Query 013054
Match_columns 450
No_of_seqs 154 out of 191
Neff 4.7
Searched_HMMs 46136
Date Thu Mar 28 23:56:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013054.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013054hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2656 DNA methyltransferase 100.0 9E-106 2E-110 806.6 29.7 411 1-450 4-445 (445)
2 PF05499 DMAP1: DNA methyltran 100.0 1.1E-33 2.4E-38 262.2 9.7 166 222-394 1-173 (176)
3 cd00167 SANT 'SWI3, ADA2, N-Co 97.6 4.4E-05 9.6E-10 53.7 2.1 43 129-172 1-44 (45)
4 PF00249 Myb_DNA-binding: Myb- 97.3 7.7E-05 1.7E-09 55.4 1.0 44 129-172 3-47 (48)
5 smart00717 SANT SANT SWI3, AD 97.3 0.00013 2.9E-09 51.9 2.2 45 128-173 2-47 (49)
6 PF13921 Myb_DNA-bind_6: Myb-l 96.9 0.00031 6.7E-09 54.0 1.0 41 130-171 1-41 (60)
7 PLN03212 Transcription repress 96.2 0.0097 2.1E-07 59.2 6.2 63 119-182 66-132 (249)
8 PLN03091 hypothetical protein; 96.0 0.01 2.2E-07 63.2 5.5 63 119-182 55-121 (459)
9 PLN03212 Transcription repress 88.0 0.61 1.3E-05 46.7 4.2 51 124-174 22-73 (249)
10 PF13837 Myb_DNA-bind_4: Myb/S 74.1 0.93 2E-05 36.9 -0.3 55 128-182 2-73 (90)
11 PF05499 DMAP1: DNA methyltran 70.7 5.5 0.00012 38.2 4.0 115 200-339 16-138 (176)
12 cd05560 Xcc1710_like Xcc1710_l 56.7 8.3 0.00018 33.7 2.2 32 328-360 69-100 (109)
13 PLN03091 hypothetical protein; 56.6 5.5 0.00012 43.1 1.3 51 123-173 10-61 (459)
14 cd05126 Mth938 Mth938 domain. 56.3 8.7 0.00019 34.2 2.3 32 328-360 76-107 (117)
15 cd00248 Mth938-like Mth938-lik 56.2 9.5 0.00021 33.2 2.6 32 328-360 69-100 (109)
16 PF08963 DUF1878: Protein of u 54.8 6.2 0.00014 35.3 1.2 31 116-146 24-54 (113)
17 PF14597 Lactamase_B_5: Metall 50.2 11 0.00025 36.6 2.2 74 66-171 6-79 (199)
18 PF04430 DUF498: Protein of un 49.6 8.5 0.00018 33.4 1.2 32 328-360 70-101 (110)
19 COG5114 Histone acetyltransfer 46.0 8.8 0.00019 40.1 0.8 47 125-172 61-108 (432)
20 cd05125 Mth938_2P1-like Mth938 45.1 16 0.00034 32.4 2.2 31 328-359 71-101 (114)
21 PHA00649 hypothetical protein 44.8 63 0.0014 26.9 5.4 41 326-373 15-55 (83)
22 PF03993 DUF349: Domain of Unk 43.9 42 0.00091 26.5 4.3 19 163-181 1-19 (77)
23 COG1168 MalY Bifunctional PLP- 37.1 26 0.00056 37.5 2.6 26 129-156 174-199 (388)
24 PF13873 Myb_DNA-bind_5: Myb/S 34.5 40 0.00086 26.9 2.8 49 127-178 2-50 (78)
25 KOG0457 Histone acetyltransfer 33.2 25 0.00054 38.0 1.8 47 125-172 70-117 (438)
26 KOG0048 Transcription factor, 29.3 57 0.0012 32.1 3.5 53 127-180 62-115 (238)
27 TIGR01557 myb_SHAQKYF myb-like 29.3 40 0.00087 26.4 1.9 41 129-169 5-50 (57)
28 PRK08068 transaminase; Reviewe 27.4 56 0.0012 33.5 3.2 28 129-157 183-210 (389)
29 cd03007 PDI_a_ERp29_N PDIa fam 26.5 60 0.0013 28.9 2.8 29 139-167 68-110 (116)
30 cd03769 SR_IS607_transposase_l 26.1 77 0.0017 28.3 3.5 54 130-183 74-130 (134)
31 KOG0048 Transcription factor, 24.0 56 0.0012 32.1 2.3 36 128-163 10-46 (238)
32 PF03776 MinE: Septum formatio 23.9 1.2E+02 0.0025 24.7 3.8 34 147-180 9-45 (70)
33 cd06227 Peptidase_M14-like_2 A 23.8 1.3E+02 0.0028 30.5 4.9 78 66-152 98-180 (272)
34 PRK09147 succinyldiaminopimela 22.4 84 0.0018 32.3 3.4 28 129-157 182-209 (396)
35 COG3623 SgaU Putative L-xylulo 22.4 1.6E+02 0.0034 30.2 5.0 68 112-179 33-104 (287)
36 PF07357 DRAT: Dinitrogenase r 22.3 59 0.0013 33.1 2.1 54 82-143 100-160 (262)
37 PRK07681 aspartate aminotransf 22.1 86 0.0019 32.3 3.4 28 129-157 182-209 (399)
38 KOG0049 Transcription factor, 21.8 42 0.00092 38.3 1.1 47 127-173 305-354 (939)
