# hmmscan :: search sequence(s) against a profile 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 sequence file: AA/23726_FusoPortal_Gene_309.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_309 [L=285] Description: # 336189 # 337043 # 1 # ID=1_309;partial=00;start_type=ATG;rbs_motif=GGAG/GAGG;rbs_spacer=5-10bp;gc_cont=0.242 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.9e-16 60.8 0.1 3e-16 60.1 0.1 1.3 1 Radical_SAM Radical SAM superfamily 2.4e-06 27.6 0.5 2.4e-06 27.6 0.5 1.9 2 Fer4_14 4Fe-4S single cluster domain 0.00033 20.8 0.3 0.00033 20.8 0.3 1.9 2 Fer4_12 4Fe-4S single cluster domain ------ inclusion threshold ------ 0.14 12.2 9.3 0.21 11.6 9.3 1.3 1 LicD LicD family 0.19 10.3 3.3 0.27 9.8 3.3 1.3 1 UPF0242 Uncharacterised protein family (UPF0242) Domain annotation for each model (and alignments): >> Radical_SAM Radical SAM superfamily # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 60.1 0.1 9e-20 3e-16 2 164 .. 23 188 .. 22 194 .. 0.87 Alignments for each domain: == domain 1 score: 60.1 bits; conditional E-value: 9e-20 EEESEESS--TTTSCCTT.HHHHHHHHHHHHHHHHHHHHHHHHHTTSEEEEEE.SSTGGGSTTHHHHHHHHHHTCCCTEEEEEE CS xxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF Radical_SAM 2 vvtrgCnlrCsfCarpet.vrregrgrslsveeileevkelkaekgvkevilg.ggepllypdfvellerlaklavpgiritve 83 vv++ Cnl+C+fC ++ t + + +r+r+++++eil+e++++ ++ ++++++ +gep+l d+ + +++++ + + +i+++ 23726_FusoPortal_Gene_309 23 VVSKSCNLNCIFCECGATkKIQLERQRFKDMDEILNEIQSVLKNIKPDYITFSgSGEPTLSLDLGNISKAIKEDLKYKGKICLI 106 78999**************9*********************86666777776648******************99********* PP ECSSCH..HHHHHHHHHTT.-SEEEEEEBSSSHHHHHHHHT..CTSHHHHHHHHHHHHHHCTSET.EEEEEEEBTTTSHHHHHH CS xxxxxxx.xxxxxxxxxxx.xxxxxxxxxxxxxxxxxxxxx..xxxxxxxxxxxxxxxxxxxxxx.xxxxxxxxxxxxxxxxxx RF Radical_SAM 84 tngtlpd.eeklerllelg.vdrvslgleaaddekvlklmn..rghtfeevlealeklreagikr.vvdrivglpGendeelee 162 tn +l+ ++++l + +d + +l+++ + + k+++ + +++e+++++ +l++++ k +++ i++l++ nd+e e+ 23726_FusoPortal_Gene_309 107 TNSLLLAnNQVIKEL---EyIDLIVPTLNTLKQDIFEKIVRpdYRTSVDEIKKGFVNLNNSNYKGkIWIEIFILENINDSE-EN 186 *****9744444444...346*************99999998888999**************9999*************77.55 PP HH CS xx RF Radical_SAM 163 ll 164 ++ 23726_FusoPortal_Gene_309 187 FI 188 54 PP >> Fer4_14 4Fe-4S single cluster domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 27.6 0.5 7.2e-10 2.4e-06 6 107 .. 26 127 .. 22 137 .. 0.74 2 ? -1.4 0.3 0.71 2.4e+03 68 101 .. 241 274 .. 232 283 .. 0.58 Alignments for each domain: == domain 1 score: 27.6 bits; conditional E-value: 7.2e-10 Fer4_14 6 sgCnlsCkgCdnketwkselgkpqteelleqilk..dlkkseikiqglvltG.GePLhyenkkellklvkrlkeeypekkiwle 86 +Cnl+C +C +t+k +l+ + + ++++il+ + ++ik++ ++++G GeP + + ++ k +k+ + + ki l 23726_FusoPortal_Gene_309 26 KSCNLNCIFCECGATKKIQLERQRFK-DMDEILNeiQSVLKNIKPDYITFSGsGEPTLSLDLGNISKAIKEDLKYK--GKICLI 106 68*********777777776655444.44566663345568999*************9988888888887755544..79**** PP Fer4_14 87 tngtleielektpdlkeklea 107 tn +l + +++++l+++ + 23726_FusoPortal_Gene_309 107 TNSLLLANNQVIKELEYIDLI 127 **9999888877777665544 PP == domain 2 score: -1.4 bits; conditional E-value: 0.71 Fer4_14 68 lklvkrlkeeypekkiwletngtleielektpdl 101 ++++k l e +kki ++ + +++ ++ + 23726_FusoPortal_Gene_309 241 IEIIKSLNELDDNKKILINQELLDNMKQKRLYQE 274 5666666666667777777777766665543333 PP >> Fer4_12 4Fe-4S single cluster domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 20.8 0.3 9.9e-08 0.00033 13 115 .. 