RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15212
(329 letters)
>gnl|CDD|236790 PRK10901, PRK10901, 16S rRNA methyltransferase B; Provisional.
Length = 427
Score = 366 bits (942), Expect = e-126
Identities = 138/336 (41%), Positives = 206/336 (61%), Gaps = 31/336 (9%)
Query: 1 MINAILREFLRKKGEIFKSKMYNIHESYWNYPIWWINQVKITYPNFFQWKNILDVGHKKP 60
++NA+LR F R++ E+ +++ + +N+P W I ++K YP QW+ IL +++P
Sbjct: 114 LVNAVLRRFQREQEELL-AELQADPVARYNHPSWLIKRLKKAYPE--QWQAILAANNQRP 170
Query: 61 PLTLRINQRKTTLISYNKLLKKSGLE--TTIIGPLAIKLHTPISISKIPKFFNGFCSIQD 118
P+ LR+N+R + +Y LL ++G+E +GP AI+L TP+ + ++P F G+ S+QD
Sbjct: 171 PMWLRVNRRHHSRDAYLALLAEAGIEAFPHAVGPDAIRLETPVPVHQLPGFAEGWVSVQD 230
Query: 119 AAAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEIAD-IKLISVDNNLSRLNMISENLKR 177
AAAQLAA LL ++G VLDAC+APGGKT H+LE+A +++++D + RL + ENL+R
Sbjct: 231 AAAQLAATLLAPQNGERVLDACAAPGGKTAHILELAPQAQVVALDIDAQRLERVRENLQR 290
Query: 178 LNLKATLILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPD 237
L LKAT+I+ D +++ + FDRIL D PC+ +GV+RR+PD
Sbjct: 291 LGLKATVIVGDARDPA----------------QWWDGQPFDRILLDAPCSATGVIRRHPD 334
Query: 238 IPWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEEQAIIFSKNHKDS 297
I WLRR DI L+ +IL+ LW +LKPGG LL+ TCS+ EE+E+Q F H D+
Sbjct: 335 IKWLRRPEDIAALAALQSEILDALWPLLKPGGTLLYATCSILPEENEQQIKAFLARHPDA 394
Query: 298 IRL------NSPGQLLPTVNKKQDYDGFFYSLFQKR 327
L QLLP +D DGFFY+L KR
Sbjct: 395 ELLDTGTPQQPGRQLLPGE---EDGDGFFYALLIKR 427
>gnl|CDD|223222 COG0144, Sun, tRNA and rRNA cytosine-C5-methylases [Translation,
ribosomal structure and biogenesis].
Length = 355
Score = 225 bits (576), Expect = 1e-71
Identities = 104/350 (29%), Positives = 172/350 (49%), Gaps = 42/350 (12%)
Query: 1 MINAILREFLRKKGEIFKSKMYNIHESYWNYPIWWINQVKITYPNFFQWKNILDVGHKKP 60
+NA+LR R + + + +++P W + ++ + + I + P
Sbjct: 26 FVNAVLRRLERSEEALLEEI--LRPAFRYSHPEWLVEKLPDALGED-EAEAIAAALLRPP 82
Query: 61 PLTLRINQRKTTLISYNKLLKKSGLETTIIG--PLAIKLHTPISISKIPKFFNGFCSIQD 118
P +LR+N K + + L+++G+ +++ I ++P+F G +QD
Sbjct: 83 PRSLRVNTLKADVEELLEALEEAGVLDEKPWVLDEVLRIEASGPIGRLPEFAEGLIYVQD 142
Query: 119 AAAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEIAD---IKLISVDNNLSRLNMISENL 175
A+QL A +LD + G VLD C+APGGKT HL E+ + +++VD + RL + ENL
Sbjct: 143 EASQLPALVLDPKPGERVLDLCAAPGGKTTHLAELMENEGAIVVAVDVSPKRLKRLRENL 202
Query: 176 KRLNLKATLILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRN 235
KRL ++ ++++ D + + FDRIL D PC+G+GV+RR+
Sbjct: 203 KRLGVRNVIVVN-----------KDARRLAELLP---GGEKFDRILLDAPCSGTGVIRRD 248
Query: 236 PDIPWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEEQAIIFSKNHK 295
PD+ W R DI +L+K +IL K+LKPGG L++ TCSL EE+EE F + H
Sbjct: 249 PDVKWRRTPEDIAELAKLQKEILAAALKLLKPGGVLVYSTCSLTPEENEEVVERFLERHP 308
Query: 296 D----SIRLNSPG-------------QLLPTVNKKQDYDGFFYSLFQKRK 328
D +RL +L P V+ DGFF + +K++
Sbjct: 309 DFELEPVRLPWGPLFEGLGSELGKTRRLYPHVHGT---DGFFIAKLRKKR 355
>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 = 221 bits (565), Expect = 3e-69
Identities = 110/339 (32%), Positives = 185/339 (54%), Gaps = 33/339 (9%)
Query: 1 MINAILREFLRKKGEIFKSKMYNIHESYWNYPIWWINQVKITYPNFFQWKNILDVGHKKP 60
++N +LR F R++ E+ + +P W + +++ YP W++I + +++P
Sbjct: 109 LVNGVLRRFQREQEELLAEFNALDAR--YLHPEWLVKRLQKAYPGQ--WQSICEANNQRP 164
Query: 61 PLTLRINQRKTTLISYNKLLKKSGL--ETTIIGPLAIKLHTPISISKIPKFFNGFCSIQD 118
P+ LRIN+ K + + LL ++G+ + P A++L TP ++ +P F G+ ++QD
Sbjct: 165 PMWLRINRTKHSRDEWLALLAEAGMKGFPHDLAPDAVRLETPAAVHALPGFEEGWVTVQD 224
Query: 119 AAAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEIA-DIKLISVDNNLSRLNMISENLKR 177
A+AQ A L ++ +LDAC+APGGKT H+LE+A +++++D + RL + ENLKR
Sbjct: 225 ASAQWVATWLAPQNEETILDACAAPGGKTTHILELAPQAQVVALDIHEHRLKRVYENLKR 284
Query: 178 LNLKATLILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPD 237
L L + ++ +N+ FDRIL D PC+ +GV+RR+PD
Sbjct: 285 LGLTIK-----AETKDGDGRGPS---------QWAENEQFDRILLDAPCSATGVIRRHPD 330
Query: 238 IPWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEEQAIIFSKNHKD- 296
I WLR+ DI +L++ +IL+ +W +LK GG L++ TCS+ EE+ EQ F + H D
Sbjct: 331 IKWLRKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVLPEENSEQIKAFLQEHPDF 390
Query: 297 ----SIRLNSPG----QLLPTVNKKQDYDGFFYSLFQKR 327
+ Q+LP + DGFFY+ K+
Sbjct: 391 PFEKTGTPEQVRDGGLQILPHAEEG---DGFFYAKLIKK 426
>gnl|CDD|237856 PRK14901, PRK14901, 16S rRNA methyltransferase B; Provisional.