39 PRK06620 hypothetical protein; 21.7 1.5E+02 0.0032 28.6 4.7 41 129-169 96-136 (214)
40 PRK14841 undecaprenyl pyrophos 21.6 72 0.0016 31.8 2.6 79 110-205 50-139 (233)
41 PHA02550 32 single-stranded DN 20.8 1.1E+02 0.0024 31.7 3.8 63 101-181 187-249 (304)
42 PRK06290 aspartate aminotransf 20.5 93 0.002 32.6 3.3 28 129-157 195-222 (410)
43 cd04765 HTH_MlrA-like_sg2 Heli 20.4 1.7E+02 0.0037 25.0 4.3 34 328-364 62-95 (99)
No 1
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=9.2e-106 Score=806.62 Aligned_cols=411 Identities=41% Similarity=0.609 Sum_probs=317.8
Q ss_pred CchhhhhCCCCC-CCCCc-ccccCCCCCCCCCCCCcccHHHHHhhC-CCCCCCccccccccccCCCCC-CCCCceecccc
Q 013054 1 MDAKDILGIPKT-QLPTT-QEKKSRPQKEPQRKPDGISREVYALTG-GLAPLMPSIDVSQLKKRPPSD-EKITWQWLPFT 76 (450)
Q Consensus 1 ~DvrDIL~l~~~-~~~~~-~~Kk~~~~~~~~krp~Gm~REv~aLlG-~~~P~~p~~~~~~~K~k~~~~-k~~~W~~~pF~ 76 (450)
+||+|||+||+. ...+. ++++.++++...+||+||||||||||| |.||++|+++. .||+++..+ ++++|.|+||+
T Consensus 4 aDirDIL~l~~~t~~~~~kq~s~~rs~t~s~rrPeGm~REvyaLlg~n~pPL~ps~~~-~fkek~l~s~K~~~W~w~pFt 82 (445)
T KOG2656|consen 4 ADIRDILELPQKTRSLTNKQKSKPRSSTESRRRPEGMSREVYALLGENAPPLLPSDTN-NFKEKRLGSKKVRPWKWVPFT 82 (445)
T ss_pred ccHHHHhcCCCCCCCCcccccccCCCchhccCCCcchhHHHHHHhcCCCCCccccccc-hhhhccCccccCCCceeeccC
Confidence 699999999984 32332 222234445567899999999999999 57899998864 488776655 77899999999
Q ss_pred ccccCCCcEEeeeeecCCCCCCCCCCCcccccCCCccccCCHHHHHhhcCCCCCCHHHHHHHHHHhhhcCcceEEEecCC
Q 013054 77 NSARKDNLQLYHWVRVVNGVPPTGDYSFAKYNKSVDVVKYTDEEYEKYLTDPMWTKEETDQLFELCERFDLRFIVIADRF 156 (450)
Q Consensus 77 N~AR~D~l~L~HWvr~~~~~~~~~~y~FaKfN~~v~ip~ytdeEY~~~L~d~~WT~eETdyLfdLc~~fDLRw~VI~DRy 156 (450)
|+||+|+++|||||++.+. .+||||||||++|+||.||||||+.||.|+.||++|||||||||++||||||||+|||
T Consensus 83 n~aRkD~~~l~HWvr~~d~---~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~VIaDRy 159 (445)
T KOG2656|consen 83 NSARKDDATLHHWVRVGDT---PKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFFVIADRY 159 (445)
T ss_pred CccccCCceEEeeeeccCC---CCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEEEEeecc
Confidence 9999999999999999543 7899999999999999999999999999999999999999999999999999999998
Q ss_pred C-----CCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCccCCCCChHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Q 013054 157 P-----SSRTVEELKDRYYGVSRAILIARAPSPTDVSGHPLVKDPYNVSQEVERKRALSMVLSQTKHQERKDAEVLAEAK 231 (450)
Q Consensus 157 ~-----~~RtvEDLK~RYY~V~~~l~~~R~~~~~~~~~~~l~~~~fd~~~E~~RK~~L~~ll~RT~~qi~EEe~L~~E~k 231 (450)
+ .+|||||||||||+||++|+.+|++++.+ -+-.++||++||++||+||++||+||++||+|||+|++|+|
T Consensus 160 d~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s~sd----llk~~~yd~e~Er~RKk~L~~L~sRt~~qvaEEe~Ll~E~K 235 (445)
T KOG2656|consen 160 DNQQYKKSRTVEDLKERYYSVCRKLLKARAPSNSD----LLKSLVYDAEHERERKKYLERLLSRTPEQVAEEEALLVELK 235 (445)
T ss_pred chhhccccccHHHHHHHHHHHHHHHHHccCCCchh----hhhccccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH
Confidence 5 47999999999999999999999987654 12237999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhccCCCC-CccccCCCccccccccc----------CC-C---CCCCCCCCCCCcccCCCccccchhhhhh
Q 013054 232 RITDSRMASRAAEEPEM-PVASHVGSESADRAVVL----------GD-T---VSPSSNIQLPSATVVPSTSIIADSASTL 296 (450)
Q Consensus 232 rie~~R~~ek~~~e~~l-~~~s~~~~~~~e~~~~p----------~~-~---~~~~~~~~~p~a~~~~s~~~~~~~~~~~ 296 (450)
|||+ |++++..+.+++ ..+++++.+..+....| +. + ..+...+..|.+...++++.|++
T Consensus 236 kiEa-rkke~~~~~~~l~rlld~ad~~i~~~stS~~~~~~~~~~~a~kt~~k~~~a~v~a~~~~s~~ss~~~F~~----- 309 (445)
