Query 022963
Match_columns 289
No_of_seqs 122 out of 415
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 07:26:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022963.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022963hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3066 Translin-associated pr 100.0 8.1E-63 1.8E-67 435.4 18.4 245 42-288 24-271 (271)
2 PF01997 Translin: Translin fa 100.0 1.5E-59 3.4E-64 417.5 16.0 198 68-268 1-200 (200)
3 PRK14562 haloacid dehalogenase 100.0 2.3E-52 4.9E-57 372.9 20.9 194 53-269 2-196 (204)
4 KOG3067 Translin family protei 100.0 1.5E-45 3.2E-50 319.5 17.1 211 54-269 5-217 (226)
5 COG2178 Predicted RNA-binding 100.0 1.3E-38 2.9E-43 279.0 19.4 183 54-261 2-186 (204)
6 PF06892 Phage_CP76: Phage reg 66.7 29 0.00063 30.1 7.4 48 184-232 89-136 (162)
7 COG1283 NptA Na+/phosphate sym 43.1 4E+02 0.0088 27.7 16.9 39 188-226 443-481 (533)
8 PF04124 Dor1: Dor1-like famil 38.8 3.6E+02 0.0077 25.8 14.4 25 205-229 115-139 (338)
9 COG0233 Frr Ribosome recycling 38.4 2.3E+02 0.005 25.4 8.4 103 24-126 48-177 (187)
10 TIGR00496 frr ribosome recycli 36.2 2.4E+02 0.0052 24.7 8.2 101 24-124 37-164 (176)
11 PF01765 RRF: Ribosome recycli 35.6 2.8E+02 0.0061 23.7 8.6 100 25-124 29-155 (165)
12 PF15642 Tox-ODYAM1: Toxin in 35.3 1.5E+02 0.0033 28.3 7.1 27 56-82 117-143 (385)
13 KOG4098 Molecular chaperone Pr 34.3 2.9E+02 0.0062 23.5 7.9 47 48-95 15-71 (140)
14 PF15605 Toxin_52: Putative to 31.0 1.3E+02 0.0028 24.5 5.1 70 182-260 20-101 (103)
15 PF12463 DUF3689: Protein of u 29.5 63 0.0014 31.0 3.7 24 185-208 157-180 (303)
16 PRK00083 frr ribosome recyclin 27.7 4E+02 0.0086 23.5 8.2 101 24-124 46-173 (185)
17 PF15647 Tox-REase-3: Restrict 26.3 2.7E+02 0.0058 22.7 6.1 77 67-148 14-98 (109)
18 PF02255 PTS_IIA: PTS system, 26.2 3.3E+02 0.0071 21.5 6.7 57 74-130 7-63 (96)
19 PF11473 B2: RNA binding prote 24.8 76 0.0017 23.9 2.6 45 215-264 12-56 (73)
20 PF10157 DUF2365: Uncharacteri 24.8 2.3E+02 0.0049 24.4 5.9 37 217-260 113-149 (149)
21 cd00520 RRF Ribosome recycling 24.4 4.6E+02 0.01 22.9 8.0 101 24-124 42-169 (179)
22 cd00687 Terpene_cyclase_nonpla 23.7 2.1E+02 0.0046 26.2 6.1 33 134-166 130-163 (303)
23 PF05278 PEARLI-4: Arabidopsis 22.0 1.7E+02 0.0037 27.7 5.0 35 184-218 123-157 (269)
24 PRK09591 celC cellobiose phosp 20.7 4.5E+02 0.0097 21.1 7.0 57 74-130 13-69 (104)
No 1
>KOG3066 consensus Translin-associated protein X [General function prediction only]
Probab=100.00 E-value=8.1e-63 Score=435.38 Aligned_cols=245 Identities=40% Similarity=0.560 Sum_probs=228.6
Q ss_pred cCCCCCCCCchHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-CChHHHHHHHHHHHHHHHHHHHH
Q 022963 42 KRPRTITTESYMKDAFANYAGYLNELNEKRERVVKSSRDITINSKKVIFQVHRISR-DNKEEVLKKAEADLEAVKDQYIS 120 (289)
Q Consensus 42 ~~~~~~~~~~~~~~~F~~~~~eLd~~~d~REriik~SRdIt~~SKkiIf~LHR~~~-~~~~~~l~~A~~~l~~v~~~~l~ 120 (289)
..++||++.+++...|.+|+++|++.||+||||+|+|||||..||++||+|||..+ .+.++++.++...++.++.+.+.
T Consensus 24 qkartmsteSsm~~aF~sf~~~L~~~~dKrEriVklSRdITi~SKr~IFllHr~ss~~~~e~~l~~~~~~le~vr~k~f~ 103 (271)
T KOG3066|consen 24 QKARTMSTESSMEEAFLSFKNFLQEDQDKRERIVKLSRDITIQSKRMIFLLHRTSSSGFPEPKLFDRTSILEKVRHKEFE 103 (271)
T ss_pred ccccccCccchHHHHHHHHHHHHHHhHHHHHHHHhhhhhheeccceeeeeeeecccCCCcchhhhhhhhHHHHHHHHHHH
Confidence 35788999999999999999999999999999999999999999999999999987 66788999999999999999999
Q ss_pred HHHHhhcCCChhhhhhhcchhHHHHHHHHHHHHHHhcCCCCCHHHHhhccCCCCCCCCCCcccChhhHHhhHHHhHHHHH
Q 022963 121 RLVKELQGTDFWKLRRAYSPGVQEYVEAATFCKFCRTGTLLDLEELNAGLLPLSDPAIEPLQINVFDYLLGLADLTGELM 200 (289)