Length = 434
Score = 190 bits (486), Expect = 3e-57
Identities = 116/345 (33%), Positives = 180/345 (52%), Gaps = 44/345 (12%)
Query: 2 INAILREFLRKK--GEIFK-----SKMYNIHESYWNYPIW----WINQVKIT-YPNFFQW 49
+N ILR++LR + G+ + I S+ P W W+ + + +W
Sbjct: 116 VNGILRQYLRAREAGDPLPLPEDPIERLAILHSF---PDWLVKLWLEWLGLEEAEQLCKW 172
Query: 50 KNILDVGHKKPPLTLRINQRKTTLISYNKLLKKSGLETTIIGPL--AIKL-HTPISISKI 106
N + P L LRIN +T+L L ++G+ T I L ++L P SI ++
Sbjct: 173 FN------QPPSLDLRINPLRTSLEEVQAALAEAGITATPIPGLPQGLRLTGNPGSIRQL 226
Query: 107 PKFFNGFCSIQDAAAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLE-IADI-KLISVDNN 164
P + G+ ++QD +AQL APLLD + G +LDAC+APGGKT H+ E + D ++ +VD +
Sbjct: 227 PGYEEGWWTVQDRSAQLVAPLLDPQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRS 286
Query: 165 LSRLNMISENLKRLNLKATLILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADL 224
SRL + EN +RL LK+ +K L D + ++ YFDRIL D
Sbjct: 287 ASRLKKLQENAQRLGLKS-----------IKILAADSRNLLELKPQW--RGYFDRILLDA 333
Query: 225 PCTGSGVVRRNPDIPWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESE 284
PC+G G + R+PD W + I++L+ ++L +L +LKPGG L++ TC+L E+E
Sbjct: 334 PCSGLGTLHRHPDARWRQTPEKIQELAPLQAELLESLAPLLKPGGTLVYATCTLHPAENE 393
Query: 285 EQAIIFSKNHKDSIRLNSPGQ-LLPTVNKKQDYDGFFYSLFQKRK 328
Q F H D +L P Q + P +QD DGFF ++ +K+
Sbjct: 394 AQIEQFLARHPD-WKLEPPKQKIWP---HRQDGDGFFMAVLRKKS 434
>gnl|CDD|237857 PRK14902, PRK14902, 16S rRNA methyltransferase B; Provisional.
Length = 444
Score = 190 bits (486), Expect = 3e-57
Identities = 109/360 (30%), Positives = 178/360 (49%), Gaps = 64/360 (17%)
Query: 1 MINAILREFLRKKGEIFKS-----KMYNIHESYWNYPIW----WINQ--VKITYPNFFQW 49
+N +LR LR+ K +I S+ P+W WI+Q +
Sbjct: 117 FVNGVLRNILREGLPDIDEIKDPVKRLSIKYSH---PVWLVKRWIDQYGEEKA------- 166
Query: 50 KNILDVGHKKPPLTLRINQRKTTLISYNKLLKKSGLETTI--IGPLAIKLHTPISISKIP 107
+ IL+ ++ P ++R+N K ++ + L++ G E + P A+ + +I+
Sbjct: 167 EKILESLNEPPKASIRVNTLKISVEELIEKLEEEGYEVEESLLSPEALVI-EKGNIAGTD 225
Query: 108 KFFNGFCSIQDAAAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEI--ADIKLISVDNNL 165
F +G +IQD ++ L AP LD + G VLDAC+APGGKT H+ E+ K++++D +
Sbjct: 226 LFKDGLITIQDESSMLVAPALDPKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHE 285
Query: 166 SRLNMISENLKRLNLKATLILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLP 225
+L +I EN KRL ++ I K L D +K + +F + FD+IL D P
Sbjct: 286 HKLKLIEENAKRL---------GLTNIETKAL--DA-RKVHEKF----AEKFDKILVDAP 329
Query: 226 CTGSGVVRRNPDIPWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEE 285
C+G GV+RR PDI + + K DI+ L + +IL ++ + LK GG L++ TC++ EE+EE
Sbjct: 330 CSGLGVIRRKPDIKYNKTKEDIESLQEIQLEILESVAQYLKKGGILVYSTCTIEKEENEE 389
Query: 286 QAIIFSKNHKD-------------SIRLNSPG--QLLPTVNKKQDY--DGFFYSLFQKRK 328
F + H + + G Q+LP DY DGFF + +K+
Sbjct: 390 VIEAFLEEHPEFELVPLQHEKPDELVYEVKDGYLQILP-----NDYGTDGFFIAKLRKKG 444
>gnl|CDD|201649 pfam01189, Nol1_Nop2_Fmu, NOL1/NOP2/sun family.