T KOG2656|consen 236 KIEA-RKKERLAERQDLLRLLDSADGDITQYSTSPGMSSLENALLAKKTRQKKHEANVPASPRESWMSSGIKFAD----- 309 (445)
T ss_pred HHHH-HhhhhhhhhHHHHHhhhcccccccccccChhHHHHHHHHhhhhhhcccccccCccccchhhhhhhhhccc-----
Confidence 9996 667777776664 22333332221110000 00 0 01111111222223344443433
Q ss_pred hhhhccceeeehhhHHHHHHhhhcccchhHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013054 297 ASLRMLRVYLRTYALEQMVQAASSSAGLRTIKRVEQALQELGVNLKPKVPTKAVCAEHLELRKEILTLLNLQKQLQYKEA 376 (450)
Q Consensus 297 ~~lr~~gvyLRs~~l~~~~~a~~~~~G~k~~K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~Iv~LleLKK~l~k~E~ 376 (450)
++..++.||++++ . .++++|++++|+++|+|+|+||.+.| .||+.||..|+|||++|++|++|+.++..|++
T Consensus 310 --~~~~l~tlr~q~m---~--~panvgqrkiK~~EQ~lq~~~v~~sp-~pte~l~~~fnElrs~vvtl~eL~~~l~~~~~ 381 (445)
T KOG2656|consen 310 --LRVALVTLRSQRM---K--QPANVGQRKIKRLEQELQELGVRLSP-APTEQLCKSFNELRSDVVTLLELSPALYLCEY 381 (445)
T ss_pred --chhhhhccchhhc---c--CccccchhhhHHHHHHHHHhccCCCC-CCHHHHHHHHHHHHHHHHHHhhccHhhhhhhh
Confidence 3344556666544 3 67889999999999999999999999 99999999999999999999999999999999
Q ss_pred hhhhhcccc-ccCCCCCCccccccCCCCCcccccccCCCcccccccccccc-----CCCCCCCCCCCCCCCCccc-ccCC
Q 013054 377 EGSSYRDGS-YIDMPGTPKRSQRAGDQDRTFVPESINFGGERVGKRDQKRK-----GPGRLSEAPSSPAHKRPRK-KASD 449 (450)
Q Consensus 377 El~~lr~~~-~~~~p~tP~~~~r~~~~~~~~~~~~~~~~~~r~~~~~~krk-----~~~~~~~~~~~~~~~~~~~-~~~~ 449 (450)
|+++++|++ +++++. . +.++.+.++-++..+-++|++ +| +.-||++|+|+|+ +||+
T Consensus 382 e~~s~k~~~~~~~~~~-----~--------~l~~P~~p~~~~~~~~e~~~~~~~~~~p----~g~~~~~h~~kr~~~as~ 444 (445)
T KOG2656|consen 382 ELSSLKHALNEALAIL-----Q--------ELSLPSRPVLPPFDVMERKESTLKKIGP----LGIPSKKHVRKREAGASI 444 (445)
T ss_pred hhhhhhhhhhhhhhhh-----h--------hcCCCCCCCCCCcchhhhhhhhcccCCC----CCCCcccccchhhccccc
Confidence 999999998 444322 2 333333333444444444433 44 2345999999999 9997
Q ss_pred C
Q 013054 450 L 450 (450)
Q Consensus 450 ~ 450 (450)
+
T Consensus 445 ~ 445 (445)
T KOG2656|consen 445 T 445 (445)
T ss_pred C
Confidence 5
No 2
>PF05499 DMAP1: DNA methyltransferase 1-associated protein 1 (DMAP1); InterPro: IPR008468 DNA methylation can contribute to transcriptional silencing through several transcriptionally repressive complexes, which include methyl-CpG binding domain proteins (MBDs) and histone deacetylases (HDACs). The chief enzyme that maintains mammalian DNA methylation, DNMT1, can also establish a repressive transcription complex. The non-catalytic N terminus of DNMT1 binds to HDAC2 and DMAP1 (for DNMT1 associated protein), and can mediate transcriptional repression. DMAP1 has intrinsic transcription repressive activity, and binds to the transcriptional co-repressor TSG101. DMAP1 is targeted to replication foci through interaction with the far N terminus of DNMT1 throughout S phase, whereas HDAC2 joins DNMT1 and DMAP1 only during late S phase, providing a platform for how histones may become deacetylated in heterochromatin following replication [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=100.00 E-value=1.1e-33 Score=262.17 Aligned_cols=166 Identities=28% Similarity=0.396 Sum_probs=119.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCCCccccCCCcccccccccC---CCCCCCCCCCCCCcccC---CCccccch-hhh
Q 013054 222 KDAEVLAEAKRITDSRMASRAAEEPEMPVASHVGSESADRAVVLG---DTVSPSSNIQLPSATVV---PSTSIIAD-SAS 294 (450)
Q Consensus 222 EEe~L~~E~krie~~R~~ek~~~e~~l~~~s~~~~~~~e~~~~p~---~~~~~~~~~~~p~a~~~---~s~~~~~~-~~~ 294 (450)
||++|+.|||+||+ |+++|+++++||..++++.-.......+.. ......+...+|.++.. ......+. +..
