# 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/TYW3.hmm.txt
# target sequence database: proteomes/Homo_sapiens.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: TYW3 [M=214]
Accession: PF02676.13
Description: Methyltransferase TYW3
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.2e-55 190.5 0.3 2.1e-55 189.6 0.3 1.4 1 sp|Q6IPR3|TYW3_HUMAN tRNA wybutosine-synthesizing protein
2.4e-41 143.7 0.3 5.6e-22 80.4 0.1 2.2 2 sp|Q6IPR3-2|TYW3_HUMAN Isoform 2 of tRNA wybutosine-synthesi
1.5e-28 101.9 0.4 1.3e-13 53.1 0.0 2.2 2 tr|B4DFU6|B4DFU6_HUMAN cDNA FLJ50478 OS=Homo sapiens GN=TYW3
------ inclusion threshold ------
0.032 15.8 0.1 0.11 14.1 0.1 1.7 1 tr|E5RIY1|E5RIY1_HUMAN Serine/threonine-protein phosphatase
0.1 14.2 0.1 0.16 13.6 0.1 1.3 1 sp|Q8N7H5-2|PAF1_HUMAN Isoform 2 of RNA polymerase II-associ
0.11 14.1 0.1 0.17 13.4 0.1 1.2 1 tr|F8W9Q2|F8W9Q2_HUMAN Peroxisome biogenesis factor 2 OS=Hom
0.12 13.9 0.1 0.19 13.3 0.1 1.2 1 tr|M0QX35|M0QX35_HUMAN Paf1, RNA polymerase II associated fa
Domain annotation for each sequence (and alignments):
>> sp|Q6IPR3|TYW3_HUMAN tRNA wybutosine-synthesizing protein 3 homolog OS=Homo sapiens GN=TYW3 PE=2 SV=2
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 189.6 0.3 1.7e-59 2.1e-55 3 213 .. 11 193 .. 9 194 .. 0.94
Alignments for each domain:
== domain 1 score: 189.6 bits; conditional E-value: 1.7e-59
HHHHHHHH....HHHHHCCHC-GGGHHHHHHHHC-SSEEEEEEES-EEEEE............EESSTT-STT-EEEEEESS---HHHH CS
TYW3 3 KakiLeeLsvpdtdkspkGsvDekirelideinsledlvTtSSCsGRvsvflegrksaeaeekaaksggkkgggkwlfvsHdpvkeeel 91
Ka++L++ d+s+kGsvDe+++el++ +n +++++TtSSC+GR+ ++ ++ + + +k+++ wl+v+H+ + ++++
sp|Q6IPR3|TYW3_HUMAN 11 KAQCLSK-----ADLSRKGSVDEDVVELVQFLNMRDQFFTTSSCAGRILLL---------DRGINGFEVQKQNCCWLLVTHKLCVKDDV 85
6777776.....6**************************************.........6778889999999**************** PP
HHHHCS--..............SSEEEEEEE--EEEEEESSHHHHHHHHHHHHHCT-TT-EEEEECTTEEEEEEE---EEEEEEESST. CS
TYW3 92 laelegleeeeesaksseseeeerlivfkfePmILhvlcrslehAqkllsaAlsaGfreSGivslkkkkvivairsglklevpigrkk. 179
+ +l++ + + ++kfeP++Lhv+cr+l++Aq l+s+A+++Gfr+SGi+ k++k ++a+rs+++levp+++k
sp|Q6IPR3|TYW3_HUMAN 86 IVALKKAN---------------GDATLKFEPFVLHVQCRQLQDAQILHSMAIDSGFRNSGITVGKRGKTMLAVRSTHGLEVPLSHKGk 159
*****994...............6789**********************************************************5555 PP
S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHC- CS
TYW3 180 llvseeylkllvklanerfeenkkrierfeealk 213
l+v+eey+++l+++an+++eenkkrierf++ l+
sp|Q6IPR3|TYW3_HUMAN 160 LMVTEEYIDFLLNVANQKMEENKKRIERFYNCLQ 193
******************************9987 PP
>> sp|Q6IPR3-2|TYW3_HUMAN Isoform 2 of tRNA wybutosine-synthesizing protein 3 homolog OS=Homo sapiens GN=TYW3
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 62.7 0.0 1.2e-20 1.5e-16 3 90 .. 11 84 .. 9 87 .. 0.89
2 ! 80.4 0.1 4.5e-26 5.6e-22 138 213 .. 84 160 .. 82 161 .. 0.95
Alignments for each domain:
== domain 1 score: 62.7 bits; conditional E-value: 1.2e-20
HHHHHHHH....HHHHHCCHC-GGGHHHHHHHHC-SSEEEEEEES-EEEEE............EESSTT-STT-EEEEEESS---HHH CS