Length = 277
Score = 166 bits (423), Expect = 9e-50
Identities = 97/294 (32%), Positives = 152/294 (51%), Gaps = 37/294 (12%)
Query: 52 ILDVGHKKPPLTLRINQRKTTLISYNKLLKKSGLETTIIG---PLAIKLHTPISISKIPK 108
IL+ + PP TLR N KT S + L+ +G++ +G P SI +P
Sbjct: 1 ILEANNCSPPGTLRKNVLKTKRWSLLQALELAGVQLEPLGRYPHALPVGDLPYSIGSLPP 60
Query: 109 FFNGFCSIQDAAAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEIADIK--LISVDNNLS 166
F NG ++QDA++QL A L+ + ++LD C+APGGKT H+ E+ + +++VD N
Sbjct: 61 FENGAVTVQDASSQLDAIALNPQEDEFILDMCAAPGGKTTHIAELMKNEGTVVAVDRNKQ 120
Query: 167 RLNMISENLKRLNLKATLILS-DISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLP 225
RL + N++RL + ++ D +I+ K L + FDRIL D P
Sbjct: 121 RLKRVYANIQRLGVFNIIVQEGDARQIDQKLLGGE----------------FDRILLDAP 164
Query: 226 CTGSGVVRRNPDIPWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEE 285
C+G+GV+RR+PDI WLRR+ DI +L++ ++L W ++KPGG L++ TCS+ EE+E
Sbjct: 165 CSGTGVIRRDPDIKWLRREADIAQLAELQKELLKAAWDLVKPGGVLVYSTCSVLPEENEA 224
Query: 286 QAIIFSKNHKDSIRL------NSPGQLLPTVNK--KQDY------DGFFYSLFQ 325
F + D + L L + K Q DGFF++ +
Sbjct: 225 VIKYFLQKRPD-VELVPTGLSEGKIALAKRIVKGGLQSLPHELNRDGFFFAKLR 277
>gnl|CDD|184896 PRK14903, PRK14903, 16S rRNA methyltransferase B; Provisional.
Length = 431
Score = 146 bits (370), Expect = 2e-40
Identities = 86/310 (27%), Positives = 151/310 (48%), Gaps = 47/310 (15%)
Query: 1 MINAILREFLRKKGEIFKSKMYNIHESYWNYPIWWINQVKITYPNFFQWKNILDVGHKKP 60
++NA+LR + + + K +H Y ++P W +N + P + I++ +
Sbjct: 111 LVNAVLR----RLRTVPEPK--ELHLKY-SHPKWLVNYWRSFLPEEAVLR-IMEWNQEPL 162
Query: 61 PLTLRINQRKTTLISYNKLLKKSGLETTIIGPLAIKLHTPISI---------SKIPKFFN 111
P LR+N T K+L + G + G H+P S+ + +
Sbjct: 163 PTMLRVNSLAITREEVIKILAEEG-TEAVPGK-----HSPFSLIVRKLGVNMNDSRVIKD 216
Query: 112 GFCSIQDAAAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEIA--DIKLISVDNNLSRLN 169
G ++Q ++Q+ L+++ G+ VLD C+APGGKT + E+ K+++VD + ++
Sbjct: 217 GLATVQGESSQIVPLLMELEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQ 276
Query: 170 MISENLKRLNLKATLIL-SDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTG 228
++ ++ KRL L + I +D ++ + ++ FDRIL D PCT
Sbjct: 277 LVEKHAKRLKLSSIEIKIADAERLT----------------EYVQDT-FDRILVDAPCTS 319
Query: 229 SGVVRRNPDIPWLRR--KNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEEQ 286
G R +P++ LRR K D KKLS+ +I++ WK+L+ GG LL+ TC++ EE+ E
Sbjct: 320 LGTARNHPEV--LRRVNKEDFKKLSEIQLRIVSQAWKLLEKGGILLYSTCTVTKEENTEV 377
Query: 287 AIIFSKNHKD 296
F KD
Sbjct: 378 VKRFVYEQKD 387
>gnl|CDD|188051 TIGR00446, nop2p, NOL1/NOP2/sun family putative RNA methylase.
[Protein synthesis, tRNA and rRNA base modification].