T Consensus 1 EEe~Li~ELrKIE~-RKkEREKK~qDLqkLit~ad~~~~~~~~~a~~rk~ekk~~kKk~~~~~~~~~~~~~~~v~~~agi 79 (176)
T PF05499_consen 1 EEEMLIAELRKIEA-RKKEREKKTQDLQKLITAADQQPTPATNTAEARKTEKKSSKKKLPQKARPSKKKESPAVPETAGI 79 (176)
T ss_pred CHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhhccccCCCCCccHhhhhhhhccCCcccccCCCcccccccccchhhhcc
Confidence 79999999999995 889999999998765443221100000000 00000000011111000 00000011 112
Q ss_pred hhhhhhccceeeehhhHHHHHHhhhcccchhHHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013054 295 TLASLRMLRVYLRTYALEQMVQAASSSAGLRTIKRVEQALQELGVNLKPKVPTKAVCAEHLELRKEILTLLNLQKQLQYK 374 (450)
Q Consensus 295 ~~~~lr~~gvyLRs~~l~~~~~a~~~~~G~k~~K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~Iv~LleLKK~l~k~ 374 (450)
.+..+++.||||||++| ++|+++|++++|+|+++|+||||+++| |||+.||+.||+||++||+|+|||+++++|
T Consensus 80 kFpd~k~~GV~LRSq~m-----klp~~vGqKk~K~iEq~L~elgv~~~P-mPTe~Ic~~fneLRsdivlL~eLk~a~~~~ 153 (176)
T PF05499_consen 80 KFPDFKSAGVHLRSQRM-----KLPSSVGQKKTKAIEQFLQELGVDLNP-MPTEEICQEFNELRSDIVLLYELKQALQNC 153 (176)
T ss_pred ccccccCCceEeeeccc-----ccCcchhhHHHHHHHHHHHHcCCCCCC-CChHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33446678999999988 489999999999999999999999999 999999999999999999999999999999
Q ss_pred HHhhhhhccccccCCCCCCc
Q 013054 375 EAEGSSYRDGSYIDMPGTPK 394 (450)
Q Consensus 375 E~El~~lr~~~~~~~p~tP~ 394 (450)
|+|+++|||++++++||-+.
T Consensus 154 E~El~~lr~r~eal~~gk~~ 173 (176)
T PF05499_consen 154 EYELQSLRHRYEALAPGKTL 173 (176)
T ss_pred HHHHHHHHHHHHhhCCCCCC
Confidence 99999999999999999754
No 3
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=97.55 E-value=4.4e-05 Score=53.70 Aligned_cols=43 Identities=28% Similarity=0.594 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHHhhhcC-cceEEEecCCCCCCCHHHHHHHHHHH
Q 013054 129 MWTKEETDQLFELCERFD-LRFIVIADRFPSSRTVEELKDRYYGV 172 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fD-LRw~VI~DRy~~~RtvEDLK~RYY~V 172 (450)
.||.+|...|+.+|+.|+ ..|-.|+..++. ||.++++.|||.+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHh
Confidence 499999999999999999 999999998865 9999999999975
No 4
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=97.32 E-value=7.7e-05 Score=55.38 Aligned_cols=44 Identities=32% Similarity=0.669 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHhhhcCcc-eEEEecCCCCCCCHHHHHHHHHHH
Q 013054 129 MWTKEETDQLFELCERFDLR-FIVIADRFPSSRTVEELKDRYYGV 172 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDLR-w~VI~DRy~~~RtvEDLK~RYY~V 172 (450)
.||.||.+.|.++++.|+-. |-.|++.++..||..+++.|||..