Q Consensus 121 ~La~~l~~~~~~ry~~~~s~~lQEyVEA~sf~~~L~~~~Llt~eev~~~l~~l~~~~~~~l~V~~~DYLlGL~DLtGELm 200 (289)
.++.+|+|.++|+|++++++|+||||||++|++||.+|+|.+.+|++..+.++..| .++.|++-||++|+||||||||
T Consensus 104 ~l~~EL~G~d~~kf~rA~t~GlQEYVEAvtF~~f~lsgtLc~~dein~~lvpl~~~--~rl~in~iDYvLGvaDlTGElM 181 (271)
T KOG3066|consen 104 SLKRELAGLDADKFSRACTHGLQEYVEAVTFKFFLLSGTLCQTDEINSCLVPLDSS--FRLSINFIDYVLGVADLTGELM 181 (271)
T ss_pred HHHHHhcCCcHHHHHHhhcccHHHHHHHHHHHHHHHhccccchhhhhheecccCCc--cceeeeHHHHHHHHhhhHHHHH
Confidence 99999999999999999999999999999999999999999999999999887655 5789999999999999999999
Q ss_pred HHHhhhhcCCchHHHHHHHHHHHHHHHHHhhhcCCCCCCCcchhhHHHHHHHHHHHHhhhhheeeeccccc-CCCCCCc-
Q 022963 201 RLAIGRISDGELEFAEKICRFSRDIYRELTLVVPLMDNNSDMKTKMDTMLQSVLKIENACLSVHVRGSEYT-LLGSSDP- 278 (289)
Q Consensus 201 R~ain~v~~Gd~e~~~~i~~fm~~Iy~~f~~L~~~lk~n~~LRkK~D~lk~slkKvE~v~Ydl~vRg~e~~-~~~~~~~- 278 (289)
|+|||++++|+++.|.++|+|+|.||.+++.+.+.....+++.+|+.+|+|||-|||++||.++|||+|+| ..++++|
T Consensus 182 Rm~I~~~s~g~I~~~~~~~qFlRq~h~~~s~i~~~~~~~ye~~~Kl~vm~qSi~KvEnaCys~~vRg~e~~~l~l~~~~~ 261 (271)
T KOG3066|consen 182 RMLITNGSKGSIQQLTQQVQFLRQLHKNCSEIEHLPSKKYELQQKLSVMEQSISKVENACYSKIVRGAEKRYLNLEVDTA 261 (271)
T ss_pred HHHHhcCcCcchhhHHHHHHHHHHHHhhhhhhccCCCchHHHHHHHHHHHHHHHHHHhHHHHHHhccccccccccccccc
Confidence 99999999999999999999999999999999765433689999999999999999999999999999977 5568888
Q ss_pred ccccCCCCCC
Q 022963 279 SFLMGVPDMQ 288 (289)
Q Consensus 279 ~~~~~~~~~~ 288 (289)
..+.++.|+|
T Consensus 262 ~~~~e~~d~e 271 (271)
T KOG3066|consen 262 TPPEEKRDRE 271 (271)
T ss_pred CCchhhhhcC
Confidence 7777777664
No 2
>PF01997 Translin: Translin family; InterPro: IPR002848 Translins are DNA-binding proteins that specifically recognise consensus sequences at the breakpoint junctions in chromosomal translocations, mostly involving immunoglobulin (Ig)/T-cell receptor gene segments. They seem to recognise single-stranded DNA ends generated by staggered breaks occuring at recombination hot spots []. Translin folds into an alpha-alpha superhelix, consisting of two curved layers of alpha/alpha topology [, ].; GO: 0043565 sequence-specific DNA binding; PDB: 3QB5_K 3PJA_L 1J1J_D 3RIU_C 3AXJ_B 4DG7_C 2QVA_C 2QRX_A 1KEY_C.
Probab=100.00 E-value=1.5e-59 Score=417.47 Aligned_cols=198 Identities=42% Similarity=0.682 Sum_probs=179.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhhhhhhcchhHHHHHH
Q 022963 68 NEKRERVVKSSRDITINSKKVIFQVHRISRDNKEEVLKKAEADLEAVKDQYISRLVKELQGTDFWKLRRAYSPGVQEYVE 147 (289)
Q Consensus 68 ~d~REriik~SRdIt~~SKkiIf~LHR~~~~~~~~~l~~A~~~l~~v~~~~l~~La~~l~~~~~~ry~~~~s~~lQEyVE 147 (289)
||+||+|+|+|||||++||++||+|||++.+++.+++++|++.++++++ .++.|+ ++++.++|+|++.|++|+|||||
T Consensus 1 ~d~RE~iik~sRdi~~~Sk~~I~~lhr~~~~~~~~~l~~a~~~l~~l~~-~~~~l~-~~~~~~~~~y~~~~s~~lQE~vE 78 (200)
T PF01997_consen 1 HDRRERIIKLSRDITRLSKKIIFALHRIDQEKAEKILEEAEEKLKELKK-LLKQLA-ELPGHPFYRYHGAYSPGLQEYVE 78 (200)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCTCTTHHHHHHHHHHHHHHHHHHC-HSHHHH-HCTTCGHHHHGGGTHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHH-HHhhhc-ccCCCcHHHHHHHHHHHHHHHHH
Confidence 7999999999999999999999999999987788999999999999985 789999 99999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCHHHHhhccCCCCCCCCCCcccChhhHHhhHHHhHHHHHHHHhhhhcCCchHHHHHHHHHHHHHHH
Q 022963 148 AATFCKFCRTGTLLDLEELNAGLLPLSDPAIEPLQINVFDYLLGLADLTGELMRLAIGRISDGELEFAEKICRFSRDIYR 227 (289)
Q Consensus 148 A~sf~~~L~~~~Llt~eev~~~l~~l~~~~~~~l~V~~~DYLlGL~DLtGELmR~ain~v~~Gd~e~~~~i~~fm~~Iy~ 227 (289)
|++|++||++|+|+|++|+++.|..... ....|+|+++|||+||+||||||||+|||+++.||++.|.++++||++||.