Length = 264
Score = 117 bits (296), Expect = 3e-31
Identities = 74/282 (26%), Positives = 124/282 (43%), Gaps = 40/282 (14%)
Query: 63 TLRINQR--KTTLISYNKLLKKSGLETTIIGPLAIKLHTPISISKIPKFFNGFCSIQDAA 120
TL+IN L + +L+ + E +K +P SI P++ G+ Q+A+
Sbjct: 5 TLKINVEDLLERLENRGVVLEPTCEE----YFFEVKE-SPFSIGSTPEYLFGYYYPQEAS 59
Query: 121 AQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEIADIK--LISVDNNLSRLNMISENLKRL 178
+ + L+ R VLD +APGGKT + ++ K +++ + + SR + N+ R+
Sbjct: 60 SMIPPIALEPREDERVLDMAAAPGGKTTQISQLMKNKGCIVANEISKSRTKALISNINRM 119
Query: 179 NLKATLILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPDI 238
+ T++ IN +F Y K FD IL D PC+G GV+R++P
Sbjct: 120 GVLNTIV---------------INAD-GRKFGAYLLK-FDAILLDAPCSGEGVIRKDPSR 162
Query: 239 PWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEEQAIIFSKNHKDSI 298
+ DIK S ++++ LKPGG L++ TCSL EE+EE + D +
Sbjct: 163 KRNWSEEDIKYCSLLQKELIDAAIDALKPGGVLVYSTCSLEVEENEEVIDYILRKRPDVV 222
Query: 299 RLNSPGQLLPTVNKKQDY--------------DGFFYSLFQK 326
G +N + +GFF + +K
Sbjct: 223 EEIIKGDEFFGINIGKGEVKGALRVFPQNYDCEGFFVAKLRK 264
>gnl|CDD|237858 PRK14904, PRK14904, 16S rRNA methyltransferase B; Provisional.
Length = 445
Score = 109 bits (274), Expect = 6e-27
Identities = 78/308 (25%), Positives = 127/308 (41%), Gaps = 48/308 (15%)
Query: 31 YPIWWINQVKITYPNFFQWKNILDVGHKKPPLTLRINQRKTTLISYNKLLKKSGLETTII 90
+P W + + Y + + +L ++ P RIN+ KTT K L +
Sbjct: 151 HPEWLLERWIARY-GEERTEAMLSYNNQAPLFGFRINRLKTT---PEKFLAAPADASVTF 206
Query: 91 GPLAIKLHTPISISKIPKFF-------------NGFCSIQDAAAQLAAPLLDIRSGMYVL 137
S +P FF G S+Q+ LA LL+ + G VL
Sbjct: 207 EK-----------SGLPNFFLSKDFSLFEPFLKLGLVSVQNPTQALACLLLNPQPGSTVL 255
Query: 138 DACSAPGGKTCHLLEIADIK--LISVDNNLSRLNMISENLKRLNLKATLILSDISKINLK 195
D C+APGGK+ + E+ + + +VD +L I + + L ++ I I
Sbjct: 256 DLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSH------ASALGITIIETI--- 306
Query: 196 KLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPDIPWLRRKNDIKKLSKYSC 255
+ F + D IL D PCTG+GV+ R ++ W + +L
Sbjct: 307 ---------EGDARSFSPEEQPDAILLDAPCTGTGVLGRRAELRWKLTPEKLAELVGLQA 357
Query: 256 KILNNLWKMLKPGGKLLFVTCSLWFEESEEQAIIFSKNHKDSIRLNSPGQLLPTVNKKQD 315
++L++ +LKPGG L++ TCS+ EE+E Q F + H + SPG L ++
Sbjct: 358 ELLDHAASLLKPGGVLVYATCSIEPEENELQIEAFLQRHPEFSAEPSPGSLPEPFHEVAH 417
Query: 316 YDGFFYSL 323
G +L
Sbjct: 418 PKGAILTL 425
>gnl|CDD|183387 PRK11933, yebU, rRNA (cytosine-C(5)-)-methyltransferase RsmF;
Reviewed.
Length = 470
Score = 53.0 bits (128), Expect = 9e-08
Identities = 64/240 (26%), Positives = 101/240 (42%), Gaps = 49/240 (20%)
Query: 112 GFCSIQDAAAQL--AAPLLDIRSGMYVLDACSAPGGKTCHLLEIADIKLISVDNNL--SR 167
G IQ+A++ L AA D + VLD +APG KT + + + + V N SR
Sbjct: 91 GLFYIQEASSMLPVAALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQGAIVANEYSASR 150
Query: 168 LNMISENLKRLNLKATLILSDISKINLKKLYIDINKKTN--NR-FRFYKNKYFDRILADL 224
+ ++ N+ R + + T+ R F + FD IL D
Sbjct: 151 VKVLHANISRCGVSNVAL-------------------THFDGRVFGAALPETFDAILLDA 191
Query: 225 PCTGSGVVRRNPDI--PW-LRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFE 281
PC+G G VR++PD W +I + +++ + + LKPGG L++ TC+L
Sbjct: 192 PCSGEGTVRKDPDALKNWSPESNLEIAATQR---ELIESAFHALKPGGTLVYSTCTL--N 246
Query: 282 ESEEQAIIFS--KNHKDSIRLNSPGQLLPTVNKK-----------QDYD--GFFYSLFQK 326
E QA+ + + D++ G L P K Q YD GFF + +K
Sbjct: 247 REENQAVCLWLKETYPDAVEFEPLGDLFPGAEKALTEEGFLHVFPQIYDSEGFFVARLRK 306
>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
methyltransferases (SAM or AdoMet-MTase), class I;
AdoMet-MTases are enzymes that use
S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
for methyltransfer, creating the product
S-adenosyl-L-homocysteine (AdoHcy). There are at least
five structurally distinct families of AdoMet-MTases,
class I being the largest and most diverse. Within this
class enzymes can be classified by different substrate
specificities (small molecules, lipids, nucleic acids,
etc.) and different target atoms for methylation
(nitrogen, oxygen, carbon, sulfur, etc.).