T Consensus 3 ~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 3 PWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhh
Confidence 69999999999999999999 999999999999999999999964
No 5
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=97.32 E-value=0.00013 Score=51.89 Aligned_cols=45 Identities=31% Similarity=0.609 Sum_probs=41.5
Q ss_pred CCCCHHHHHHHHHHhhhcC-cceEEEecCCCCCCCHHHHHHHHHHHH
Q 013054 128 PMWTKEETDQLFELCERFD-LRFIVIADRFPSSRTVEELKDRYYGVS 173 (450)
Q Consensus 128 ~~WT~eETdyLfdLc~~fD-LRw~VI~DRy~~~RtvEDLK~RYY~V~ 173 (450)
..||.+|...|..++..|+ .+|-.|+..++ .||..+++.|||.+-
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~ 47 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLL 47 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHc
Confidence 4699999999999999999 99999998886 899999999999864
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=96.94 E-value=0.00031 Score=53.98 Aligned_cols=41 Identities=32% Similarity=0.647 Sum_probs=36.6
Q ss_pred CCHHHHHHHHHHhhhcCcceEEEecCCCCCCCHHHHHHHHHH
Q 013054 130 WTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYG 171 (450)
Q Consensus 130 WT~eETdyLfdLc~~fDLRw~VI~DRy~~~RtvEDLK~RYY~ 171 (450)
||.||.+.|+.|+..|+-.|--|+..+ +.||..+++.||+.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l-~~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHL-GNRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHS-TTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHH-CcCCHHHHHHHHHH
Confidence 999999999999999999999999998 48999999999999
No 7
>PLN03212 Transcription repressor MYB5; Provisional
Probab=96.21 E-value=0.0097 Score=59.17 Aligned_cols=63 Identities=25% Similarity=0.339 Sum_probs=54.6
Q ss_pred HHHHhhcC----CCCCCHHHHHHHHHHhhhcCcceEEEecCCCCCCCHHHHHHHHHHHHHHHHHhcCC
Q 013054 119 EEYEKYLT----DPMWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYGVSRAILIARAP 182 (450)
Q Consensus 119 eEY~~~L~----d~~WT~eETdyLfdLc~~fDLRw~VI~DRy~~~RtvEDLK~RYY~V~~~l~~~R~~ 182 (450)
|=|..||. ...||.||-+.|+++...|+=+|..|+..+ ..||--++|.|||++.++.+..+.-
T Consensus 66 eRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnKWs~IAk~L-pGRTDnqIKNRWns~LrK~l~r~~i 132 (249)
T PLN03212 66 LRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLIAGRI-PGRTDNEIKNYWNTHLRKKLLRQGI 132 (249)
T ss_pred HHHHHhhchhcccCCCChHHHHHHHHHHHhccccHHHHHhhc-CCCCHHHHHHHHHHHHhHHHHhcCC
Confidence 33777874 468999999999999999999999999876 5799999999999999998877653
No 8
>PLN03091 hypothetical protein; Provisional
Probab=96.00 E-value=0.01 Score=63.23 Aligned_cols=63 Identities=22% Similarity=0.340 Sum_probs=55.0
Q ss_pred HHHHhhcC----CCCCCHHHHHHHHHHhhhcCcceEEEecCCCCCCCHHHHHHHHHHHHHHHHHhcCC
Q 013054 119 EEYEKYLT----DPMWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYGVSRAILIARAP 182 (450)
Q Consensus 119 eEY~~~L~----d~~WT~eETdyLfdLc~~fDLRw~VI~DRy~~~RtvEDLK~RYY~V~~~l~~~R~~ 182 (450)
+=|..||. ...||.||-..|++|.+.|+=+|..|+..+ ..||--.+|.|||.+.++.++.+.-
T Consensus 55 ERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKWskIAk~L-PGRTDnqIKNRWnslLKKklr~~~I 121 (459)
T PLN03091 55 LRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIAAQL-PGRTDNEIKNLWNSCLKKKLRQRGI 121 (459)
T ss_pred HHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcchHHHHHhc-CCCCHHHHHHHHHHHHHHHHHHcCC
Confidence 44777774 457999999999999999999999999766 6899999999999999999887754
No 9
>PLN03212 Transcription repressor MYB5; Provisional
Probab=88.03 E-value=0.61 Score=46.71 Aligned_cols=51 Identities=20% Similarity=0.221 Sum_probs=44.6
Q ss_pred hcCCCCCCHHHHHHHHHHhhhcC-cceEEEecCCCCCCCHHHHHHHHHHHHH
Q 013054 124 YLTDPMWTKEETDQLFELCERFD-LRFIVIADRFPSSRTVEELKDRYYGVSR 174 (450)
Q Consensus 124 ~L~d~~WT~eETdyLfdLc~~fD-LRw~VI~DRy~~~RtvEDLK~RYY~V~~ 174 (450)
-|+-..||.||-..|..++++|. -+|-.|+-+.+..||--...+||+.+-+
T Consensus 22 glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 22 GMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred CCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhc
Confidence 34556799999999999999998 5899999887778999999999998765
No 10
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=74.06 E-value=0.93 Score=36.90 Aligned_cols=55 Identities=29% Similarity=0.486 Sum_probs=39.2
Q ss_pred CCCCHHHHHHHHHHhhh--cCcce------------EEEecCC---CCCCCHHHHHHHHHHHHHHHHHhcCC
Q 013054 128 PMWTKEETDQLFELCER--FDLRF------------IVIADRF---PSSRTVEELKDRYYGVSRAILIARAP 182 (450)