T Consensus 79 a~~f~~~l~~~~L~t~~ev~~~l~~~~~-~~~~~~v~~~dYL~Gl~DltGEL~R~ai~~v~~gd~~~~~~i~~f~~~l~~ 157 (200)
T PF01997_consen 79 AISFYHYLETGRLLTPEEVGEILGFSED-DEDRFHVTPEDYLLGLADLTGELMRYAINSVTKGDYERPEKILEFMRELYS 157 (200)
T ss_dssp HHHHHHHHHHSSS--HHHHHHHCTCBSS-TSCSSB--HHHHHHHHHHHHHHHHHHHHHHHHTT-SSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCCCCCCHHHHHHHHhhccc-cccceecCHHHHHHHHHHHHHHHHHHHHHHhhccchhhHHHHHHHHHHHHH
Confidence 9999999999999999999987754433 366799999999999999999999999999999999999999999999999
Q ss_pred HHhhhcCCCC--CCCcchhhHHHHHHHHHHHHhhhhheeeecc
Q 022963 228 ELTLVVPLMD--NNSDMKTKMDTMLQSVLKIENACLSVHVRGS 268 (289)
Q Consensus 228 ~f~~L~~~lk--~n~~LRkK~D~lk~slkKvE~v~Ydl~vRg~ 268 (289)
+|..|.++.. .|++||||+|++||+|+|+|++||+++|||+
T Consensus 158 ~~~~l~~~~~~~~n~~LrkK~d~~k~~l~KvE~~~y~l~vRgs 200 (200)
T PF01997_consen 158 GFQLLNLPDAIVKNDELRKKFDVLKYSLKKVEEVVYDLSVRGS 200 (200)
T ss_dssp HHHTSGGTTGS--SHHHHHHHHCHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHhCcchhhcccchhHHHHHHHHHHHHHHHHHHhHhhhhcCC
Confidence 9999954321 2899999999999999999999999999996
No 3
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=100.00 E-value=2.3e-52 Score=372.89 Aligned_cols=194 Identities=27% Similarity=0.299 Sum_probs=170.1
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChh
Q 022963 53 MKDAFANYAGYLNELNEKRERVVKSSRDITINSKKVIFQVHRISRDNKEEVLKKAEADLEAVKDQYISRLVKELQGTDFW 132 (289)
Q Consensus 53 ~~~~F~~~~~eLd~~~d~REriik~SRdIt~~SKkiIf~LHR~~~~~~~~~l~~A~~~l~~v~~~~l~~La~~l~~~~~~ 132 (289)
+.++|++++++||++||+||+|+|+|||||+.||++||.+||.+..++.+.+++|.+. +.+|++.+++.++|
T Consensus 2 ~~~~~~~~~~~Ld~~~~~RE~iik~sRdI~~~Sk~~I~~lHr~~~~~a~~~l~~a~~~--------~~~l~~~~~~~~~~ 73 (204)
T PRK14562 2 IEEIIDSIREELEEKDEAREEALKLSREIVRLSGDAIRAIHRGDFEEAEKLLKEAEEL--------VKELKELLKDHPEL 73 (204)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHH--------HHHHHHHhccCchh
Confidence 4678999999999999999999999999999999999999998644444444444443 55666788888899
Q ss_pred hhhhhcchhHHHHHHHHHHHHHHhcCCCCCHHHHhhccCCCCCCCCCCcccChhhHHhhHHHhHHHHHHHHhhhhcCCch
Q 022963 133 KLRRAYSPGVQEYVEAATFCKFCRTGTLLDLEELNAGLLPLSDPAIEPLQINVFDYLLGLADLTGELMRLAIGRISDGEL 212 (289)
Q Consensus 133 ry~~~~s~~lQEyVEA~sf~~~L~~~~Llt~eev~~~l~~l~~~~~~~l~V~~~DYLlGL~DLtGELmR~ain~v~~Gd~ 212 (289)
+|++.|++|+||||||++|++|+++|+|+|++| ++|+++|||+||+|+||||||+|+|+++.||+
T Consensus 74 ~y~~~~~~~lQEyvEA~~f~~~l~~~~l~s~ee---------------l~v~~~dYLlGl~Dl~GEL~R~al~~l~~gd~ 138 (204)
T PRK14562 74 YYAGYVGTALQEYVEALLVYSLLFENKIPSPEE---------------LGVPEAAYLLGLADAIGELRRHILELLRKGEI 138 (204)
T ss_pred hhhhhcchHHHHHHHHHHHHHHHcCCCCCCHHH---------------cCCCHHHHHhHHHHHHhHHHHHHHHHHhcCCh
Confidence 999999999999999999999999999999998 46999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCCCCCcchhhHHHHHHHHHHH-Hhhhhheeeeccc
Q 022963 213 EFAEKICRFSRDIYRELTLVVPLMDNNSDMKTKMDTMLQSVLKI-ENACLSVHVRGSE 269 (289)
Q Consensus 213 e~~~~i~~fm~~Iy~~f~~L~~~lk~n~~LRkK~D~lk~slkKv-E~v~Ydl~vRg~e 269 (289)
+.|+++++||++||.+|+.|.++.+..++||||+|++||+|+|+ ++++|....++++
T Consensus 139 ~~~~~i~~fm~~ly~~~~~l~~~~~~~~~LRkK~D~~r~~lekt~~d~~~~~~~~~l~ 196 (204)
T PRK14562 139 EEAEKLLEIMEEIYEFLMTLDYPDAITPGLRRKQDVARSLLERTRGDLTNAILNRKLE 196 (204)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999443222359999999999999999 6678877766654
No 4
>KOG3067 consensus Translin family protein [General function prediction only]
Probab=100.00 E-value=1.5e-45 Score=319.52 Aligned_cols=211 Identities=20% Similarity=0.344 Sum_probs=198.8
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCh
Q 022963 54 KDAFANYAGYLNELNEKRERVVKSSRDITINSKKVIFQVHRISRD--NKEEVLKKAEADLEAVKDQYISRLVKELQGTDF 131 (289)
Q Consensus 54 ~~~F~~~~~eLd~~~d~REriik~SRdIt~~SKkiIf~LHR~~~~--~~~~~l~~A~~~l~~v~~~~l~~La~~l~~~~~ 131 (289)
+++|.++++.+|+.++.||+|.+.+++|+..+|.+...|+-++.+ ..++.|..|++++.++.. ++..|++..+..+|
T Consensus 5 ~sif~q~q~~id~e~~iRE~iravV~~ie~~~r~iq~~L~~vhq~~~~i~k~~~~are~~~~~kq-~~~~LaE~~~~~qy 83 (226)
T KOG3067|consen 5 KSIFIQLQDFIDKEQSIREKIRAVVDEIEEKLREIQLLLQNVHQNENLIPKECGLAREDLENIKQ-KYRMLAELPPAGQY 83 (226)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHH-HHHHHhhcCCccce
Confidence 589999999999999999999999999999999999888777653 368899999999999876 78999999999999
Q ss_pred hhhhhhcchhHHHHHHHHHHHHHHhcCCCCCHHHHhhccCCCCCCCCCCcccChhhHHhhHHHhHHHHHHHHhhhhcCCc
Q 022963 132 WKLRRAYSPGVQEYVEAATFCKFCRTGTLLDLEELNAGLLPLSDPAIEPLQINVFDYLLGLADLTGELMRLAIGRISDGE 211 (289)
Q Consensus 132 ~ry~~~~s~~lQEyVEA~sf~~~L~~~~Llt~eev~~~l~~l~~~~~~~l~V~~~DYLlGL~DLtGELmR~ain~v~~Gd 211 (289)
|||++.|...+|..|.-..|.+||++|.|+|.+++.++| +++....++||++.+|||.|++-|.+||.|+++|+|+.||
T Consensus 84 yry~~~w~~~~Q~vv~l~alv~~Let~~Llt~e~v~eil-gl~p~~s~~FhLdvedyl~gvl~L~seLsR~svNsVtaGd 162 (226)
T KOG3067|consen 84 YRYNGHWRRSTQRVVSLPALVAWLETGTLLTREEVTEIL-GLEPDRSEGFHLDVEDYLSGVLFLASELSRQSVNSVTAGD 162 (226)
T ss_pred EEecchHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHh-cCCccccccceeeHHHHHHHHHHHHHHHHHhhhccccccC
Confidence 999999999999999999999999999999999998766 5665666789999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcCCCCCCCcchhhHHHHHHHHHHHHhhhhheeeeccc
Q 022963 212 LEFAEKICRFSRDIYRELTLVVPLMDNNSDMKTKMDTMLQSVLKIENACLSVHVRGSE 269 (289)
Q Consensus 212 ~e~~~~i~~fm~~Iy~~f~~L~~~lk~n~~LRkK~D~lk~slkKvE~v~Ydl~vRg~e 269 (289)
|++|..+..|+.+++.+|++| |+| ||+||||+|+|||+|||+|+|+||++|||+.
