEETPEKSE---LELANERADEFENKYLRAHAEMQNIQRRAN 65
Query: 453 EKRRKKRKFPSRE 465
E+R++ +++ S++
Sbjct: 66 EERQQLQRYRSQD 78
>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated.
Length = 746
Score = 29.4 bits (67), Expect = 4.9
Identities = 15/120 (12%), Positives = 37/120 (30%), Gaps = 1/120 (0%)
Query: 377 VAKLKKMSNSKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLKK 436
+ KLK++ K S E ++ + + K E + KA+
Sbjct: 21 LEKLKELGIEVK-SHSSTVEEEEARKEEAKREAEEEAKAEAEEAAAAEAEEEAKAEAAAA 79
Query: 437 KTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDKGNEK 496
+ A + + + + E ++ + K+ ++K K + +
Sbjct: 80 APAEEAAEAAAAAEAAARPAEDEAARPAEAAARRPKAKKAAKKKKGPKPKKKKPKRKAAR 139
>gnl|CDD|217860 pfam04049, APC8, Anaphase promoting complex subunit 8 / Cdc23. The
anaphase-promoting complex is composed of eight protein
subunits, including BimE (APC1), CDC27 (APC3), CDC16
(APC6), and CDC23 (APC8).
Length = 131
Score = 28.0 bits (63), Expect = 5.0
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 411 GDKKTEENSEQVLMKKATTKAKDL 434
G+KK +E +E VL T K+L
Sbjct: 107 GEKKKDEETEDVLGPGGNTVNKEL 130
>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62.
Length = 217
Score = 28.6 bits (64), Expect = 5.4
Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 409 SNGDKKTEENSEQVLMK-KATTKAKDLKKKTSGLAENGNV--ESPSNEKRRKKRKFP 462
+N DK E ++ + KA K K L K E +K+ KK+K P
Sbjct: 23 ANKDKGNPEIYNKINSQDKAIEKFKLLIKAQMAERVKKLHSQEKKEEKKKPKKKKVP 79
>gnl|CDD|233387 TIGR01379, thiL, thiamine-monophosphate kinase. This model
describes thiamine-monophosphate kinase, an enzyme that
converts thiamine monophosphate into thiamine
pyrophosphate (TPP, coenzyme B1), an enzyme cofactor.
Thiamine monophosphate may be derived from de novo
synthesis or from unphosphorylated thiamine, known as
vitamin B1. Proteins scoring between the trusted and
noise cutoff for this model include short forms from the
Thermoplasmas (which lack the N-terminal region) and a
highly derived form from Campylobacter jejuni.
Eukaryotes lack this enzyme, and add pyrophosphate from
ATP to unphosphorylated thiamine in a single step
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Thiamine].
Length = 317
Score = 28.8 bits (65), Expect = 6.0
Identities = 19/78 (24%), Positives = 38/78 (48%), Gaps = 8/78 (10%)
Query: 117 DLADVLINRGVNLDPLSKWSKVGLVVYDSQVPIG-ATPEYMAGFYMLQSASS----FLPV 171
D++D L +L +++ S VG+V+ ++P+ + G L+ A S + V
Sbjct: 210 DVSDGLA---ADLGHIAEASGVGIVIDLDRLPLSSELAAWAEGKNPLEWALSGGEDYELV 266
Query: 172 MALAPQEKERVIDMAAAP 189
+ P+ +E ++D A P
Sbjct: 267 FTVPPERREALLDAAKGP 284
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 28.5 bits (64), Expect = 6.0
Identities = 19/39 (48%), Positives = 23/39 (58%), Gaps = 3/39 (7%)
Query: 457 KKRKFPSREEISKVR---EEKRKTLREKVSSKKAGSKDK 492
KK+K EEI KV+ EEK+K +K SKK KDK
Sbjct: 61 KKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDK 99
>gnl|CDD|227818 COG5531, COG5531, SWIB-domain-containing proteins implicated in
chromatin remodeling [Chromatin structure and dynamics].