Length = 107
Score = 44.0 bits (104), Expect = 7e-06
Identities = 23/140 (16%), Positives = 40/140 (28%), Gaps = 39/140 (27%)
Query: 136 VLDACSAPGGKTCHLLEIADIKLISVDNNLSRLNMISEN-LKRLNLKATLILSDISKINL 194
VLD G L ++ VD + L + + L ++ D +
Sbjct: 2 VLDLGCGTGALALALASGPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEE--- 58
Query: 195 KKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPDIPWLRRKNDIKKLSKYS 254
++ FD I++D P D+
Sbjct: 59 --------------LPPEADESFDVIISDPPLHHLV-----EDLA--------------- 84
Query: 255 CKILNNLWKMLKPGGKLLFV 274
+ L ++LKPGG L+
Sbjct: 85 -RFLEEARRLLKPGGVLVLT 103
>gnl|CDD|222415 pfam13847, Methyltransf_31, Methyltransferase domain. This family
appears to be have methyltransferase activity.
Length = 151
Score = 37.8 bits (88), Expect = 0.002
Identities = 33/182 (18%), Positives = 60/182 (32%), Gaps = 40/182 (21%)
Query: 130 IRSGMYVLDACSAPGGKTCHLLEIA--DIKLISVDNNLSRLNMISENLKRLNLK-ATLIL 186
++SG+ VLD G T L E +++ +D + + EN K+L + I
Sbjct: 1 LKSGIKVLDLGCGTGYLTFILAEKLGPGAEVVGIDISEEAIEKAKENAKKLGYENVEFIQ 60
Query: 187 SDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPDIPWLRRKND 246
DI ++ + ++ FD ++++ L D
Sbjct: 61 GDIEELPQLQ---------------LEDNSFDVVISNEV---------------LNHLPD 90
Query: 247 IKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEEQAIIFSKNHKDSIRLNSPGQL 306
K+L + ++LKPGG L+ L E + +L
Sbjct: 91 P-------DKVLEEIIRVLKPGGVLIVSDPVLLSELPALLEDLERLYAGVLEGAIGKKKL 143
Query: 307 LP 308
L
Sbjct: 144 LT 145
>gnl|CDD|222287 pfam13649, Methyltransf_25, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 97
Score = 33.1 bits (76), Expect = 0.033
Identities = 11/57 (19%), Positives = 20/57 (35%)
Query: 136 VLDACSAPGGKTCHLLEIADIKLISVDNNLSRLNMISENLKRLNLKATLILSDISKI 192
+LD G L + VD + L + E L+ K +++D +
Sbjct: 1 ILDLGCGTGRVLRALARAGPSSVTGVDISKEALELAKERLRDKGPKVRFVVADARDL 57
>gnl|CDD|222295 pfam13659, Methyltransf_26, Methyltransferase domain. This family
contains methyltransferase domains.
Length = 117
Score = 32.8 bits (75), Expect = 0.063
Identities = 29/149 (19%), Positives = 49/149 (32%), Gaps = 42/149 (28%)
Query: 136 VLDACSAPGGKTCHLLEIA-----DIKLISVDNNLSRLNMISENLKRLNL--KATLILSD 188
VLD PG + L A D +++ V+ + + L L + +++ D
Sbjct: 4 VLD----PGAGSGAFLLAAARAGPDARVVGVELDPEAAALARRRLALAGLAPRVRVVVGD 59
Query: 189 ISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPDIPWLRRKNDIK 248
+ FD +L NP P+ R D K
Sbjct: 60 A-----------------RELLELPDGSFDLVLG------------NP--PYGPRAGDPK 88
Query: 249 KLSKYSCKILNNLWKMLKPGGKLLFVTCS 277
+ L ++LKPGG L+ +T +
Sbjct: 89 DNRDLYDRFLAAALRLLKPGGVLVVITPA 117
>gnl|CDD|225317 COG2519, GCD14, tRNA(1-methyladenosine) methyltransferase and
related methyltransferases [Translation, ribosomal
structure and biogenesis].
Length = 256
Score = 33.0 bits (76), Expect = 0.16
Identities = 33/160 (20%), Positives = 50/160 (31%), Gaps = 51/160 (31%)
Query: 120 AAQLAAPLLDIRSGMYVLDACSAPGGKTCHLLEI--ADIKLISVDNNLSRLNMISENLKR 177
A + A L I G VL+A + G T +L + + + + ENL
Sbjct: 83 AGYIVA-RLGISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSE 141
Query: 178 LNLK--ATLILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRN 235
L TL L D+ + ID D + DLP
Sbjct: 142 FGLGDRVTLKLGDVRE------GIDEED-------------VDAVFLDLPD--------- 173
Query: 236 PDIPWLRRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVT 275
PW +L ++ LKPGG ++ +
Sbjct: 174 ---PW---------------NVLEHVSDALKPGGVVVVYS 195
>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 = 32.6 bits (75), Expect = 0.17
Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 15/78 (19%)
Query: 128 LDIRSGMYVLDACSAPGG---------KTCH-----LLEIADIKLI-SVDNNLSRLNMIS 172
L G VLD +APGG L + I+ + + +++ +
Sbjct: 18 LKPGKGKTVLDLGAAPGGFSQVLLERGGAGKVVAVDLGPMEPIQGVYFLRGDITDPETLE 77
Query: 173 ENLKRLNLKATLILSDIS 190
+ + L K L+LSD +
Sbjct: 78 KLRELLPGKVDLVLSDGA 95
>gnl|CDD|225136 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
biosynthesis [Coenzyme metabolism].