T Consensus 163 Y~~Pl~v~~fi~dlhs~FrlL--nLK-ndsLRK~fDgLkYDlkrvEeVvYDv~Irgl~ 217 (226)
T KOG3067|consen 163 YHRPLHVSNFINDLHSGFRLL--NLK-NDSLRKRFDGLKYDLKRVEEVVYDVSIRGLV 217 (226)
T ss_pred cCCchHHHHHHhhhcccceee--ecc-chhhhccccchhhhHHhhhhhheeeeeeccc
Confidence 999999999999999999999 999 9999999999999999999999999999986
No 5
>COG2178 Predicted RNA-binding protein of the translin family [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-38 Score=278.99 Aligned_cols=183 Identities=31% Similarity=0.407 Sum_probs=157.4
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCChhh
Q 022963 54 KDAFANYAGYLNELNEKRERVVKSSRDITINSKKVIFQVHRISRDNKEEVLKKAEADLEAVKDQYISRLVKELQGTDFWK 133 (289)
Q Consensus 54 ~~~F~~~~~eLd~~~d~REriik~SRdIt~~SKkiIf~LHR~~~~~~~~~l~~A~~~l~~v~~~~l~~La~~l~~~~~~r 133 (289)
...+.++++.|+++++.||+++++||+|+++|+.+||++||++.+.+..-+++|.+.+.+ |...+.+ |+.
T Consensus 2 ~e~i~si~~~L~e~d~~REE~l~lsRei~r~s~~aI~~~H~~~~eeA~~~l~~a~~~v~~--------Lk~~l~~--~pe 71 (204)
T COG2178 2 REEINSIREVLQEKDKAREEALKLSREIVRLSGEAIFLLHRGDFEEAEKKLKKASEAVEK--------LKRLLAG--FPE 71 (204)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHH--------HHHHHhh--hHH
Confidence 357899999999999999999999999999999999999999865555555555555544 3334543 444
Q ss_pred hh--hhcchhHHHHHHHHHHHHHHhcCCCCCHHHHhhccCCCCCCCCCCcccChhhHHhhHHHhHHHHHHHHhhhhcCCc
Q 022963 134 LR--RAYSPGVQEYVEAATFCKFCRTGTLLDLEELNAGLLPLSDPAIEPLQINVFDYLLGLADLTGELMRLAIGRISDGE 211 (289)
Q Consensus 134 y~--~~~s~~lQEyVEA~sf~~~L~~~~Llt~eev~~~l~~l~~~~~~~l~V~~~DYLlGL~DLtGELmR~ain~v~~Gd 211 (289)
++ +..+.|+||||||.+|+.|++++.+++++|+ +|++.+||+|+||++|||||++++.+..|+
T Consensus 72 l~~ag~~~~a~QEyvEA~~l~~~l~~~~~ps~~EL---------------~V~~~~YilGl~D~vGELrR~~le~l~~~~ 136 (204)
T COG2178 72 LYFAGFVTTALQEYVEATLLYSILKDGRLPSPEEL---------------GVPPIAYILGLADAVGELRRHVLELLRKGS 136 (204)
T ss_pred HHHHHhhcchHHHHHHHHHHHHHHhcCCCCCHHHc---------------CCCHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 44 4668899999999999999999999999984 699999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHhhhcCCCCCCCcchhhHHHHHHHHHHHHhhhh
Q 022963 212 LEFAEKICRFSRDIYRELTLVVPLMDNNSDMKTKMDTMLQSVLKIENACL 261 (289)
Q Consensus 212 ~e~~~~i~~fm~~Iy~~f~~L~~~lk~n~~LRkK~D~lk~slkKvE~v~Y 261 (289)
++.|++.++||++||..++.|.++-+..++||||+|++|+.+.|...-+.
T Consensus 137 ~~~Ae~~~~~ME~lY~~Lm~fdyP~~l~~~LR~K~Dvar~~lekt~~dl~ 186 (204)
T COG2178 137 FEEAERFLKFMEKLYEELMEFDYPKALVPGLRQKQDVARSLLEKTKSDLF 186 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCchhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999965555567999999999999999876443
No 6
>PF06892 Phage_CP76: Phage regulatory protein CII (CP76); InterPro: IPR009679 This entry is represented by Bacteriophage 186, CII. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage regulatory protein CII (CP76) sequences which are thought to be DNA binding proteins which are involved in the establishment of lysogeny [].
Probab=66.69 E-value=29 Score=30.07 Aligned_cols=48 Identities=23% Similarity=0.353 Sum_probs=40.0
Q ss_pred ChhhHHhhHHHhHHHHHHHHhhhhcCCchHHHHHHHHHHHHHHHHHhhh
Q 022963 184 NVFDYLLGLADLTGELMRLAIGRISDGELEFAEKICRFSRDIYRELTLV 232 (289)
Q Consensus 184 ~~~DYLlGL~DLtGELmR~ain~v~~Gd~e~~~~i~~fm~~Iy~~f~~L 232 (289)
+..+|++...--.|||+|-+...+..|.+...++ -.++++++...+.|
T Consensus 89 ~l~~~~l~~~a~~Gela~~a~ea~~dgrit~~er-~~i~~~a~~ai~~l 136 (162)
T PF06892_consen 89 SLPERVLKATAEVGELAREALEALSDGRITRSER-NRIIKEANAAIRSL 136 (162)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHH-HHHHHHHHHHHHHH
Confidence 8899999999999999999999999998877664 56667777666544
No 7
>COG1283 NptA Na+/phosphate symporter [Inorganic ion transport and metabolism]
Probab=43.09 E-value=4e+02 Score=27.66 Aligned_cols=39 Identities=33% Similarity=0.413 Sum_probs=32.1
Q ss_pred HHhhHHHhHHHHHHHHhhhhcCCchHHHHHHHHHHHHHH
Q 022963 188 YLLGLADLTGELMRLAIGRISDGELEFAEKICRFSRDIY 226 (289)
Q Consensus 188 YLlGL~DLtGELmR~ain~v~~Gd~e~~~~i~~fm~~Iy 226 (289)
=|-.+.++|=|..|.|++.+-.+|.+.+.++.+-.+++.
