# hmmsearch :: search profile(s) against a sequence database
# HMMER 3.1b2 (February 2015); http://hmmer.org/
# Copyright (C) 2015 Howard Hughes Medical Institute.
# Freely distributed under the GNU General Public License (GPLv3).
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query HMM file: pfam_list/SpoU_methylase.hmm.txt
# target sequence database: proteomes/Dictyostelium_discoideum.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: SpoU_methylase [M=142]
Accession: PF00588.18
Description: SpoU rRNA Methylase family
Scores for complete sequences (score includes all domains):
--- full sequence --- --- best 1 domain --- -#dom-
E-value score bias E-value score bias exp N Sequence Description
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
6.7e-30 103.6 0.0 1.1e-29 102.9 0.0 1.4 1 sp|Q76NT0|MRM1_DICDI rRNA methyltransferase 1, mitochondri
4.7e-27 94.4 0.2 2.7e-24 85.5 0.2 2.2 1 tr|Q55BF9|Q55BF9_DICDI Uncharacterized protein OS=Dictyostel
1.4e-26 92.8 0.1 5e-26 91.1 0.0 2.0 2 tr|Q54XF8|Q54XF8_DICDI tRNA/rRNA methyltransferase SpoU fami
1.7e-25 89.3 0.0 4.6e-25 88.0 0.0 1.8 1 tr|Q54N52|Q54N52_DICDI Uncharacterized protein OS=Dictyostel
2.6e-25 88.7 0.0 5.1e-25 87.8 0.0 1.5 1 tr|Q552S2|Q552S2_DICDI Uncharacterized protein OS=Dictyostel
1.2e-16 60.7 0.0 3.3e-16 59.3 0.0 1.7 1 tr|Q557D9|Q557D9_DICDI Uncharacterized protein OS=Dictyostel
Domain annotation for each sequence (and alignments):
>> sp|Q76NT0|MRM1_DICDI rRNA methyltransferase 1, mitochondrial OS=Dictyostelium discoideum OX=44689 GN=mrm1 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 102.9 0.0 5.3e-33 1.1e-29 2 141 .. 374 520 .. 373 521 .. 0.90
Alignments for each domain:
== domain 1 score: 102.9 bits; conditional E-value: 5.3e-33
EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEEST...T-SE CS
SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatsl...kgks 87
l +vl+e+ dp+N+Gai+R ++ f+++++v+++++s +++p a ++++ga e + + + +s+e +lk +++g+++v+tsl ++++
sp|Q76NT0|MRM1_DICDI 374 LWLVLDELWDPQNVGAIIRNCSFFNIDGVVISNKNSS-PITPAASKSSSGACESFVINRTESIEGFLKSSQRNGWNVVGTSLddlNENQ 461
679****************************997775.******************************************996553332 PP
GC....CSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE---.-TTSSS--HHHHHHHHH CS
SpoU_methylase 88 ls....eidlkekvalvfGnEdkGlsnelleladrlvkIpm.sgeveSLNvavAvaill 141
+ +i+l+++++l++GnE+ Gl++++le +++++kI + +++SLNv+v+ +il+
sp|Q76NT0|MRM1_DICDI 462 PCldinQIKLDQPTILILGNEGFGLKPSVLEICNKTIKIVGgNYKIDSLNVSVTSGILI 520
22445477999****************************9978999***********97 PP
>> tr|Q55BF9|Q55BF9_DICDI Uncharacterized protein OS=Dictyostelium discoideum OX=44689 GN=DDB0216794 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 85.5 0.2 1.3e-27 2.7e-24 2 141 .. 55 258 .. 54 259 .. 0.86
Alignments for each domain:
== domain 1 score: 85.5 bits; conditional E-value: 1.3e-27
EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSC.TCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEESTT-SE CS
SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsa.dllnpeakraaagalevlelkvvdsleealkelkeegfalvatslkgks 87
+i+v++++++pgN+ a++R+a+a g+++l+l+++ ++ d + ++ r+++g+ +++ + ++ s+ +++++lke+g+ ++a +l+++
tr|Q55BF9|Q55BF9_DICDI 55 FIIVCENLDNPGNFAAVVRSADAIGIQNLCLINEGGNlDSNFEKYDRVSLGSGKWVTVNKYYSTTKCIEKLKEQGYSIWASDLSATA 141