TYW3 3 KakiLeeLsvpdtdkspkGsvDekirelideinsledlvTtSSCsGRvsvflegrksaeaeekaaksggkkgggkwlfvsHdpvkeee 90
Ka++L++ d+s+kGsvDe+++el++ +n +++++TtSSC+GR+ ++ ++ + + +k+++ wl+v+H+ + +++
sp|Q6IPR3-2|TYW3_HUMAN 11 KAQCLSK-----ADLSRKGSVDEDVVELVQFLNMRDQFFTTSSCAGRILLL---------DRGINGFEVQKQNCCWLLVTHKLCVKDD 84
6777776.....6**************************************.........6778889999999********9986665 PP
== domain 2 score: 80.4 bits; conditional E-value: 4.5e-26
HHHHHHHHCT-TT-EEEEECTTEEEEEEE---EEEEEEESST.S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHC- CS
TYW3 138 kllsaAlsaGfreSGivslkkkkvivairsglklevpigrkk.llvseeylkllvklanerfeenkkrierfeealk 213
+++s+A+++Gfr+SGi+ k++k ++a+rs+++levp+++k l+v+eey+++l+++an+++eenkkrierf++ l+
sp|Q6IPR3-2|TYW3_HUMAN 84 DVHSMAIDSGFRNSGITVGKRGKTMLAVRSTHGLEVPLSHKGkLMVTEEYIDFLLNVANQKMEENKKRIERFYNCLQ 160
6899***********************************5555******************************9987 PP
>> tr|B4DFU6|B4DFU6_HUMAN cDNA FLJ50478 OS=Homo sapiens GN=TYW3 PE=2 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 53.1 0.0 1e-17 1.3e-13 3 53 .. 11 56 .. 9 59 .. 0.90
2 ! 47.2 0.1 6.3e-16 8e-12 164 213 .. 59 109 .. 58 110 .. 0.93
Alignments for each domain:
== domain 1 score: 53.1 bits; conditional E-value: 1e-17
HHHHHHHH....HHHHHCCHC-GGGHHHHHHHHC-SSEEEEEEES-EEEEE CS
TYW3 3 KakiLeeLsvpdtdkspkGsvDekirelideinsledlvTtSSCsGRvsvf 53
Ka++L++ d+s+kGsvDe+++el++ +n +++++TtSSC+GR+ ++
tr|B4DFU6|B4DFU6_HUMAN 11 KAQCLSK-----ADLSRKGSVDEDVVELVQFLNMRDQFFTTSSCAGRILLL 56
6777777.....6***********************************987 PP
== domain 2 score: 47.2 bits; conditional E-value: 6.3e-16
EEE---EEEEEEESST.S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHC- CS
TYW3 164 airsglklevpigrkk.llvseeylkllvklanerfeenkkrierfeealk 213
a+rs+++levp+++k l+v+eey+++l+++an+++eenkkrierf++ l+
tr|B4DFU6|B4DFU6_HUMAN 59 AVRSTHGLEVPLSHKGkLMVTEEYIDFLLNVANQKMEENKKRIERFYNCLQ 109
79***********5555******************************9987 PP
>> tr|E5RIY1|E5RIY1_HUMAN Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alpha isoform OS=Homo sap
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 14.1 0.1 8.7e-06 0.11 19 94 .. 17 98 .. 9 122 .. 0.72
Alignments for each domain:
== domain 1 score: 14.1 bits; conditional E-value: 8.7e-06
HCCHC-GGGH..HHHHHH..HC-SSEEEEEEES-EEEEE............EESSTT-STT-EEEEEESS--.......-HHHHHHH CS
TYW3 19 pkGsvDekir..elidei..nsledlvTtSSCsGRvsvflegrksaeaeekaaksggkkgggkwlfvsHdpv.......keeellae 94
kG vD +++ ++i+++ n+ +l t GRv++f ++e+e+k ++++ + + f+sH+p + ee +++
tr|E5RIY1|E5RIY1_HUMAN 17 VKGAVDDDVAeaDIISTVefNHSGELLATGDKGGRVVIF-----QQEQENKIQSHSRGEYNVYSTFQSHEPEfdylkslEIEEKINK 98
5899999996336887543389999**************.....55666666666666677789******98777766544444444 PP
>> sp|Q8N7H5-2|PAF1_HUMAN Isoform 2 of RNA polymerase II-associated factor 1 homolog OS=Homo sapiens GN=PAF1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 13.6 0.1 1.2e-05 0.16 62 160 .. 299 419 .. 279 470 .. 0.66
Alignments for each domain:
== domain 1 score: 13.6 bits; conditional E-value: 1.2e-05
....EESSTT-STT-EEEEEESS---HHHHHHHHCS--........................SSEEEEEEE--EEEEEESSHHHHHH CS