T Consensus 443 el~~l~~~~~~n~~~a~~~l~~~D~~~ar~lv~~k~~~r 481 (533)
T COG1283 443 ELDALFALTLENLRLAISVLVTGDLELARRLVERKKRVR 481 (533)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence 366788999999999999999999999988765544443
No 8
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=38.80 E-value=3.6e+02 Score=25.77 Aligned_cols=25 Identities=16% Similarity=0.218 Sum_probs=21.3
Q ss_pred hhhcCCchHHHHHHHHHHHHHHHHH
Q 022963 205 GRISDGELEFAEKICRFSRDIYREL 229 (289)
Q Consensus 205 n~v~~Gd~e~~~~i~~fm~~Iy~~f 229 (289)
.||++|.|++|..+..+++.+...+
T Consensus 115 ~ci~~g~y~eALel~~~~~~L~~~~ 139 (338)
T PF04124_consen 115 TCIRNGNYSEALELSAHVRRLQSRF 139 (338)
T ss_pred HHHhcccHhhHHHHHHHHHHHHHhc
Confidence 7778999999999999998877654
No 9
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=38.36 E-value=2.3e+02 Score=25.36 Aligned_cols=103 Identities=21% Similarity=0.303 Sum_probs=61.2
Q ss_pred CccccccccccccccccccCCCCCCCCchHHHHHHHHHHH-Hh----------------hHHHHHHHHHHHHHHHHHHHH
Q 022963 24 SKTHRLHQLSGTALQSIAKRPRTITTESYMKDAFANYAGY-LN----------------ELNEKRERVVKSSRDITINSK 86 (289)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~e-Ld----------------~~~d~REriik~SRdIt~~SK 86 (289)
..++|+.|++.-.++.+..-.-+.+..+.+..+-..+++. |. --.++|.+++|..+...-.+|
T Consensus 48 G~~tPl~qvAsIsvpe~r~l~I~p~Dks~~~~IekaI~~snLglnP~~dG~~IRv~~P~lTeErRkelvK~~k~~~Eeak 127 (187)
T COG0233 48 GSPTPLNQLASISVPEARTLVIKPFDKSMVKAIEKAILASNLGLNPNNDGNVIRVPLPPLTEERRKELVKVAKKYAEEAK 127 (187)
T ss_pred CCCCcHHHHhhccCCCcceEEeecCccchHHHHHHHHHHcCCCCCcCcCCCeEEecCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 4466777765543333222222223344555555554431 00 013788899999999999999
Q ss_pred HHHHHHhccC--------CCC--hHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 022963 87 KVIFQVHRIS--------RDN--KEEVLKKAEADLEAVKDQYISRLVKEL 126 (289)
Q Consensus 87 kiIf~LHR~~--------~~~--~~~~l~~A~~~l~~v~~~~l~~La~~l 126 (289)
-.|..+.|-- .+. .+..+..+++.++.+.+.++++|-+.+
T Consensus 128 vaiRniRrda~d~iKK~~K~~~isEDe~k~~e~~iQKlTd~yi~~iD~~~ 177 (187)
T COG0233 128 VAVRNIRRDANDKIKKLEKDKEISEDEVKKAEEEIQKLTDEYIKKIDELL 177 (187)
T ss_pred HHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888877731 111 245677788888888877776665433
No 10
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=36.18 E-value=2.4e+02 Score=24.71 Aligned_cols=101 Identities=17% Similarity=0.239 Sum_probs=60.0
Q ss_pred CccccccccccccccccccCCCCCCCCchHHHHHHHHHHH-------H----------hhHHHHHHHHHHHHHHHHHHHH
Q 022963 24 SKTHRLHQLSGTALQSIAKRPRTITTESYMKDAFANYAGY-------L----------NELNEKRERVVKSSRDITINSK 86 (289)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~e-------L----------d~~~d~REriik~SRdIt~~SK 86 (289)
..+.||.+++.....++..-.-+....+.+..+-..+++. . .=-.++|++++|..+.+.-.+|
T Consensus 37 g~~~pL~~lA~vsv~~~~~l~I~p~D~~~~~~I~kAI~~s~lglnP~~dg~~Iri~iP~lT~E~RkelvK~~k~~~E~aK 116 (176)
T TIGR00496 37 GAPTPLRQLASVTVPDARTLVIQPFDKSNINAIEKAIQRSDLGLNPNNDGSVIRVNFPPLTEERRKELVKHAKKIAEQAK 116 (176)
T ss_pred CCcccHHHceeeecCCCCEEEEecCChhhHHHHHHHHHHCCCCCCcccCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 3456777765544333222223334455666666666641 0 0123789999999999999999
Q ss_pred HHHHHHhccCCC---------C-hHHHHHHHHHHHHHHHHHHHHHHHH
Q 022963 87 KVIFQVHRISRD---------N-KEEVLKKAEADLEAVKDQYISRLVK 124 (289)
Q Consensus 87 kiIf~LHR~~~~---------~-~~~~l~~A~~~l~~v~~~~l~~La~ 124 (289)
..|..++|-..+ . -+.....+++.++++.+.+++.+-+
T Consensus 117 v~iRniRr~~~~~iKk~~k~~~iseD~~k~~~~~iQkltd~~i~~id~ 164 (176)
T TIGR00496 117 VAVRNVRRDANDKVKKLEKDKEISEDEERRLQEEIQKLTDEYIKKIDE 164 (176)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCCChhHHHHHHHHHHHHHHHHHHHHHH
Confidence 999888774211 0 1334555666677766665555544
No 11
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=35.57 E-value=2.8e+02 Score=23.69 Aligned_cols=100 Identities=20% Similarity=0.243 Sum_probs=56.7
Q ss_pred ccccccccccccccccccCCCCCCCCchHHHHHHHHHHHHhh-----------------HHHHHHHHHHHHHHHHHHHHH
Q 022963 25 KTHRLHQLSGTALQSIAKRPRTITTESYMKDAFANYAGYLNE-----------------LNEKRERVVKSSRDITINSKK 87 (289)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~eLd~-----------------~~d~REriik~SRdIt~~SKk 87 (289)
..+||.+++.-...++..-.-+....+.+..+...++..=-. -.+.|++++|.+..+.-.+|.
T Consensus 29 ~~~~L~~lA~V~~~~~~~l~I~~~d~~~i~~I~kAI~~s~l~l~p~~d~~~i~v~iP~~T~E~R~~l~k~~k~~~E~~k~ 108 (165)
T PF01765_consen 29 SKVPLNELAQVSVKDPRTLVITPYDPSLIKAIEKAIQKSNLNLNPQNDGNTIRVPIPPPTEERRKELVKQAKKIAEEAKV 108 (165)
T ss_dssp EEEEGGGTEEEEEEETTEEEEEESSTTHHHHHHHHHHHTTSSSEEEEETTEEEEE--SSSHHHHHHHHHHHHHHHHHHHH
T ss_pred CCccHHHceeeecCCCCEEEEEeccccchHHHHHHHHHCCCCCCcccCCcEEEEECCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 455666654332222211122233356666677666652111 127899999999999999999
Q ss_pred HHHHHhccCCC----------ChHHHHHHHHHHHHHHHHHHHHHHHH
Q 022963 88 VIFQVHRISRD----------NKEEVLKKAEADLEAVKDQYISRLVK 124 (289)
Q Consensus 88 iIf~LHR~~~~----------~~~~~l~~A~~~l~~v~~~~l~~La~ 124 (289)
.|..+.+-... -.+.....+.+.++++.+++.+.+-.