Length = 238
Score = 31.9 bits (73), Expect = 0.40
Identities = 32/150 (21%), Positives = 56/150 (37%), Gaps = 42/150 (28%)
Query: 127 LLDIRSGMYVLDACSAPGGKTCHLLEIA-DIKLISVDNNLSRLNMISENLKRLNLKA-TL 184
LL I+ G VLD G L + +++ +D + S L + E LK+ ++
Sbjct: 46 LLGIKPGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEF 105
Query: 185 ILSDISKINLKKLYIDINKKTNNRFRFYKNKYFDRILADLPCTGSGVVRRNPDIPWLRRK 244
++ D + + + FD + T S +R DI
Sbjct: 106 VVGDAENLP------------------FPDNSFDAV------TISFGLRNVTDID----- 136
Query: 245 NDIKKLSKYSCKILNNLWKMLKPGGKLLFV 274
K L ++++LKPGG+LL +
Sbjct: 137 -----------KALKEMYRVLKPGGRLLVL 155
>gnl|CDD|216879 pfam02112, PDEase_II, cAMP phosphodiesterases class-II.
Length = 323
Score = 30.6 bits (69), Expect = 1.3
Identities = 17/67 (25%), Positives = 22/67 (32%), Gaps = 5/67 (7%)
Query: 32 PIWWINQVKITYPNFFQWKNILD-----VGHKKPPLTLRINQRKTTLISYNKLLKKSGLE 86
P IN++ L V H K P N R T L N+L + + L
Sbjct: 255 PRLLINELSQLETLTTSTSQPLLGLNVIVTHVKSPPADPNNPRDTILEELNQLNEINNLG 314
Query: 87 TTIIGPL 93
I L
Sbjct: 315 VRISIAL 321
>gnl|CDD|221804 pfam12847, Methyltransf_18, Methyltransferase domain. Protein in
this family function as methyltransferases.
Length = 104
Score = 28.8 bits (65), Expect = 1.3
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 256 KILNNLWKMLKPGGKLLFVTC 276
++L+ L +LKPGG+L+
Sbjct: 84 ELLDALASLLKPGGRLVLNAV 104
>gnl|CDD|212566 cd11684, DHR2_DOCK, Dock Homology Region 2, a GEF domain, of
Dedicator of Cytokinesis proteins. DOCK proteins
comprise a family of atypical guanine nucleotide
exchange factors (GEFs) that lack the conventional Dbl
homology (DH) domain. As GEFs, they activate the small
GTPases Rac and Cdc42 by exchanging bound GDP for free
GTP. They are also called the CZH (CED-5, Dock180, and
MBC-zizimin homology) family, after the first family
members identified. Dock180 was first isolated as a
binding partner for the adaptor protein Crk. The
Caenorhabditis elegans protein, Ced-5, is essential for
cell migration and phagocytosis, while the Drosophila
ortholog, Myoblast city (MBC), is necessary for myoblast
fusion and dorsal closure. DOCKs are divided into four
classes (A-D) based on sequence similarity and domain
architecture: class A includes Dock1 (or Dock180), 2 and
5; class B includes Dock3 and 4; class C includes Dock6,
7, and 8; and class D includes Dock9, 10 and 11. All
DOCKs contain two homology domains: the DHR-1 (Dock
homology region-1), also called CZH1, and DHR-2 (also
called CZH2 or Docker). This alignment model represents
the DHR-2 domain of DOCK proteins, which contains the
catalytic GEF activity for Rac and/or Cdc42.
Length = 392
Score = 30.0 bits (68), Expect = 2.1
Identities = 23/100 (23%), Positives = 34/100 (34%), Gaps = 20/100 (20%)
Query: 163 NNLSRLNMISENLKRLNLKATLILS----DISKINLKKLYIDINK-------------KT 205
RL E LK L A +I S D ++ + YI I
Sbjct: 148 PEFERLGDFCERLKSLYPGAEIIQSSEEPDDEILDSEGQYIQITSVEPYFDDEDLVSRAA 207
Query: 206 NNRFRFYKNKYFDRILADLPCTGSGVVRRNPDIP--WLRR 243
+FY+N + + + P T G +N +I W R
Sbjct: 208 PGVRQFYRNNNINTFVYERPFTKGGKKSQN-EITDQWKER 246
>gnl|CDD|181924 PRK09514, zntR, zinc-responsive transcriptional regulator;
Provisional.
Length = 140
Score = 28.8 bits (65), Expect = 2.4
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 153 IADIKLISVDNNLSRLNMISENLKRLN 179
I D KL V+ ++ L + +L+RLN
Sbjct: 85 IVDEKLAEVEAKIAELQHMRRSLQRLN 111
>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 = 28.4 bits (64), Expect = 2.4
Identities = 15/64 (23%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 127 LLDIRSGMYVLDACSAPGGKTCHLLEIADI----KLISVDNNLSRLNMISENLKRLNLKA 182
L +R G + D + G T +E A + ++ +++ N L++I NL+R +
Sbjct: 14 KLRLRPGDVLWDIGAGTGSVT---IEAARLVPNGRVYAIERNPEALDLIERNLRRFGVSN 70
Query: 183 TLIL 186
+I+
Sbjct: 71 IVIV 74
>gnl|CDD|129739 TIGR00654, PhzF_family, phenazine biosynthesis protein PhzF family.
Members of this family show a distant global similarity
to diaminopimelate epimerases, which can be taken as the
outgroup. One member of this family has been shown to
act as an enzyme in the biosynthesis of the antibiotic
phenazine in Pseudomonas aureofaciens. The function in
other species is unclear [Cellular processes, Toxin
production and resistance].
