Motif confirmation by HMMer


hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
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HMM file:                 /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file:            hmm1/seq/C43E11.4
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Query:  C43E11.4  CE08682   elongation factor Tu status:Partially_confirmed TR:P91150 protein_id:AAB37624.1

Scores for sequence family classification (score includes all domains):
Model        Description                                Score    E-value  N
--------     -----------                                -----    ------- ---
GTP_EFTU     Elongation factor Tu GTP binding domain    269.6    4.1e-77   1
GTP_EFTU_D3  Elongation factor Tu C-terminal domain      91.6    1.1e-24   1
GTP_EFTU_D2  Elongation factor Tu domain 2               69.9    3.6e-18   1
HEAT_PBS     PBS lyase HEAT-like repeat                   8.2        2.8   1
Glu_synthase Conserved region in glutamate synthase       2.3        9.1   1
cobW         Cobalamin synthesis protein/P47K             1.9        8.2   1

Parsed for domains:
Model        Domain  seq-f seq-t    hmm-f hmm-t      score  E-value
--------     ------- ----- -----    ----- -----      -----  -------
cobW           1/1     166   191 ..   186   213 ..     1.9      8.2
Glu_synthase   1/1     185   196 ..   398   409 .]     2.3      9.1
HEAT_PBS       1/1     203   228 ..     1    27 []     8.2      2.8
GTP_EFTU       1/1      43   233 ..     1   298 []   269.6  4.1e-77
GTP_EFTU_D2    1/1     245   323 ..     1    96 []    69.9  3.6e-18
GTP_EFTU_D3    1/1     327   422 ..     1   113 []    91.6  1.1e-24

Alignments of top-scoring domains:
cobW: domain 1 of 1, from 166 to 191: score 1.9, E = 8.2
                   *->IvlNKtDLvdeeedleklearlrkslnp<-*
                      I +NK+DLv+e+ dl+ +e + r +l +
    C43E11.4   166    IFINKADLVEED-DLDLVEMEAR-ELLS    191

Glu_synthase: domain 1 of 1, from 185 to 196: score 2.3, E = 9.1
                   *->EvrellaqlGfr<-*
                      E rell+ +Gf+
    C43E11.4   185    EARELLSLHGFN    196

HEAT_PBS: domain 1 of 1, from 203 to 228: score 8.2, E = 2.8
                   *->vRraAaraLgalgdpeAipaLleaLed<-*
                      +R +A+ aL       +i++L++aL++
    C43E11.4   203    IRGSALSALEGQDI-SCIERLIDALDS    228

GTP_EFTU: domain 1 of 1, from 43 to 233: score 269.6, E = 4.1e-77
                   *->krhrNigiiGHVDHGKTTLtdrLlyytgaisertleklegeakegge
                      k  +N+g+iGH+DHGKTTLt +++ + ++          ++  ++
    C43E11.4    43    KINVNVGTIGHIDHGKTTLTSAITRVQAK----------KGFAKH-- 77

                   rkgsfklarviDkmeeEreRGITIksahvsfewkdededletkakegkkr
                       +k ++ iDk +eE+ RGITI++ah+ +e
    C43E11.4    78 ----IK-FDEIDKGKEEKKRGITINVAHIGYE------------------ 104

                   gnelTekrhiniIDTPGHvDFtkevirGlaqaDGAiLVVdAveGvmpGfk
                       ++ r++++ D+PGH DF+k++i G++q+D A+LV++A++Gvm+
    C43E11.4   105 ----SPLRRYSHTDCPGHSDFIKNMICGTSQMDVAVLVIAATDGVME--- 147

                   GQTrehlrlArqlgvppiilvVaiNKiDrvgaelklppvpeelyeeleke
                    QT+ehl lA+q+gv+  +++++iNK D+v          e+ ++++e+e
    C43E11.4   148 -QTKEHLILAKQVGVK--NMAIFINKADLV---------EEDDLDLVEME 185

                   vrellkpIgedfgvidlilaevaeddlmeyyfegeeipiipiSalggdni
                   +rell++                       +f+g+++p+i++Sal ++++
    C43E11.4   186 ARELLSL----------------------HGFNGDATPVIRGSALSALEG 213

                   delsiknkLkkddlslvPwykgvSalknkgrkrgaiptLLealddylPsP
                   ++ s                              +i+ L++ald+ lP P
    C43E11.4   214 QDIS------------------------------CIERLIDALDS-LPEP 232

                   e<-*

    C43E11.4   233 D    233

GTP_EFTU_D2: domain 1 of 1, from 245 to 323: score 69.9, E = 3.6e-18
                   *->adVfkikytmDpyrrTSdGrGtVatgRvesGtlkkGdeveiggngt.
                      a  + i+           GrGtV++g++e+G+lkkGd+vei  +g++
    C43E11.4   245    ASKTAIT-----------GRGTVIVGTLERGVLKKGDKVEI--KGDg 278

                   kkkdvpevtrVtslemfhg.ldeavaGdnaGlivagiglkdaaikrGdvl
                   ++    ++t+ + +++f ++++e++aGd +G++++g++ +   +krG+
    C43E11.4   279 QT----LQTTASDIQVFGKsVKEVRAGDHCGVLCRGVKGDT--VKRGMWA 322

                   a<-*
                   +
    C43E11.4   323 G    323

GTP_EFTU_D3: domain 1 of 1, from 327 to 422: score 91.6, E = 1.1e-24
                   *->sikphtkFeAqVyvLnkeeqIggRhtPffdgYtpqfycrTtdvtgki
                       ++++++++ + y L+  e  +gR+ ++  g+t  +yc T+d++g+
    C43E11.4   327    AVTITNRVKVELYLLSEAE--NGRKIGIRTGFTDKMYCSTWDQVGR- 370

                   dkltgkvkevleegpemvmpGDnvivtvelikPiavEtFseYPpggRFAi
                     ++          +e +mpG+++ +tv l+k ++++      +g+ F++
    C43E11.4   371 FDMS----------NELLMPGEHTSATVLLMKDMPLR------KGMPFTL 404

                   REGG..rTVGaGvVteil<-*
                   REG +++T++ G++++++
    C43E11.4   405 REGSskTTIARGIISDLE    422



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