T Consensus 109 ~iR~iR~~~~~~lkk~~~~~~~s~D~~~~~~~~iq~l~~~~~~~id~ 155 (165)
T PF01765_consen 109 SIRNIRRDAMKKLKKLKKSKEISEDDIKKLEKEIQKLTDKYIKKIDE 155 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhhccCCCCchhhHHHHHHHHHHHHHHHHHHHH
Confidence 98887774211 12334555666666666655554433
No 12
>PF15642 Tox-ODYAM1: Toxin in Odyssella and Amoebophilus
Probab=35.34 E-value=1.5e+02 Score=28.29 Aligned_cols=27 Identities=4% Similarity=0.117 Sum_probs=17.6
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHH
Q 022963 56 AFANYAGYLNELNEKRERVVKSSRDIT 82 (289)
Q Consensus 56 ~F~~~~~eLd~~~d~REriik~SRdIt 82 (289)
+.+.-+.++...|..||+-+..-|+++
T Consensus 117 n~~Er~~~iTt~~qq~ee~Le~k~~~i 143 (385)
T PF15642_consen 117 NHEERRKKITTSHQQHEEALEKKKEDI 143 (385)
T ss_pred hHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 445555666667777777777777655
No 13
>KOG4098 consensus Molecular chaperone Prefoldin, subunit 2 [Posttranslational modification, protein turnover, chaperones]
Probab=34.28 E-value=2.9e+02 Score=23.55 Aligned_cols=47 Identities=13% Similarity=0.310 Sum_probs=28.9
Q ss_pred CCCchHHHHHHHHHHHHhhHH--------HHHH--HHHHHHHHHHHHHHHHHHHHhcc
Q 022963 48 TTESYMKDAFANYAGYLNELN--------EKRE--RVVKSSRDITINSKKVIFQVHRI 95 (289)
Q Consensus 48 ~~~~~~~~~F~~~~~eLd~~~--------d~RE--riik~SRdIt~~SKkiIf~LHR~ 95 (289)
+....+...|..+++++.+.. |+|| .+|+.-.|+. .++++-..+|-+
T Consensus 15 ~~q~~v~a~yn~~r~el~~ia~ki~~LE~d~~EH~lVi~tlk~~d-p~RKCfRmIgGv 71 (140)
T KOG4098|consen 15 SSQQAVVAKYNALRSELQQIASKITDLEMDLREHKLVIETLKDLD-PTRKCFRMIGGV 71 (140)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC-hhhHHHHHhccc
Confidence 344677888988888876543 4555 5566666654 355555555544
No 14
>PF15605 Toxin_52: Putative toxin 52
Probab=30.99 E-value=1.3e+02 Score=24.45 Aligned_cols=70 Identities=20% Similarity=0.222 Sum_probs=46.3
Q ss_pred ccChhhHHhhHHHhHHHHHHHHhhhhcCCchHHHHHHHHHHHHHHHHHhh----hcCCCCCCCc--------chhhHHHH
Q 022963 182 QINVFDYLLGLADLTGELMRLAIGRISDGELEFAEKICRFSRDIYRELTL----VVPLMDNNSD--------MKTKMDTM 249 (289)
Q Consensus 182 ~V~~~DYLlGL~DLtGELmR~ain~v~~Gd~e~~~~i~~fm~~Iy~~f~~----L~~~lk~n~~--------LRkK~D~l 249 (289)
|++..||-..+=||-||..| ..+ -.++.-++=|++-|.||.- |..-++ |+. +.+|++..
T Consensus 20 hltd~D~sgt~Rdl~G~pVp-------Kp~-GgywdHlqEm~da~~GL~n~~~~le~~L~-np~l~~~~r~~lq~~l~ea 90 (103)
T PF15605_consen 20 HLTDMDFSGTLRDLQGNPVP-------KPD-GGYWDHLQEMQDAYRGLVNRKRTLEGSLK-NPNLSGRTRELLQSKLNEA 90 (103)
T ss_pred hccccchHHHHHHHcCCccc-------CCC-CCccHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCchHHHHHHHHHHHHH
Confidence 67788888888888887653 222 2344455556777766642 211122 444 78999999
Q ss_pred HHHHHHHHhhh
Q 022963 250 LQSVLKIENAC 260 (289)
Q Consensus 250 k~slkKvE~v~ 260 (289)
-+-++|||+.+
T Consensus 91 ~~~l~kiE~~~ 101 (103)
T PF15605_consen 91 NNYLDKIEDFF 101 (103)
T ss_pred HHHHHHHHHHh
Confidence 99999999864
No 15
>PF12463 DUF3689: Protein of unknown function (DUF3689) ; InterPro: IPR022162 This family of proteins is found in eukaryotes. Proteins in this family are typically between 399 and 797 amino acids in length.
Probab=29.50 E-value=63 Score=30.98 Aligned_cols=24 Identities=25% Similarity=0.311 Sum_probs=20.7
Q ss_pred hhhHHhhHHHhHHHHHHHHhhhhc
Q 022963 185 VFDYLLGLADLTGELMRLAIGRIS 208 (289)
Q Consensus 185 ~~DYLlGL~DLtGELmR~ain~v~ 208 (289)
..+-+.+.+||-|||||+..++..