TYW3 62 aeekaaksggkkgggkwlfvsHdpvkeeellaelegleeeeesaksseseee..........erlivfkfePmILhvlcrslehAqk 138
++++ak+g + g+ l+v+H+ ++e+el a+ ++ + e+++ ++e+eee + +++++ P + + A +
sp|Q8N7H5-2|PAF1_HUMAN 299 LSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKAQLENHEPEEEEEEEmeteekeaggSVMLILRTMPTLMMRTEDRPKVAVT 385
4567888888989999*********55555544444444433333333333345555689888899999999999888888999*** PP
HHHHHHHCT-TT-EEEEECTT.............E CS
TYW3 139 llsaAlsaGfreSGivslkkk.............k 160
++++A++ G SG+ + +
sp|Q8N7H5-2|PAF1_HUMAN 386 MIQTAAAMGV-ASGAGATAAApvpspvaastrprR 419
*****99997.456555444445555555554442 PP
>> tr|F8W9Q2|F8W9Q2_HUMAN Peroxisome biogenesis factor 2 OS=Homo sapiens GN=PAF1 PE=2 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 13.4 0.1 1.4e-05 0.17 62 157 .. 299 403 .. 279 451 .. 0.66
Alignments for each domain:
== domain 1 score: 13.4 bits; conditional E-value: 1.4e-05
....EESSTT-STT-EEEEEESS---HHHHHHHHCS--........................SSEEEEEEE--EEEEEESSHHHHHH CS
TYW3 62 aeekaaksggkkgggkwlfvsHdpvkeeellaelegleeeeesaksseseee..........erlivfkfePmILhvlcrslehAqk 138
++++ak+g + g+ l+v+H+ ++e+el a+ ++ + e+++ ++e+eee + +++++ P + + A +
tr|F8W9Q2|F8W9Q2_HUMAN 299 LSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKAQLENHEPEEEEEEEmeteekeaggSVMLILRTMPTLMMRTEDRPKVAVT 385
4567888888989999*********55555544444444433333333333345555689888899999999998888888999*** PP
HHHHHHHCT-TT-EEEEEC CS
TYW3 139 llsaAlsaGfreSGivslk 157
++++A++ G SG+ +
tr|F8W9Q2|F8W9Q2_HUMAN 386 MIQTAAAMGV-ASGAGATA 403
****999997.45555544 PP
>> tr|M0QX35|M0QX35_HUMAN Paf1, RNA polymerase II associated factor, homolog (S. cerevisiae), isoform CRA_c OS=Homo sap
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 13.3 0.1 1.5e-05 0.19 62 157 .. 322 426 .. 302 474 .. 0.66
Alignments for each domain:
== domain 1 score: 13.3 bits; conditional E-value: 1.5e-05
....EESSTT-STT-EEEEEESS---HHHHHHHHCS--........................SSEEEEEEE--EEEEEESSHHHHHH CS
TYW3 62 aeekaaksggkkgggkwlfvsHdpvkeeellaelegleeeeesaksseseee..........erlivfkfePmILhvlcrslehAqk 138
++++ak+g + g+ l+v+H+ ++e+el a+ ++ + e+++ ++e+eee + +++++ P + + A +
tr|M0QX35|M0QX35_HUMAN 322 LSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKAQLENHEPEEEEEEEmeteekeaggSVMLILRTMPTLMMRTEDRPKVAVT 408
4567888888989999*********55555544444444433333333333345555689888899999999998888888999*** PP
HHHHHHHCT-TT-EEEEEC CS
TYW3 139 llsaAlsaGfreSGivslk 157
++++A++ G SG+ +
tr|M0QX35|M0QX35_HUMAN 409 MIQTAAAMGV-ASGAGATA 426
****999997.45555544 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (214 nodes)
Target sequences: 88473 (35070517 residues searched)
Passed MSV filter: 2963 (0.0334904); expected 1769.5 (0.02)
Passed bias filter: 1737 (0.0196331); expected 1769.5 (0.02)
Passed Vit filter: 154 (0.00174064); expected 88.5 (0.001)
Passed Fwd filter: 16 (0.000180846); expected 0.9 (1e-05)
Initial search space (Z): 88473 [actual number of targets]
Domain search space (domZ): 7 [number of targets reported over threshold]
# CPU time: 0.63u 0.03s 00:00:00.66 Elapsed: 00:00:00.23
# Mc/sec: 32630.83
//
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