26 128 .. 15 136 .. 0.74 2 ? -1.9 0.1 1 3.5e+03 73 102 .. 241 269 .. 232 282 .. 0.55 Alignments for each domain: == domain 1 score: 20.8 bits; conditional E-value: 9.9e-08 Fer4_12 13 sgCnlsCkgCfnketwsfksg.keft..kelleeiiedlkkesiegltllG.GEPllpenaeallelvkevkeekp.ekdiwly 91 + Cnl+C C +t++ + + + f+ +e+l+ei + lk+ + + +t++G GEP l +l ++ k +ke +++i l 23726_FusoPortal_Gene_309 26 KSCNLNCIFCECGATKKIQLErQRFKdmDEILNEIQSVLKNIKPDYITFSGsGEPTL---SLDLGNISKAIKEDLKyKGKICLI 106 68*********999999985514454468999999999999999*************...677888888888876555555555 PP Fer4_12 92 tgytleelskkekeellkeidvlv 115 t + l + + ++ + l++id +v 23726_FusoPortal_Gene_309 107 TNSLLLANN--QVIKELEYIDLIV 128 555544443..2445577777665 PP == domain 2 score: -1.9 bits; conditional E-value: 1 Fer4_12 73 lelvkevkeekpekdiwlytgytleelskk 102 +e++k++ e +k +l + l+++++k 23726_FusoPortal_Gene_309 241 IEIIKSLNELDDNK-KILINQELLDNMKQK 269 56666666666643.444555555555544 PP >> LicD LicD family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.6 9.3 6.4e-05 0.21 90 201 .. 159 279 .. 108 283 .. 0.63 Alignments for each domain: == domain 1 score: 11.6 bits; conditional E-value: 6.4e-05 LicD 90 n.......dsglyiDIfpldyvpkskll...ikkkkekeklkkklalkkslskkdkkelkkkillkkksfklkklnkkkklkkl 163 + ++i If+l+++++s+++ i ++ e++++++++ +++ + ++++k i+ + k+fk kk+ ++++l ++ 23726_FusoPortal_Gene_309 159 VnlnnsnyKGKIWIEIFILENINDSEENfieIANFLNLENIRYDKIQLNTIDRVGAERDLKAIS-FDKIFKAKKILEENELHNI 241 2234466799**************9998655333333333444444436666666777776664.4455566666666666666 PP LicD 164 eklekkkeydlkkseyiavlksgklrnkeilpleelsp 201 e +++ +e d++k+ +i+ ++ ++k+ ++ ee+++ 23726_FusoPortal_Gene_309 242 EIIKSLNELDDNKKILINQELLDNMKQKRLYQEEEINK 279 66666656777777777776666667888888888765 PP >> UPF0242 Uncharacterised protein family (UPF0242) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 9.8 3.3 8.2e-05 0.27 137 181 .. 229 275 .. 177 282 .. 0.82 Alignments for each domain: == domain 1 score: 9.8 bits; conditional E-value: 8.2e-05 UPF0242 137 srrlkeenqqlqiqleaavre..rnekilenqellqelketlayqqe 181 ++++ een+ +i++ ++ e n+kil nqell+++k+ yq+e 23726_FusoPortal_Gene_309 229 AKKILEENELHNIEIIKSLNEldDNKKILINQELLDNMKQKRLYQEE 275 46777899988888888877633699******************987 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (285 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 978 (0.0585208); expected 334.2 (0.02) Passed bias filter: 341 (0.0204045); expected 334.2 (0.02) Passed Vit filter: 29 (0.00173528); expected 16.7 (0.001) Passed Fwd filter: 5 (0.000299186); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 0.25u 0.23s 00:00:00.48 Elapsed: 00:00:00.32 # Mc/sec: 2589.08 // [ok]