Length = 237
Score = 28.6 bits (64), Expect = 6.4
Identities = 11/61 (18%), Positives = 20/61 (32%)
Query: 406 SNVSNGDKKTEENSEQVLMKKATTKAKDLKKKTSGLAENGNVESPSNEKRRKKRKFPSRE 465
K+ + + K K +D +S ENG+ E +K++K
Sbjct: 60 EEPRVLRKEKYNITRKTTGKNDLPKEEDSSLPSSKETENGDTEGKETDKKKKSSTISKNS 119
Query: 466 E 466
Sbjct: 120 P 120
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 29.1 bits (66), Expect = 6.4
Identities = 15/64 (23%), Positives = 24/64 (37%)
Query: 433 DLKKKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKAGSKDK 492
D G E G + S +R+K RK + E +EE K +K + A
Sbjct: 389 DKPLLAEGEEEEGENGNLSPAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKG 448
Query: 493 GNEK 496
+ +
Sbjct: 449 PDGE 452
>gnl|CDD|178320 PLN02718, PLN02718, Probable galacturonosyltransferase.
Length = 603
Score = 29.1 bits (65), Expect = 6.8
Identities = 23/110 (20%), Positives = 44/110 (40%), Gaps = 4/110 (3%)
Query: 379 KLKKMSNSKKTSAGPQPSETVEQQTPESNVSNGDK-KTEENSEQVLMKKATTKAKDLKKK 437
KL + S S + ES V G+ K +E QV K + +++++
Sbjct: 73 KLVIYQDGDFNSVVSYNSSDKNNDSLESEVDGGNNHKPKEEQAQVSQKTTVSSSEEVQIS 132
Query: 438 TSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREKVSSKKA 487
+ N + + +K +R + + +EK K +R+K+ KA
Sbjct: 133 ARDIQLNHKTQFNPPTVKHEKN---TRVQPRRATDEKVKEIRDKIIQAKA 179
>gnl|CDD|145910 pfam03012, PP_M1, Phosphoprotein. This family includes the M1
phosphoprotein non-structural RNA polymerase alpha
subunit, which is thought to be a component of the
active polymerase, and may be involved in template
binding.
Length = 298
Score = 28.5 bits (64), Expect = 7.0
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 10/93 (10%)
Query: 376 FVAKLKKMSNSKKTSAGPQPSETVEQQTPESNVSNGDKKTEENSEQVLMKKATTKAKDLK 435
F K + K T P+ S+ P S S KK E++S + + + + L+
Sbjct: 133 FPKPPGKSTEDKSTQTDPEKSK------PASQSSAPVKKEEQSSSEKVDSQEASGPPALE 186
Query: 436 KKTSGLAENGNVESP----SNEKRRKKRKFPSR 464
+ ++ +VE+ E KK KFPSR
Sbjct: 187 WSATNDEDDASVEAEIAHQIAESFSKKYKFPSR 219
>gnl|CDD|107356 cd06361, PBP1_GPC6A_like, Ligand-binding domain of the promiscuous
L-alpha-amino acid receptor GPRC6A which is a
broad-spectrum amino acid-sensing receptor. This family
includes the ligand-binding domain of the promiscuous
L-alpha-amino acid receptor GPRC6A which is a
broad-spectrum amino acid-sensing receptor, and its fish
homolog, the 5.24 chemoreceptor. GPRC6A is a member of
the family C of G-protein-coupled receptors that
transduce extracellular signals into G-protein
activation and ultimately into cellular responses.
Length = 403
Score = 28.7 bits (64), Expect = 7.3
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 266 SKDESVKTSKSLEDIQKCSYLQKQLILAAIDMVDA-----NSKSG-----GYIVYSTCSI 315
SV+ + S IQ+C + + L + M+ A NS GY +Y TCS
Sbjct: 10 EAMLSVEDTPSRPQIQECVGFEIKGFLQTLAMIHAIEMINNSTLLLGVTLGYEIYDTCSE 69
Query: 316 MVTENEAVIDY 326
+ T AV+ +
Sbjct: 70 VTTAMAAVLRF 80
>gnl|CDD|217540 pfam03408, Foamy_virus_ENV, Foamy virus envelope protein.