Length = 297
Score = 29.1 bits (65), Expect = 3.0
Identities = 10/65 (15%), Positives = 22/65 (33%), Gaps = 8/65 (12%)
Query: 265 LKPGGKLLFVTCSLWFEESEEQAIIFSKNHKDSIRLNSPGQLLPTVNKKQDYDGFFYSLF 324
G + ++ + +I K+ + + +L K+ D+ G F
Sbjct: 150 FIKGLPIQLLSTGPEW------IVIPLKDEEACFNASPNFAMLAHQLKQNDHVGVI--PF 201
Query: 325 QKRKE 329
+KE
Sbjct: 202 GPKKE 206
>gnl|CDD|220246 pfam09445, Methyltransf_15, RNA cap guanine-N2 methyltransferase.
RNA cap guanine-N2 methyltransferases such as
Schizosaccharomyces pombe Tgs1 and Giardia lamblia Tgs2
catalyze methylation of the exocyclic N2 amine of
7-methylguanosine.
Length = 165
Score = 28.4 bits (64), Expect = 3.5
Identities = 16/72 (22%), Positives = 28/72 (38%), Gaps = 7/72 (9%)
Query: 135 YVLDACSAPGGKTCHLLEIADIKLISVDNNLSRLNMISENLK--RLNLKATLILSD---- 188
+LD GG T + +I +D N L N + ++ + IL D
Sbjct: 3 IILDVFCGAGGNTIQFANVFC-SVIGIDINPEHLACAQHNAEVYGVSDRIWFILGDWFEL 61
Query: 189 ISKINLKKLYID 200
++K+ K+ D
Sbjct: 62 LAKLKFGKIPYD 73
>gnl|CDD|233668 TIGR01983, UbiG, ubiquinone biosynthesis O-methyltransferase. This
model represents an O-methyltransferase believed to act
at two points in the ubiquinone biosynthetic pathway in
bacteria (UbiG) and fungi (COQ3). A separate methylase
(MenG/UbiE) catalyzes the single C-methylation step. The
most commonly used names for genes in this family do not
indicate whether this gene is an O-methyl, or C-methyl
transferase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 224
Score = 28.8 bits (65), Expect = 3.7
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 257 ILNNLWKMLKPGGKLLFVT 275
+ ++LKPGG L F T
Sbjct: 131 FIRACAQLLKPGGILFFST 149
>gnl|CDD|179251 PRK01216, PRK01216, DNA polymerase IV; Validated.
Length = 351
Score = 29.0 bits (65), Expect = 3.8
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 12/73 (16%)
Query: 151 LEIADIKLISVDNNLSRLNMISENLKRLNLKATLILSDISKINLKKLYIDINK-KTNNRF 209
L+IADI I ++ +E LK+L + L D +I +L I + K F
Sbjct: 178 LDIADIPGIG--------DITAEKLKKLGVNK---LVDTLRIEFDELKGIIGEAKAKYLF 226
Query: 210 RFYKNKYFDRILA 222
+N+Y + + A
Sbjct: 227 SLARNEYNEPVRA 239
>gnl|CDD|222171 pfam13489, Methyltransf_23, Methyltransferase domain. This family
appears to be a methyltransferase domain.
Length = 154
Score = 28.2 bits (63), Expect = 3.8
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 256 KILNNLWKMLKPGGKLLFVT 275
+L L ++LKPGG LL T
Sbjct: 92 ALLQQLRELLKPGGVLLIST 111
>gnl|CDD|216706 pfam01795, Methyltransf_5, MraW methylase family. Members of this
family are probably SAM dependent methyltransferases
based on Escherichia coli rsmH. This family appears to
be related to pfam01596.
Length = 310
Score = 28.8 bits (65), Expect = 4.1
Identities = 26/102 (25%), Positives = 41/102 (40%), Gaps = 19/102 (18%)
Query: 127 LLDIRSGMYVLDACSAPGGKTCHLLEI--ADIKLISVDNNLSRLNMISENLKRLNLKATL 184
LL+I+ +D GG + +LE + +LI +D + + E LK + TL
Sbjct: 15 LLNIKPDGIYIDCTLGGGGHSEAILEQLPEEGRLIGIDRDPQAIANAKERLKPFKGRVTL 74
Query: 185 ILSDISKI--NLKKLYIDINKKTNNRFRFYKNKYFDRILADL 224
I S+ + + LK+L D IL DL
Sbjct: 75 IHSNFANLFAYLKEL---------------GVGKVDGILFDL 101
>gnl|CDD|216177 pfam00891, Methyltransf_2, O-methyltransferase. This family
includes a range of O-methyltransferases. These enzymes
utilise S-adenosyl methionine.
Length = 239
Score = 28.4 bits (64), Expect = 4.3
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 256 KILNNLWKMLKPGGKLLFVTCSL 278
KIL ++ L PGGK++ V L
Sbjct: 179 KILKRCYEALPPGGKVIVVEMVL 201
>gnl|CDD|232819 TIGR00087, surE, 5'/3'-nucleotidase SurE. This protein family
originally was named SurE because of its role in
stationary phase survivalin Escherichia coli. In E.
coli, surE is next to pcm, an L-isoaspartyl protein
repair methyltransferase that is also required for
stationary phase survival. Recent work (PMID:15489502)
shows that viewing SurE as an acid phosphatase (3.1.3.2)
is not accurate. Rather, SurE in E. coli, Thermotoga
maritima, and Pyrobaculum aerophilum acts strictly on
nucleoside 5'- and 3'-monophosphates. E. coli SurE is
Recommended cutoffs are 15 for homology, 40 for probable
orthology, and 200 for orthology with full-length
homology [Cellular processes, Adaptations to atypical
conditions].