68*******************************976636666789**************************************9998 PP
GC..CS..................HHH............................................TTEEEEEEBTTTBS-H CS
SpoU_methylase 88 ls..ei..................dlk............................................ekvalvfGnEdkGlsn 110
++ ++ k ek+alvfGnE++G+s+
tr|Q55BF9|Q55BF9_DICDI 142 FQfdQLifqpnkltpqlsyflsesI-KnvnslnnnnqeeeeliknlainelynnnnkivnnnnnknfirndEKIALVFGNESNGISE 227
8876444555555666666665550.155555566666677778888888888999999999999999******************* PP
HHHCTSSEEEE----TTSSS--HHHHHHHHH CS
SpoU_methylase 111 elleladrlvkIpmsgeveSLNvavAvaill 141
+++l dr ++pm g veS+N++v+va+ l
tr|Q55BF9|Q55BF9_DICDI 228 LMRSLSDRRFYLPMVGFVESFNISVSVAMTL 258
****************************976 PP
>> tr|Q54XF8|Q54XF8_DICDI tRNA/rRNA methyltransferase SpoU family protein OS=Dictyostelium discoideum OX=44689 GN=DG203
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -4.0 0.0 5.1 1.1e+04 39 77 .. 748 787 .. 739 792 .. 0.73
2 ! 91.1 0.0 2.3e-29 5e-26 4 141 .. 1526 1665 .. 1523 1666 .. 0.92
Alignments for each domain:
== domain 1 score: -4.0 bits; conditional E-value: 5.1
TCGSHHHHHHCTTHHHHHH.EEEESSHHHHHHHHCCCTEE CS
SpoU_methylase 39 dllnpeakraaagalevle.lkvvdsleealkelkeegfa 77
+++n++++ + +++++++ +k+++s+ +++k++++++ +
tr|Q54XF8|Q54XF8_DICDI 748 NINNNQTILSKEDSEKIIDhFKTMESIIRIIKKFNNTNQK 787
4677778888888888888888888888888888877655 PP
== domain 2 score: 91.1 bits; conditional E-value: 2.3e-29
EEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEE..SSHHHHHHHHCCCTEEEEEEST..T CS
SpoU_methylase 4 vvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvv..dsleealkelkeegfalvatsl..k 84
v + ie+ N+ ++Rt+++f+++e+ + +++ l +p+++r++++a+++++ +v ++l ++lk k++g+ ++++++ +
tr|Q54XF8|Q54XF8_DICDI 1526 VCGTLIENTPNIAGLIRTCEIFNVEEVAIPNNKL--LSDPQFQRVSVSAEKWVPTIEVtkPNLLDYLKLKKKQGYSILGVEQtsQ 1608
555679999********************88444..7*****************55554679******************99889 PP
-SEGCCSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHH CS
SpoU_methylase 85 gkslseidlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvaill 141
+k+ls +++++k++l++G+E++G++ e l+ +d+ v+I + g+++SLNv+v+ +i++
tr|Q54XF8|Q54XF8_DICDI 1609 SKRLSSFQFPNKCLLLLGQEQNGIPAEYLSIIDYAVEIEQLGQIRSLNVHVSGSIVI 1665
99999**************************************************98 PP
>> tr|Q54N52|Q54N52_DICDI Uncharacterized protein OS=Dictyostelium discoideum OX=44689 GN=DDB0186533 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 88.0 0.0 2.1e-28 4.6e-25 2 141 .. 1526 1667 .. 1525 1668 .. 0.92
Alignments for each domain:
== domain 1 score: 88.0 bits; conditional E-value: 2.1e-28
EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEE..SSHHHHHHHHCCCTEEEEEESTT CS
SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvv..dsleealkelkeegfalvatslk 84
+i+v i++ Nl +aRt+++f++++lv+++ + +n+e++++++ a+++l++++v ++l+++l k +g+ l+++++
tr|Q54N52|Q54N52_DICDI 1526 IIIVASFIDKIPNLAGLARTCEIFNIECLVVSD-LKI-RDNKEFQNITVTAEKWLPMEEVaeNDLKQYLLLKKSQGYSLLGVEQT 1608
68999999******************9999977.444.7*****************99997789********************6 PP
-SEGC..CSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHH CS
SpoU_methylase 85 gksls..eidlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvaill 141