Q Consensus 128 ~~WT~eETdyLfdLc~~--fDLRw------------~VI~DRy---~~~RtvEDLK~RYY~V~~~l~~~R~~ 182 (450)
..||.+||..|+++..+ ++++| -.|++.. +..||.++++.++=++.+.+-..+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~~ 73 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKDR 73 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSSS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 36999999999999999 66654 3333332 45899999999999999999988764
No 11
>PF05499 DMAP1: DNA methyltransferase 1-associated protein 1 (DMAP1); InterPro: IPR008468 DNA methylation can contribute to transcriptional silencing through several transcriptionally repressive complexes, which include methyl-CpG binding domain proteins (MBDs) and histone deacetylases (HDACs). The chief enzyme that maintains mammalian DNA methylation, DNMT1, can also establish a repressive transcription complex. The non-catalytic N terminus of DNMT1 binds to HDAC2 and DMAP1 (for DNMT1 associated protein), and can mediate transcriptional repression. DMAP1 has intrinsic transcription repressive activity, and binds to the transcriptional co-repressor TSG101. DMAP1 is targeted to replication foci through interaction with the far N terminus of DNMT1 throughout S phase, whereas HDAC2 joins DNMT1 and DMAP1 only during late S phase, providing a platform for how histones may become deacetylated in heterochromatin following replication [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=70.71 E-value=5.5 Score=38.16 Aligned_cols=115 Identities=21% Similarity=0.246 Sum_probs=60.9
Q ss_pred HHHHHHH-HHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCccccCCCcccccccccCCCCCCCCCCCCC
Q 013054 200 SQEVERK-RALSMVLSQTKHQERKDAEVLAEAKRITDSRMASRAAEEPEMPVASHVGSESADRAVVLGDTVSPSSNIQLP 278 (450)
Q Consensus 200 ~~E~~RK-~~L~~ll~RT~~qi~EEe~L~~E~krie~~R~~ek~~~e~~l~~~s~~~~~~~e~~~~p~~~~~~~~~~~~p 278 (450)
-+|+||| +-|.+|++.+.++. +......|.|+.+.. .-++ + + ..+ +. .......+.+|
T Consensus 16 KkEREKK~qDLqkLit~ad~~~-~~~~~~a~~rk~ekk--~~kK-k---~---~~~----------~~-~~~~~~~~~v~ 74 (176)
T PF05499_consen 16 KKEREKKTQDLQKLITAADQQP-TPATNTAEARKTEKK--SSKK-K---L---PQK----------AR-PSKKKESPAVP 74 (176)
T ss_pred HHHHHHHHHHHHHHHhhccccC-CCCCccHhhhhhhhc--cCCc-c---c---ccC----------CC-cccccccccch
Confidence 3688888 57888888876665 445556666665521 1000 0 0 000 00 00000111122
Q ss_pred CcccCCCccccchhhhhhhhhhccceeeeh-------hhHHHHHHhhhcccchhHHHHHHHHHHHhCC
Q 013054 279 SATVVPSTSIIADSASTLASLRMLRVYLRT-------YALEQMVQAASSSAGLRTIKRVEQALQELGV 339 (450)
Q Consensus 279 ~a~~~~s~~~~~~~~~~~~~lr~~gvyLRs-------~~l~~~~~a~~~~~G~k~~K~Ie~~L~ELgv 339 (450)
..++++|+++.+.++.||++.|.|=+ ..|.++++-+.-....--...|-+..+||.-
T Consensus 75 ----~~agikFpd~k~~GV~LRSq~mklp~~vGqKk~K~iEq~L~elgv~~~PmPTe~Ic~~fneLRs 138 (176)
T PF05499_consen 75 ----ETAGIKFPDFKSAGVHLRSQRMKLPSSVGQKKTKAIEQFLQELGVDLNPMPTEEICQEFNELRS 138 (176)
T ss_pred ----hhhccccccccCCceEeeecccccCcchhhHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHH
Confidence 24578899998999999998887622 2344454433222222234567777777744
No 12
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=56.67 E-value=8.3 Score=33.72 Aligned_cols=32 Identities=22% Similarity=0.257 Sum_probs=27.0
Q ss_pred HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHH
Q 013054 328 KRVEQALQELGVNLKPKVPTKAVCAEHLELRKE 360 (450)
Q Consensus 328 K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~ 360 (450)
..+.+.|.+.||.+-. |+|.+.|..||.|.++
T Consensus 69 ~~~~~~l~~~gi~vE~-m~T~~AcrTyN~L~~E 100 (109)
T cd05560 69 PALLAPLLARGIGVEV-MDTQAACRTYNILMGE 100 (109)
T ss_pred HHHHHHHHHcCCeEEE-ECHHHHHHHHHHHHhC
Confidence 4567789999999765 9999999999999753
No 13
>PLN03091 hypothetical protein; Provisional
Probab=56.64 E-value=5.5 Score=43.09 Aligned_cols=51 Identities=14% Similarity=0.287 Sum_probs=43.0
Q ss_pred hhcCCCCCCHHHHHHHHHHhhhcCc-ceEEEecCCCCCCCHHHHHHHHHHHH
Q 013054 123 KYLTDPMWTKEETDQLFELCERFDL-RFIVIADRFPSSRTVEELKDRYYGVS 173 (450)
Q Consensus 123 ~~L~d~~WT~eETdyLfdLc~~fDL-Rw~VI~DRy~~~RtvEDLK~RYY~V~ 173 (450)
.-|+-..||.||-..|..++.+|+- .|..|+...+..||--+.++||+.+-
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyL 61 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYL 61 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhcc
Confidence 3455667999999999999999996 59999877667899999999998654
No 14
>cd05126 Mth938 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the protein has not been determined.
