# 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/Gcd10p.hmm.txt # target sequence database: proteomes/Strongylocentrotus_purpuratus.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Gcd10p [M=300] Accession: PF04189.12 Description: Gcd10p 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.9e-69 234.2 1.3 2.9e-69 234.2 1.3 1.6 2 tr|W4YE41|W4YE41_STRPU Uncharacterized protein OS=Strongyloc ------ inclusion threshold ------ 0.018 14.8 5.6 1.3 8.8 0.3 2.3 2 tr|W4Y7R9|W4Y7R9_STRPU Uncharacterized protein OS=Strongyloc 2.9 7.6 5.1 2.2 8.0 0.7 2.6 3 tr|W4XNP3|W4XNP3_STRPU Uncharacterized protein OS=Strongyloc Domain annotation for each sequence (and alignments): >> tr|W4YE41|W4YE41_STRPU Uncharacterized protein OS=Strongylocentrotus purpuratus OX=7668 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 234.2 1.3 3e-73 2.9e-69 2 291 .. 7 271 .. 6 283 .. 0.85 2 ? -2.9 0.3 0.46 4.4e+03 271 289 .. 378 396 .. 348 412 .. 0.57 Alignments for each domain: == domain 1 score: 234.2 bits; conditional E-value: 3e-73 Gcd10p 2 IkpnqhvllkLpsenlkivqvkpnttisLgKfgsfplnliigrpygltfeildkreeeeksrlrvvpaaeleaeslaeeeaeeeeee 88 +++++ v+lk + lk+++v ++ ++ L+K f+l i+g+pyg+t+e+++ + ++v+ +++ +++lae+ + tr|W4YE41|W4YE41_STRPU 7 VAEGDNVILK-KGKLLKVYKVIKKAKVFLEKRH-FSLAPIVGHPYGSTWELQSGS------LVQVL--ENTVSQDLAEQID------ 77 7899******.555*******************.*******************99......34555..4444444554443...... PP Gcd10p 89 eeardnreiiddgarQkLtkeeIeeLKkegasagkeiIaklleshtafdqKTaFSqeKYlkrKkkKYlkrftvlpldvsllleylle 175 + ++dnr i d +++QkL++++I +L+++g s g+ei+++l+e++++f+++T++S++KYlk+K++KY+ rf vl++ ++l++e++++ tr|W4YE41|W4YE41_STRPU 78 KGGADNRGIFDGDTTQKLDNDDIMNLREQGKS-GQEIVDQLVENSSTFNERTVYSKAKYLKKKRNKYIVRFVVLRPCIRLMCEMYFN 163 3499****************************.****************************************************** PP Gcd10p 176 kkdaqkilelreetlglllslanvhaggryLvvDdtgGLlvaalaeRmgifessakegtitliheneqpnlsllkyfnydaaepehp 262 k ++k++++r +t+++lls anv++g++++v+++++GLlvaa++eR+g+ +gt++++h+++qp s l++fn++++ ++++ tr|W4YE41|W4YE41_STRPU 164 -KAPSKVIQIRIDTMAQLLSAANVQSGSKVMVLENCQGLLVAAIMERLGG------NGTVVHFHTEDQPMNSSLQAFNFSQK-SKEM 242 .9************************************************......***********************544.4555 PP Gcd10p 263 lkkh.lktlswlqllepeedetyeeepeev 291 l++ lk + +l+ ++ et +eep++ tr|W4YE41|W4YE41_STRPU 243 LRTFnLKDVY-DNLILKKPVETINEEPSQS 271 5544233333.2333344444444455544 PP == domain 2 score: -2.9 bits; conditional E-value: 0.46 Gcd10p 271 swlqllepeedetyeeepe 289 +++++le++ d ++ +e++ tr|W4YE41|W4YE41_STRPU 378 QFVKFLESDMDYNKRKEKK 396 3333333333333333333 PP >> tr|W4Y7R9|W4Y7R9_STRPU Uncharacterized protein OS=Strongylocentrotus purpuratus OX=7668 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 8.8 0.3 0.00013 1.3 141 165 .. 599 623 .. 588 637 .. 0.90 2 ? 8.0 0.8 0.00022 2.1 141 165 .. 1308 1332 .. 1301 1342 .. 0.91 Alignments for each domain: == domain 1 score: 8.8 bits; conditional E-value: 0.00013 Gcd10p 141 aFSqeKYlkrKkkKYlkrftvlpld 165 ++S KYl K+kKY+ r+++ +ld tr|W4Y7R9|W4Y7R9_STRPU 599 EHSAGKYLAAKTKKYMLRLKISKLD 623 68999*****************998 PP == domain 2 score: 8.0 bits; conditional E-value: 0.00022 Gcd10p 141 aFSqeKYlkrKkkKYlkrftvlpld 165 ++S KYl K+kKY+ r+++ +ld tr|W4Y7R9|W4Y7R9_STRPU 1308 EHSAGKYLAAKTKKYMLRLKISKLD 1332 68999****************9998 PP >> tr|W4XNP3|W4XNP3_STRPU Uncharacterized protein OS=Strongylocentrotus purpuratus OX=7668 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -1.5 0.0 0.18 1.7e+03 234 284 .. 62 116 .. 46 124 .. 0.69 2 ? -0.3 0.0 0.075 7.1e+02 234 289 .. 194 253 .. 177 266 .. 0.67 3 ? 8.0 0.7 0.00023 2.2 141 165 .. 776 800 .. 769 812 .. 0.91 Alignments for each domain: == domain 1 score: -1.5 bits; conditional E-value: 0.18 Gcd10p 234 tit.liheneqpnlsllkyfnydaae...pehplkkhlktlswlqllepeedety 284 i+ ++++ +++ ++ll +ny++++ + ++l+++l+ l +++l e +++ tr|W4XNP3|W4XNP3_STRPU 62 HIVkHLNNVNEALVELLIKWNYNQRDgteTRSILASKLRELRLVELGERLSEDIF 116 333033344448899*******999988888888888998888888776666555 PP == domain 2 score: -0.3 bits; conditional E-value: 0.075 Gcd10p 234 tit.liheneqpnlsllkyfnydaae...pehplkkhlktlswlqllepeedetyeeepe 289 i+ ++++ +++ ++ll +ny++++ + ++l+++l+ l +++l e ++ +y +++ tr|W4XNP3|W4XNP3_STRPU 194 HIVkHLNNVNEALVELLIKWNYNQRDgteTRSILASKLRELRLVELGERLSEGKYIPNQQ 253 333033344448999*******99999888888999999999998888666555543333 PP == domain 3 score: 8.0 bits; conditional E-value: 0.00023 Gcd10p 141 aFSqeKYlkrKkkKYlkrftvlpld 165 ++S KYl K+kKY+ r+++ +ld tr|W4XNP3|W4XNP3_STRPU 776 EHSAGKYLAAKTKKYMLRLKISKLD 800 68999****************9998 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (300 nodes) Target sequences: 28594 (14266044 residues searched) Passed MSV filter: 1969 (0.0688606); expected 571.9 (0.02) Passed bias filter: 619 (0.0216479); expected 571.9 (0.02) Passed Vit filter: 58 (0.0020284); expected 28.6 (0.001) Passed Fwd filter: 3 (0.000104917); expected 0.3 (1e-05) Initial search space (Z): 28594 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.36u 0.01s 00:00:00.37 Elapsed: 00:00:00.13 # Mc/sec: 32921.64 // [ok]