# 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/RrnaAD.hmm.txt
# target sequence database: proteomes/Ciona_savignyi.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: RrnaAD [M=265]
Accession: PF00398.19
Description: Ribosomal RNA adenine dimethylase
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.6e-61 207.1 0.0 2.1e-61 206.7 0.0 1.1 1 tr|H2ZDH2|H2ZDH2_CIOSA rRNA adenine N(6)-methyltransferase O
2.4e-39 134.4 0.0 3.1e-39 134.0 0.0 1.1 1 tr|H2YRF1|H2YRF1_CIOSA rRNA adenine N(6)-methyltransferase O
------ inclusion threshold ------
0.018 13.5 0.0 0.038 12.4 0.0 1.5 1 tr|H2Z161|H2Z161_CIOSA Uncharacterized protein OS=Ciona savi
0.11 11.0 0.0 30 2.9 0.0 2.9 3 tr|H2Y7Q7|H2Y7Q7_CIOSA Uncharacterized protein OS=Ciona savi
Domain annotation for each sequence (and alignments):
>> tr|H2ZDH2|H2ZDH2_CIOSA rRNA adenine N(6)-methyltransferase OS=Ciona savignyi OX=51511 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 206.7 0.0 7.4e-65 2.1e-61 4 227 .. 25 240 .. 23 261 .. 0.95
Alignments for each domain:
== domain 1 score: 206.7 bits; conditional E-value: 7.4e-65
CXXGCG--EE--HHHHHHHHHHH-GGTTSEEEEES-TTTCCHHHHHCC-SEEEEE-S-HHHHHHHHCHTT...TCCCEEEE-S-CCG CS
RrnaAD 4 lrksygqnflknkkvineIldklnleekltvleigpGkGilTeeLakrakqvvvlElderLakllqkkls...kdeklkvvhqDflk 87
+++ gq++lkn+ +in+ ++k+ l+ ++tvleigpG+G++T ++++ +++vv+ E+d+r++++lqk++s ++kl ++ D+lk
tr|H2ZDH2|H2ZDH2_CIOSA 25 FNTGVGQHILKNPLIINSMVEKAALKTTDTVLEIGPGTGNMTIKILEKVNKVVACEIDPRMSAELQKRVSgtpMQRKLHLMVGDVLK 111
68889*****************************************************************99999************ PP
HHHHHHHCTTTCCCCEEEEEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH--TTSTT-SHHHHHHHHHEEEEEEEEC- CS
RrnaAD 88 fetpeevtekdsihqeflvvanlPyeistqlvkqlleesrfglvkmllwlqkefarrllarpgskkrsrlsvlreaftdvklvakve 174
+ + +vanlPy+is+++v++ll ++r+ ++ ++l++q+efa+rl+a+pg+k+++rls+++++++ v l++kv+
tr|H2ZDH2|H2ZDH2_CIOSA 112 LDSLPFF---------NVCVANLPYQISSPIVFKLL-LHRPLFRCAILMFQREFAQRLVAKPGEKLYCRLSINTQLLARVDLIMKVG 188
**99966.........49******************.899999******************************************** PP
GGCECS--SSSEEEEEEEE-SS-S--S-HHHHHHHHHHHHCTTTSBCCCHCCC CS
RrnaAD 175 ksifsPppkvdsalvelerkdedlpqkdlkkyesvvrkllnrkrktlstslks 227
k++f+Pppkv+s++v++e+++++ p + +++ +vr+++ rk+ktls+ + +
tr|H2ZDH2|H2ZDH2_CIOSA 189 KNNFRPPPKVESSVVRIEPRNPP-PPINFTEWDGLVRIAFMRKNKTLSAIFRT 240
**********************8.899*********************98765 PP
>> tr|H2YRF1|H2YRF1_CIOSA rRNA adenine N(6)-methyltransferase OS=Ciona savignyi OX=51511 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 134.0 0.0 1.1e-42 3.1e-39 2 239 .. 40 292 .. 39 304 .. 0.91
Alignments for each domain:
== domain 1 score: 134.0 bits; conditional E-value: 1.1e-42
GCCXXGCG--EE--HHHHHHHHHHH-GG.TTSEEEEES-TTTCCHHHHHCC-.SEEEEE-S-HHHHHHHHCHTT.TCCCEEEE-S-C CS
RrnaAD 2 nklrksygqnflknkkvineIldklnle.ekltvleigpGkGilTeeLakra.kqvvvlElderLakllqkkls.kdeklkvvhqDf 85
++rk+++qnfl ++ + ++ + v e+gpG+G T+ +++r ++++v+E+d r++ +l+ +d +l++vh D+
tr|H2YRF1|H2YRF1_CIOSA 40 LRARKQLSQNFLLDPMITDRFVACGGKDlSGHHVCEVGPGPGSITRAILNRNpEKLTVVEKDHRFLPMLKYLADvSDDRLQIVHGDI 126
578*****************998766556899********************9*****************966699*********** PP
CGHHHHHHHCT.....TTCCCCEEEEEEE--TTTHHHHHHHHHH.......GGGGCEEEEEEEEEHHHHHHHH--TTSTT-SHHHHH CS
RrnaAD 86 lkfetpeevte.....kdsihqeflvvanlPyeistqlvkqlle.......esrfglvkmllwlqkefarrllarpgskkrsrlsvl 160