Probab=56.26 E-value=8.7 Score=34.16 Aligned_cols=32 Identities=22% Similarity=0.291 Sum_probs=27.0
Q ss_pred HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHH
Q 013054 328 KRVEQALQELGVNLKPKVPTKAVCAEHLELRKE 360 (450)
Q Consensus 328 K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~ 360 (450)
..+.+.|.+.||..-. |+|.+.|..||.|..+
T Consensus 76 ~~~~~~l~~~Gi~ve~-m~T~aAcrTYN~L~~E 107 (117)
T cd05126 76 PETVEKLEKRGVEVLV-LPTEEAVKRYNELAGK 107 (117)
T ss_pred HHHHHHHHhcCCEEEE-cChHHHHHHHHHHHhC
Confidence 3466699999999765 9999999999999864
No 15
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=56.21 E-value=9.5 Score=33.24 Aligned_cols=32 Identities=25% Similarity=0.389 Sum_probs=27.7
Q ss_pred HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHH
Q 013054 328 KRVEQALQELGVNLKPKVPTKAVCAEHLELRKE 360 (450)
Q Consensus 328 K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~ 360 (450)
..+...|.+.||..-. |+|.+.|..||.|..+
T Consensus 69 ~~~~~~l~~~gI~vE~-m~T~aAcrTyNiL~~E 100 (109)
T cd00248 69 RALRAALRAAGIGVEV-MSTGAACRTYNVLLSE 100 (109)
T ss_pred HHHHHHHHHcCCeEEE-eCcHHHHHHHHHHHhC
Confidence 5678889999999765 9999999999999854
No 16
>PF08963 DUF1878: Protein of unknown function (DUF1878); InterPro: IPR015058 This family consist of hypothetical bacterial proteins. ; PDB: 1SED_B.
Probab=54.80 E-value=6.2 Score=35.30 Aligned_cols=31 Identities=23% Similarity=0.418 Sum_probs=20.5
Q ss_pred CCHHHHHhhcCCCCCCHHHHHHHHHHhhhcC
Q 013054 116 YTDEEYEKYLTDPMWTKEETDQLFELCERFD 146 (450)
Q Consensus 116 ytdeEY~~~L~d~~WT~eETdyLfdLc~~fD 146 (450)
+++--|...+-..+||++|++-.++||++++
T Consensus 24 ~~k~PFy~LvI~~~Ltkeevee~~~lce~l~ 54 (113)
T PF08963_consen 24 MEKYPFYALVIRKGLTKEEVEEFLRLCEELS 54 (113)
T ss_dssp TTT-HHHHHHHHTT--HHHHHHHHHHHHHHH
T ss_pred cccCCHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 3333344455567899999999999999854
No 17
>PF14597 Lactamase_B_5: Metallo-beta-lactamase superfamily; PDB: 2P97_B.
Probab=50.21 E-value=11 Score=36.61 Aligned_cols=74 Identities=19% Similarity=0.272 Sum_probs=45.9
Q ss_pred CCCCceeccccccccCCCcEEeeeeecCCCCCCCCCCCcccccCCCccccCCHHHHHhhcCCCCCCHHHHHHHHHHhhhc
Q 013054 66 EKITWQWLPFTNSARKDNLQLYHWVRVVNGVPPTGDYSFAKYNKSVDVVKYTDEEYEKYLTDPMWTKEETDQLFELCERF 145 (450)
Q Consensus 66 k~~~W~~~pF~N~AR~D~l~L~HWvr~~~~~~~~~~y~FaKfN~~v~ip~ytdeEY~~~L~d~~WT~eETdyLfdLc~~f 145 (450)
++--|.|.-| |++|+=++.=+-|++.. =|+=|+-|.|+.+....+. .-=
T Consensus 6 rpdl~~Ws~f-n~~~n~dfng~~~~~p~-------------GnilIDP~~ls~~~~~~l~-----------------a~g 54 (199)
T PF14597_consen 6 RPDLFSWSWF-NEARNLDFNGHAWRRPE-------------GNILIDPPPLSAHDWKHLD-----------------ALG 54 (199)
T ss_dssp STTEEEEEEE-ETTTTEEEEEEEE--TT---------------EEES-----HHHHHHHH-----------------HTT
T ss_pred CCccchhhhc-ChhhccCceeEEEEcCC-------------CCEEecCccccHHHHHHHH-----------------hcC
Confidence 4446888888 77788778788898862 2777889999999987543 234
Q ss_pred CcceEEEecCCCCCCCHHHHHHHHHH
Q 013054 146 DLRFIVIADRFPSSRTVEELKDRYYG 171 (450)
Q Consensus 146 DLRw~VI~DRy~~~RtvEDLK~RYY~ 171 (450)
.++|||+.-| +..|.-++..++||.