T Consensus 157 ~~~v~Q~~FDLLGELiK~n~~~f~ 180 (303)
T PF12463_consen 157 SQEVLQSNFDLLGELIKFNRDAFQ 180 (303)
T ss_pred hHHHHHHHHHHHHHHHCCCHHHHH
Confidence 467899999999999999877665
No 16
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=27.72 E-value=4e+02 Score=23.54 Aligned_cols=101 Identities=20% Similarity=0.279 Sum_probs=58.2
Q ss_pred CccccccccccccccccccCCCCCCCCchHHHHHHHHHHH----------------H-hhHHHHHHHHHHHHHHHHHHHH
Q 022963 24 SKTHRLHQLSGTALQSIAKRPRTITTESYMKDAFANYAGY----------------L-NELNEKRERVVKSSRDITINSK 86 (289)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~e----------------L-d~~~d~REriik~SRdIt~~SK 86 (289)
...+|+.+++.-...++..-.-+....+.+..+-..+++. + .=-.++|++++|.++...-.+|
T Consensus 46 g~~~pL~~lA~Isv~~~~~l~I~p~D~~~i~~I~kAI~~s~lgl~P~~dg~~Iri~iP~lT~E~R~elvK~~k~~~E~aK 125 (185)
T PRK00083 46 GSPTPLNQVASISVPEARTLLIQPWDKSMLKAIEKAIRASDLGLNPSNDGTVIRLPIPPLTEERRKELVKQVKKEAEEAK 125 (185)
T ss_pred CCCccHHHceeeecCCCCEEEEEeCCHhHHHHHHHHHHHCCCCCCcccCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 3456777654433333211122223345666666666651 0 0123789999999999999999
Q ss_pred HHHHHHhccCC--------C-C-hHHHHHHHHHHHHHHHHHHHHHHHH
Q 022963 87 KVIFQVHRISR--------D-N-KEEVLKKAEADLEAVKDQYISRLVK 124 (289)
Q Consensus 87 kiIf~LHR~~~--------~-~-~~~~l~~A~~~l~~v~~~~l~~La~ 124 (289)
-.|..+.|-.. . . -+.....+++.++++.+++++.+-+
T Consensus 126 v~iRniRr~~~~~iKk~~k~~~iseD~~k~~e~eiQkltd~~i~~id~ 173 (185)
T PRK00083 126 VAIRNIRRDANDKLKKLEKDKEISEDELKRAEDEIQKLTDKYIKKIDE 173 (185)
T ss_pred HHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99888777421 1 1 1334555666666666665555443
No 17
>PF15647 Tox-REase-3: Restriction endonuclease fold toxin 3
Probab=26.31 E-value=2.7e+02 Score=22.67 Aligned_cols=77 Identities=18% Similarity=0.312 Sum_probs=38.9
Q ss_pred HHHHHHHH-----HHHHHHHHHHHHHHHHHHhccCC--CChHHHHH-HHHHHHHHHHHHHHHHHHHhhcCCChhhhhhhc
Q 022963 67 LNEKRERV-----VKSSRDITINSKKVIFQVHRISR--DNKEEVLK-KAEADLEAVKDQYISRLVKELQGTDFWKLRRAY 138 (289)
Q Consensus 67 ~~d~REri-----ik~SRdIt~~SKkiIf~LHR~~~--~~~~~~l~-~A~~~l~~v~~~~l~~La~~l~~~~~~ry~~~~ 138 (289)
.++.||++ ++..|++..-|-..|.+.-+.-+ ++...-++ +.++.+++-. +.|.+-...-||-|.+.+
T Consensus 14 ed~lr~k~gG~S~~~~~RE~D~Vtd~~i~Q~K~~~s~i~~pkn~lnk~~R~QiK~Ti-----eaA~q~gkka~f~F~~~v 88 (109)
T PF15647_consen 14 EDLLREKLGGQSRIKFGREFDVVTDQYIAQAKPTLSAIDKPKNFLNKKTRNQIKATI-----EAAEQQGKKAYFWFKGEV 88 (109)
T ss_pred HHHHHHHhCCchhhhcccchhhhhHHHHHHhCCccccccchHHHhhHHHHHHHHHHH-----HHHHHhCCeEEEEecccc
Confidence 34556555 34446777777777766555432 11111222 2333333222 123222222244466678
Q ss_pred chhHHHHHHH
Q 022963 139 SPGVQEYVEA 148 (289)
Q Consensus 139 s~~lQEyVEA 148 (289)
.+-++||+|-
T Consensus 89 ~~kv~eY~e~ 98 (109)
T PF15647_consen 89 HDKVKEYIER 98 (109)
T ss_pred cHHHHHHHHH
Confidence 8889999985
No 18
>PF02255 PTS_IIA: PTS system, Lactose/Cellobiose specific IIA subunit; InterPro: IPR003188 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIA PTS system enzymes. This family of proteins normally function as a homotrimer, stabilised by a centrally located metal ion []. Separation into subunits is thought to occur after phosphorylation.; GO: 0005351 sugar:hydrogen symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane; PDB: 3L8R_D 2E2A_B 1E2A_C 3K1S_C 2LRK_C 2LRL_A 2WY2_A 1WCR_A 2WWV_C.
Probab=26.23 E-value=3.3e+02 Score=21.46 Aligned_cols=57 Identities=18% Similarity=0.222 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 022963 74 VVKSSRDITINSKKVIFQVHRISRDNKEEVLKKAEADLEAVKDQYISRLVKELQGTD 130 (289)
Q Consensus 74 iik~SRdIt~~SKkiIf~LHR~~~~~~~~~l~~A~~~l~~v~~~~l~~La~~l~~~~ 130 (289)
||-.+.|--..+-++|-....++.+.+.+.+++|.+.+.+..+.+..-|..+..|..
T Consensus 7 iI~~aG~Ars~~~eAl~~a~~~~fe~A~~~l~~a~~~l~~AH~~qt~llq~ea~g~~ 63 (96)
T PF02255_consen 7 IISHAGDARSLAMEALKAAREGDFEEAEELLKEADEELLKAHKIQTELLQQEANGEK 63 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 444455544444555555655666667888999999988877777777777777653
No 19
>PF11473 B2: RNA binding protein B2; InterPro: IPR024377 Protein B2 binds double-strand RNA (dsRNA) with high affinity and suppresses the host RNA silencing-based antiviral response. B2 is expressed by the insect Flock House virus (FHV) as a counter-defense mechanism against antiviral RNA silencing during infection. In vitro, B2 binds to dsRNA as a dimer and inhibits the cleavage of it by Dicer. B2 blocks cleavage of the FHV genome by Dicer and also the incorporation of FHV small interfering RNAs into the RNA-induced silencing complex [].; PDB: 2AZ2_A 2B9Z_A 2AZ0_A.
Probab=24.80 E-value=76 Score=23.88 Aligned_cols=45 Identities=9% Similarity=0.108 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCCCCCcchhhHHHHHHHHHHHHhhhhhee
Q 022963 215 AEKICRFSRDIYRELTLVVPLMDNNSDMKTKMDTMLQSVLKIENACLSVH 264 (289)
Q Consensus 215 ~~~i~~fm~~Iy~~f~~L~~~lk~n~~LRkK~D~lk~slkKvE~v~Ydl~ 264 (289)
|.+|+..|+.+-+. .|... ....||-+|.++-.|.|.|..|+...