Length = 244
Score = 28.5 bits (64), Expect = 4.5
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 251 SKYSCKILNNLWKMLKPGGKLLFVTCSLW 279
+K + I+ NL K PGG LL V L
Sbjct: 146 AKVTNAIVKNLLKNGLPGGDLLNVNVPLV 174
>gnl|CDD|224017 COG1092, COG1092, Predicted SAM-dependent methyltransferases
[General function prediction only].
Length = 393
Score = 28.8 bits (65), Expect = 4.6
Identities = 12/48 (25%), Positives = 19/48 (39%)
Query: 242 RRKNDIKKLSKYSCKILNNLWKMLKPGGKLLFVTCSLWFEESEEQAII 289
R K + + + ++L PGG L+ +CS F II
Sbjct: 303 RSKKQEFSAQRDYKDLNDLALRLLAPGGTLVTSSCSRHFSSDLFLEII 350
>gnl|CDD|177970 PLN02336, PLN02336, phosphoethanolamine N-methyltransferase.
Length = 475
Score = 28.2 bits (63), Expect = 6.2
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 128 LDIRSGMYVLDACSAPGGKTCHLLEIADIKLISVDNNLSRLNMISENLKR 177
LD++ G VLD GG ++ E D+ ++ +D LS +NMIS L+R
Sbjct: 262 LDLKPGQKVLDVGCGIGGGDFYMAENFDVHVVGID--LS-VNMISFALER 308
>gnl|CDD|225443 COG2890, HemK, Methylase of polypeptide chain release factors
[Translation, ribosomal structure and biogenesis].
Length = 280
Score = 28.1 bits (63), Expect = 6.5
Identities = 34/184 (18%), Positives = 60/184 (32%), Gaps = 56/184 (30%)
Query: 171 ISENLKRLNLKATLILSDIS-------KINLKKL-YIDINKKTNNRFRFYKNKYFDRILA 222
I+ L + A +I DIS + N ++ + + ++ F + K FD I++
Sbjct: 124 IAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPLRGK-FDLIVS 182
Query: 223 DLPCTGSGVVRRNPDIPWLRRKNDIKK------------------LSKYSCKILNNLWKM 264
NP P++ ++ L Y +IL +
Sbjct: 183 ------------NP--PYIPAEDPELLPEVVRYEPLLALVGGGDGLEVYR-RILGEAPDI 227
Query: 265 LKPGGKLLFVTCSLWFEESEEQAIIFSKNHKDSIRLNSPGQLLPTVNKKQDYDGFFYSLF 324
LKPGG L+ L E+ + +F I V +D G +
Sbjct: 228 LKPGGVLILE-IGLTQGEAVKA--LFEDTGFFEI-----------VETLKDLFGRDRVVL 273
Query: 325 QKRK 328
K +
Sbjct: 274 AKLR 277
>gnl|CDD|225139 COG2230, Cfa, Cyclopropane fatty acid synthase and related
methyltransferases [Cell envelope biogenesis, outer
membrane].
Length = 283
Score = 28.0 bits (63), Expect = 6.7
Identities = 17/76 (22%), Positives = 29/76 (38%), Gaps = 4/76 (5%)
Query: 117 QDAAAQLAAPLLDIRSGMYVLD-ACSAPGGKTCHLLEIADIKLISVDNNLSRLNMISENL 175
Q A L L ++ GM +LD C GG + E + ++ V + +L + +
Sbjct: 57 QRAKLDLILEKLGLKPGMTLLDIGCGW-GGLAIYAAEEYGVTVVGVTLSEEQLAYAEKRI 115
Query: 176 KRLNL--KATLILSDI 189
L + L D
Sbjct: 116 AARGLEDNVEVRLQDY 131
>gnl|CDD|215611 PLN03167, PLN03167, Chaperonin-60 beta subunit; Provisional.
Length = 600
Score = 28.0 bits (62), Expect = 7.5
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 152 EIADIKLISVDNNLSRLNMISENLKRLNLKATLILSD 188
E+AD+ +S NN NMI+E + ++ K + L +
Sbjct: 197 ELADVAAVSAGNNYEVGNMIAEAMSKVGRKGVVTLEE 233
>gnl|CDD|223048 PHA03333, PHA03333, putative ATPase subunit of terminase;
Provisional.
Length = 752
Score = 27.8 bits (62), Expect = 8.6
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 212 YKNKYFDRILADLPCTGSGVVRRNPDIPWLRRKNDIKKLSKYSCK 256
YK+K D + P VV NP+ P R +I ++ K
Sbjct: 147 YKHKLLDLLGLASP----DVVAFNPEAPSPRTLREIDRIFDEYGK 187
>gnl|CDD|180320 PRK05948, PRK05948, precorrin-2 methyltransferase; Provisional.
Length = 238
Score = 27.7 bits (62), Expect = 8.7
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 10/50 (20%)
Query: 95 IKLHTPISISKIPKFFNGFCSIQDAAAQLAAPL------LDIRSGMYVLD 138
+L+ ++I IP G CS AAA L PL L I +Y L+
Sbjct: 117 QELYPQVAIQTIP----GVCSPLAAAAALGIPLTLGSQRLAILPALYHLE 162
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
0.322 0.139 0.423
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,980,093
Number of extensions: 1638217
Number of successful extensions: 1699
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1661
Number of HSP's successfully gapped: 69
Length of query: 329
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 232
Effective length of database: 6,635,264
Effective search space: 1539381248
Effective search space used: 1539381248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.6 bits)