Expression of the envelope (Env) glycoprotein is
essential for viral particle egress. This feature is
unique to the Spumavirinae, a subclass of the
Retroviridae.
Length = 985
Score = 29.0 bits (65), Expect = 8.1
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 13/88 (14%)
Query: 11 EFRLPTKEEIEEEKQQPPDLPNLQRRIKEIVRVLSNFKDLSQKGTSRKEYV--------- 61
EF+ P E++ + P +P L+ R+ +V +++ K L + TS E +
Sbjct: 839 EFKKPLTAELKTSFE--PQIPQLRLRLPHLVGIIAKLKGLKIEVTSTWESIKDQIERAKA 896
Query: 62 QQLKLDL--GSYYGYNEFLIGALVEMFP 87
+ L+LD+ G Y + + L A +++P
Sbjct: 897 ELLRLDIHEGDYPAWIQQLAAATEDVWP 924
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 28.6 bits (65), Expect = 8.9
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 422 VLMKKATTKAKDLKKKTSGLAENGNVESPSNEKRRKKRKFPSREEISKVREEKRKTLREK 481
V K A K K+ +++ + E E+ E +K+ ++EEI K+R E K LRE+
Sbjct: 24 VRKKIAEAKIKEAEEEAKRILEEAKKEA---EAIKKEALLEAKEEIHKLRNEFEKELRER 80
>gnl|CDD|115513 pfam06861, BALF1, BALF1 protein. This family consists of several
BALF1 proteins which seem to be specific to the
Lymphocryptoviruses. BALF1, inhibits the antiapoptotic
activity of EBV BHRF1 and of KSBcl-2.
Length = 184
Score = 28.1 bits (62), Expect = 9.2
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 171 VMALAPQEKERVIDMA---AAPGGKTTYIAALMKNTGLIYANEMKA-SRLKSLTA 221
+ AL ++++ D+A AA GGK +I ++ IY + M RL++L
Sbjct: 64 IKALLKKDEKLFADIACKGAAIGGKHAHIKLIISFLRAIYDDHMDNWFRLRALLC 118
>gnl|CDD|213736 TIGR02773, addB_Gpos, helicase-exonuclease AddAB, AddB subunit.
DNA repair is accomplished by several different systems
in prokaryotes. Recombinational repair of
double-stranded DNA breaks involves the RecBCD pathway
in some lineages, and AddAB (also called RexAB) in
other. The AddA protein is conserved between the
firmicutes and the alphaproteobacteria, while the
partner protein is not. Nevertheless, the partner is
designated AddB in both systems. This model describes
the AddB protein as found Bacillus subtilis and related
species. Although the RexB protein of Streptococcus and
Lactococcus is considered to be orthologous,
functionally equivalent, and merely named differently,
all members of this protein family have a P-loop
nucleotide binding motif GxxGxGK[ST] at the N-terminus,
unlike RexB proteins, and a CxxCxxxxxC motif at the
C-terminus, both of which may be relevant to function
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 1160
Score = 28.5 bits (64), Expect = 9.9
Identities = 19/65 (29%), Positives = 24/65 (36%), Gaps = 3/65 (4%)
Query: 405 ESNVSNGDKKTEEN--SEQVLMKKATTKAKDLKKKTSGLA-ENGNVESPSNEKRRKKRKF 461
E + E EQ L+ A T A D K + LA G PS R + F
Sbjct: 628 EQIGVELSSTSREKLLDEQFLVYTAFTSASDRLKVSYPLADAEGKSLRPSIIIHRLEELF 687
Query: 462 PSREE 466
P +E
Sbjct: 688 PKLKE 692
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.130 0.361
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,844,608
Number of extensions: 2432775
Number of successful extensions: 2519
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2408
Number of HSP's successfully gapped: 132
Length of query: 496
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 395
Effective length of database: 6,457,848
Effective search space: 2550849960
Effective search space used: 2550849960
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: 61 (27.2 bits)