T Consensus 12 p~~iq~aV~~~~~~----~~~~~-p~~V~kDLdn~kaCL~K~e~T~~r~~ 56 (73)
T PF11473_consen 12 PDRIQQAVEAAIDM----SYQCA-PNNVRKDLDNYKACLNKAEATVFRAT 56 (73)
T ss_dssp HHHHHHHHHHHHCS-----GTTS--HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcC----CcccC-chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44677777766432 22221 33789999999999999999998754
No 20
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=24.78 E-value=2.3e+02 Score=24.39 Aligned_cols=37 Identities=8% Similarity=0.233 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCCcchhhHHHHHHHHHHHHhhh
Q 022963 217 KICRFSRDIYRELTLVVPLMDNNSDMKTKMDTMLQSVLKIENAC 260 (289)
Q Consensus 217 ~i~~fm~~Iy~~f~~L~~~lk~n~~LRkK~D~lk~slkKvE~v~ 260 (289)
.+.+=+++|-..+..+ ..|.+++..+|..|.+.|.+|
T Consensus 113 ~liakceELn~~M~~v-------~~La~qIK~Ik~~lD~lE~~~ 149 (149)
T PF10157_consen 113 TLIAKCEELNESMKPV-------YKLAQQIKDIKKLLDLLESLC 149 (149)
T ss_pred HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhcC
Confidence 3444455555555544 578999999999999999876
No 21
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=24.40 E-value=4.6e+02 Score=22.90 Aligned_cols=101 Identities=24% Similarity=0.281 Sum_probs=59.1
Q ss_pred CccccccccccccccccccCCCCCCCCchHHHHHHHHHHH-------H----------hhHHHHHHHHHHHHHHHHHHHH
Q 022963 24 SKTHRLHQLSGTALQSIAKRPRTITTESYMKDAFANYAGY-------L----------NELNEKRERVVKSSRDITINSK 86 (289)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~e-------L----------d~~~d~REriik~SRdIt~~SK 86 (289)
...+|+.+++.-+..++..-.-+....+.+..+-..+++. - .=-.++|++++|......-.+|
T Consensus 42 g~~~pL~~lA~Vsv~~~~~l~I~p~D~~~i~~I~kAI~~s~l~l~P~~dg~~iri~iP~lT~E~R~~lvK~~k~~~E~~K 121 (179)
T cd00520 42 GAPTPLNQLASISVPEPRTIVINPFDKSAIKAIEKAILNSDLGLNPNNDGAVIRVNLPPLTEERRKELVKDAKKIAEEAK 121 (179)
T ss_pred CCCccHHHceeeecCCCCEEEEeecchhhHHHHHHHHHHCCCCCCcCcCCCEEEecCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 4566777755443333222223333445666666666652 0 0123789999999999988899
Q ss_pred HHHHHHhccCCC----------ChHHHHHHHHHHHHHHHHHHHHHHHH
Q 022963 87 KVIFQVHRISRD----------NKEEVLKKAEADLEAVKDQYISRLVK 124 (289)
Q Consensus 87 kiIf~LHR~~~~----------~~~~~l~~A~~~l~~v~~~~l~~La~ 124 (289)
..|..+.|-..+ -.+..+..+++.++++.+++++.+-+
T Consensus 122 v~iRniR~~~~~~lKk~~k~~~iseD~~k~~~~~iqkltd~~i~~id~ 169 (179)
T cd00520 122 VAIRNIRRDANDKIKKLEKEKEISEDEVKKAEEDLQKLTDEYIKKIDE 169 (179)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 988877664210 02334556667777777666555543
No 22
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1. This CD includes terpenoid cyclases such as pentalenene synthase and aristolochene synthase which, using an all-trans pathway, catalyze the ionization of farnesyl diphosphate, followed by the formation of a macrocyclic intermediate by bond formation between C1 with either C10 (aristolochene synthase) or C11 (pentalenene synthase), resulting in production of tricyclic hydrocarbon pentalenene or bicyclic hydrocarbon aristolochene. As with other enzymes with the 'terpenoid synthase fold', they have two conserved metal binding motifs, proposed to coordinate Mg2+ ion-bridged binding of the diphosphate moiety of FPP to the enzymes. Metal-triggered substrate ionization initiates catalysis, and the alpha-barrel active site serves as a template to channel and stabilize the conformations of reactive carbocation intermediates through a complex cyclization cascade. These enzymes function in the monomeric form and are found in
Probab=23.74 E-value=2.1e+02 Score=26.25 Aligned_cols=33 Identities=18% Similarity=0.246 Sum_probs=21.5
Q ss_pred hhhhcchhHHHHHHHHHHH-HHHhcCCCCCHHHH
Q 022963 134 LRRAYSPGVQEYVEAATFC-KFCRTGTLLDLEEL 166 (289)
Q Consensus 134 y~~~~s~~lQEyVEA~sf~-~~L~~~~Llt~eev 166 (289)
+.+.+...+.+|+.+..-. .+-.+|.++|.++-
T Consensus 130 ~~~r~~~~~~~~~~a~~~e~~~~~~~~~psl~eY 163 (303)
T cd00687 130 WFNRFAHYTEDYFDAYIWEGKNRLNGHVPDVAEY 163 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCcCHHHH
Confidence 3445556677888776543 35567788888774
No 23
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=21.99 E-value=1.7e+02 Score=27.68 Aligned_cols=35 Identities=23% Similarity=0.210 Sum_probs=26.3
Q ss_pred ChhhHHhhHHHhHHHHHHHHhhhhcCCchHHHHHH
Q 022963 184 NVFDYLLGLADLTGELMRLAIGRISDGELEFAEKI 218 (289)
Q Consensus 184 ~~~DYLlGL~DLtGELmR~ain~v~~Gd~e~~~~i 218 (289)
.-.-||-.||+++-||--..+..++.-++.....+
T Consensus 123 ~RS~yLe~Lc~IIqeLq~t~~~~LS~~dl~e~~~~ 157 (269)
T PF05278_consen 123 FRSYYLECLCDIIQELQSTPLKELSESDLKEMIAT 157 (269)
T ss_pred HHHHHHHHHHHHHHHHhcCcHhhhhHHHHHHHHHH
Confidence 35789999999999997666777777666554433
No 24
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=20.69 E-value=4.5e+02 Score=21.08 Aligned_cols=57 Identities=14% Similarity=0.161 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 022963 74 VVKSSRDITINSKKVIFQVHRISRDNKEEVLKKAEADLEAVKDQYISRLVKELQGTD 130 (289)
Q Consensus 74 iik~SRdIt~~SKkiIf~LHR~~~~~~~~~l~~A~~~l~~v~~~~l~~La~~l~~~~ 130 (289)
||--+.|--..+-.++-..-.++.+.+.+.+++|++.+.+..+.+.+-|..+..|..
T Consensus 13 II~~aG~Ars~~~eAl~~ak~gdf~~A~~~l~eA~~~l~~AH~~qt~liq~Ea~g~~ 69 (104)
T PRK09591 13 IILHSGNARTEVHEAFAAMREGNFDLAEQKLNQSNEELLEAHHAQTKLLQEYASGTE 69 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 344444433344444444545555667888999999888777777777777777654
Done!