l++++ e + +f v++nlP ++s +l++++l+ + + g+ +l +q+e+++r +a+pg+ +r+rlsv
tr|H2YRF1|H2YRF1_CIOSA 127 LQYDLSDSFPEelskeWTDDSPPFCVFGNLPFNVSLPLIFKWLDqisrkdgMFKRGRIPLVLTFQREVVERFVAPPGDAQRCRLSVS 213
***97776655566566677889*************************988667778889999************************ PP
HHHHEEEEEEEEC-GGCECS--SSSEEEEEEEE-SS-S.--S-HHHHHHHHHHHHCTTTSBCCCHCCCTSTCHHHHHCTT CS
RrnaAD 161 reaftdvklvakveksifsPppkvdsalvelerkdedl.pqkdlkkyesvvrkllnrkrktlstslksllpggelqalss 239
++ f+d+ ++ +f Pppkv+ +v++ +++ + ++ k ++vv++ + +rk + s k+++p ++++++s+
tr|H2YRF1|H2YRF1_CIOSA 214 AQNFCDIDYKFIISGGSFVPPPKVEVGVVKIVPRTS-FeIELPFKTIDYVVKHTMHIRRKYCKHSVKTMFPPKRTDLVSE 292
********999999999*****************99.778999******************************9998864 PP
>> tr|H2Z161|H2Z161_CIOSA Uncharacterized protein OS=Ciona savignyi OX=51511 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 12.4 0.0 1.3e-05 0.038 18 94 .. 141 221 .. 127 257 .. 0.79
Alignments for each domain:
== domain 1 score: 12.4 bits; conditional E-value: 1.3e-05
HHHHHHHHH-GG.TTSEEEEES-TTTCCHHHHHCC-.SEEEEE-S-HHHHHHHHCHTT...TCCCEEEE-S-CCGHHHHHHH CS
RrnaAD 18 vineIldklnle.ekltvleigpGkGilTeeLakra.kqvvvlElderLakllqkkls...kdeklkvvhqDflkfetpeev 94
++++++ + +++ ++ vl++g+G Gil+ ++ ++v ++E + +a++++k +s ++++ v+ + + +pe+v
tr|H2Z161|H2Z161_CIOSA 141 TYQKAMLQNYINfRDKVVLDVGAGSGILSFFAMQAGaRKVYAVEA-STMAEHTKKLVScsqYAGRISVIPGKIEDITLPEKV 221
56666666666678899***********975544336*******8.78*******999887788999998877777777765 PP
>> tr|H2Y7Q7|H2Y7Q7_CIOSA Uncharacterized protein OS=Ciona savignyi OX=51511 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 1.1 0.0 0.038 1.1e+02 106 156 .. 3 53 .. 2 62 .. 0.86
2 ? 2.9 0.0 0.01 30 104 147 .. 136 178 .. 117 220 .. 0.80
3 ? 2.7 0.0 0.012 34 40 88 .. 287 337 .. 285 345 .. 0.84
Alignments for each domain:
== domain 1 score: 1.1 bits; conditional E-value: 0.038
EEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH--TTSTT-SH CS
RrnaAD 106 vvanlPyeistqlvkqlleesrfglvkmllwlqkefarrllarpgskkrsr 156
+v n+Pye q +k l+ e+ + ++ l +q ++ r + +k++ +
tr|H2Y7Q7|H2Y7Q7_CIOSA 3 FVNNIPYEEKWQAIKDLFREKVGEVTYVELFMQDKVKSRGYGVIEFKDKET 53
799********************999********99998877777766655 PP
== domain 2 score: 2.9 bits; conditional E-value: 0.01
EEEEEE--TTTHHHHHHHHHHGGGGCEEEEEEEEEHHHHHHHH- CS
RrnaAD 104 flvvanlPyeistqlvkqlleesrfglvkmllwlqkefarrlla 147
+vanl y+++ vk ++++ +vk+ l+l+k r +a
tr|H2Y7Q7|H2Y7Q7_CIOSA 136 TVFVANLDYKVTYSKVKEVFQLAGK-VVKVDLMLDKDNKSRGMA 178
579*****************97766.6999****9987777665 PP
== domain 3 score: 2.7 bits; conditional E-value: 0.012
TTTCCHHHH.HCC-..SEEEEE-S-HHHHHHHHCHTTTCCCEEEE-S-CCGH CS
RrnaAD 40 GkGilTeeL.akra..kqvvvlElderLakllqkklskdeklkvvhqDflkf 88
G l+++L ++r +q v+ E+++rL++ + l++ ++++ +++l+
tr|H2Y7Q7|H2Y7Q7_CIOSA 287 GISDLSKQLgLNRDsyDQRVLQEQRSRLIAASRG-LTERDRIEINDNNPLQS 337
67778888876665579****************9.88899***999999885 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (265 nodes)
Target sequences: 11592 (4231397 residues searched)
Passed MSV filter: 378 (0.0326087); expected 231.8 (0.02)
Passed bias filter: 220 (0.0189786); expected 231.8 (0.02)
Passed Vit filter: 21 (0.00181159); expected 11.6 (0.001)
Passed Fwd filter: 4 (0.000345066); expected 0.1 (1e-05)
Initial search space (Z): 11592 [actual number of targets]
Domain search space (domZ): 4 [number of targets reported over threshold]
# CPU time: 0.09u 0.00s 00:00:00.09 Elapsed: 00:00:00.03
# Mc/sec: 37377.34
//
[ok]