++s+ ++++++k +lv+G+E++G+++e+++l+d++++Ip+ g ++SLNv+v+ ++++
tr|Q54N52|Q54N52_DICDI 1609 SSSVLlnKFEFPQKSVLVLGKEKEGIPTEFINLLDKCIEIPQLGIIRSLNVHVSGSLMI 1667
666666699**********************************************9997 PP
>> tr|Q552S2|Q552S2_DICDI Uncharacterized protein OS=Dictyostelium discoideum OX=44689 GN=DDB0217723 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 87.8 0.0 2.4e-28 5.1e-25 2 141 .. 507 682 .. 506 683 .. 0.83
Alignments for each domain:
== domain 1 score: 87.8 bits; conditional E-value: 2.4e-28
EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESG.....SSCTCGSHHHHHHCTTHHHHHHEEEE...SSHHHHHHHHCCCTEEEEE CS
SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkp.....rsadllnpeakraaagalevlelkvv...dsleealkelkeegfalva 80
++++l++ie+p+N+Gai+R+a fg++ +++v++ s ++++ e +r++ ga e+ ++ + + +e+l+e+ e+g+++v+
tr|Q552S2|Q552S2_DICDI 507 VVLLLDGIENPQNIGAIIRSAVLFGVESVIFVNEfdkktGSINPYSAESYRSSRGAVEYCNISQLylrRDAAEVLDEFVENGWEVVT 593
7899****************************987665567789**************99865544559****************99 PP
ESTT-SEGCCS......HHH......................TTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHH CS
SpoU_methylase 81 tslkgkslsei......dlk......................ekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvai 139
t +++ +++ ++k ++++lv+G+E+kG+s+ + ++ + ++Ip g +eSLNv++A +i
tr|Q552S2|Q552S2_DICDI 594 TASNKLIDDNAdngiveQFKplksltknislysdesnrvlglKPIVLVLGSETKGISRTISKKSTVSISIPGTGLIESLNVSQASSI 680
977333222223334552224445556667778888999************************************************ PP
HH CS
SpoU_methylase 140 ll 141
+l
tr|Q552S2|Q552S2_DICDI 681 IL 682
97 PP
>> tr|Q557D9|Q557D9_DICDI Uncharacterized protein OS=Dictyostelium discoideum OX=44689 GN=DDB0168154 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 59.3 0.0 1.5e-19 3.3e-16 2 118 .. 159 301 .. 158 305 .. 0.85
Alignments for each domain:
== domain 1 score: 59.3 bits; conditional E-value: 1.5e-19
EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEESTT-SEG CS
SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvatslkgksl 88
l v+l++ ++ +N+G+++Rt + +g+++++l++ + ++ n+++ ++++g+++ +++ v ++ ++k+lke +++++++++ +s+
tr|Q557D9|Q557D9_DICDI 159 LSVLLEDCRSLHNVGSVFRTSDGAGFNHIYLCGLTG-HPPNDQISKLSLGSEDMVNWSVSNDSIGVIKKLKELNVKIIGIEQTPNSV 244
67999****************************666.59*******************************************77777 PP
C......CS.........HHH.............TTEEEEEEBTTTBS-HHHHCTSSE CS
SpoU_methylase 89 s......ei.........dlk.............ekvalvfGnEdkGlsnelleladr 118
s +i + ++a+++GnE +G+s+e++el+d
tr|Q557D9|Q557D9_DICDI 245 SllnsidKIknlalisssL-EnnnntnnnneeeyHPIAIIMGNEIAGMSDEAIELCDL 301
7556443226566665540.15566667777888**********************95 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (142 nodes)
Target sequences: 12739 (6856946 residues searched)
Passed MSV filter: 359 (0.0281812); expected 254.8 (0.02)
Passed bias filter: 197 (0.0154643); expected 254.8 (0.02)
Passed Vit filter: 17 (0.00133448); expected 12.7 (0.001)
Passed Fwd filter: 6 (0.000470995); expected 0.1 (1e-05)
Initial search space (Z): 12739 [actual number of targets]
Domain search space (domZ): 6 [number of targets reported over threshold]
# CPU time: 0.09u 0.00s 00:00:00.09 Elapsed: 00:00:00.04
# Mc/sec: 24342.16
//
[ok]