T Consensus 55 gv~~IvLTn~-dHvR~A~~ya~~~~a 79 (199)
T PF14597_consen 55 GVAWIVLTNR-DHVRAAEDYAEQTGA 79 (199)
T ss_dssp --SEEE-SSG-GG-TTHHHHHHHS--
T ss_pred CceEEEEeCC-hhHhHHHHHHHHhCC
Confidence 7899999876 678999999999983
No 18
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=49.62 E-value=8.5 Score=33.35 Aligned_cols=32 Identities=22% Similarity=0.343 Sum_probs=25.8
Q ss_pred HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHH
Q 013054 328 KRVEQALQELGVNLKPKVPTKAVCAEHLELRKE 360 (450)
Q Consensus 328 K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~ 360 (450)
..+...|++.||.+- +|+|.+-|..||.|.++
T Consensus 70 ~~~~~~l~~~GI~ve-~m~T~~Ac~tyN~L~~E 101 (110)
T PF04430_consen 70 PELREYLRKKGIGVE-VMDTPAACRTYNILASE 101 (110)
T ss_dssp HHHHHHHHTTT-EEE-EE-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHcCCeEE-EECHHHHHHHHHHHHhC
Confidence 568889999999865 49999999999999865
No 19
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=45.99 E-value=8.8 Score=40.12 Aligned_cols=47 Identities=30% Similarity=0.450 Sum_probs=41.7
Q ss_pred cCCCCCCHHHHHHHHHHhhhcCc-ceEEEecCCCCCCCHHHHHHHHHHH
Q 013054 125 LTDPMWTKEETDQLFELCERFDL-RFIVIADRFPSSRTVEELKDRYYGV 172 (450)
Q Consensus 125 L~d~~WT~eETdyLfdLc~~fDL-Rw~VI~DRy~~~RtvEDLK~RYY~V 172 (450)
+-+++|+-.|--.|.+-|...+| .|-=|+|-.+ +|+-||.|+.||..
T Consensus 61 I~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~ 108 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKM 108 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHH
Confidence 34789999999999999999998 6888888666 99999999999864
No 20
>cd05125 Mth938_2P1-like Mth938_2P1-like domain. This model contains sequences that are similar to 2P1, a partially characterized nuclear protein, which is homologous to E3-3 from rat and known to be alternatively spliced. Its function is unknown. This family is part of the Mth938 family, for which structures, but no functional data are available.
Probab=45.08 E-value=16 Score=32.45 Aligned_cols=31 Identities=23% Similarity=0.428 Sum_probs=26.3
Q ss_pred HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHH
Q 013054 328 KRVEQALQELGVNLKPKVPTKAVCAEHLELRK 359 (450)
Q Consensus 328 K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~ 359 (450)
..+...|.+.||..-. |+|.+.|..||.|.+
T Consensus 71 ~~~~~~l~~~gi~vev-m~T~~AcrtyN~L~~ 101 (114)
T cd05125 71 PELRKYFKKLGIAVEV-VDTRNACATFNFLAE 101 (114)
T ss_pred HHHHHHHHHcCCEEEE-ECHHHHHHHHHHHHh
Confidence 3566888899999765 999999999999975
No 21
>PHA00649 hypothetical protein
Probab=44.78 E-value=63 Score=26.95 Aligned_cols=41 Identities=22% Similarity=0.340 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013054 326 TIKRVEQALQELGVNLKPKVPTKAVCAEHLELRKEILTLLNLQKQLQY 373 (450)
Q Consensus 326 ~~K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~Iv~LleLKK~l~k 373 (450)
.-+.|.++|.-|||+..- |-+ | +|+|.++.-+-..||+.|+
T Consensus 15 A~rAV~~~~~~LGVD~~~--P~~-V----EEFr~D~~~~Rr~RKA~D~ 55 (83)
T PHA00649 15 ADRAVKKVFAILGVDVDV--PEQ-V----EEFREDLRFGRRMRKAADH 55 (83)
T ss_pred HHHHHHHHHHHHcCCCCC--HHH-H----HHHHHHHHHHHHHHHHhhc
Confidence 347899999999999753 432 2 8999999999999999883
No 22
>PF03993 DUF349: Domain of Unknown Function (DUF349); InterPro: IPR007139 This motif is found singly or as up to five tandem repeats in a small set of bacterial proteins. There are two or three alpha-helices, and possibly a beta-strand.
Probab=43.94 E-value=42 Score=26.52 Aligned_cols=19 Identities=26% Similarity=0.370 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHhcC
Q 013054 163 EELKDRYYGVSRAILIARA 181 (450)
Q Consensus 163 EDLK~RYY~V~~~l~~~R~ 181 (450)
|+|..||..+|..+...+.
T Consensus 1 d~Lw~~F~~a~~~~~~~~~ 19 (77)
T PF03993_consen 1 DELWKRFRAACDAFFDRRK 19 (77)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 5799999999999998875
No 23
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=37.09 E-value=26 Score=37.45 Aligned_cols=26 Identities=50% Similarity=0.912 Sum_probs=22.9
Q ss_pred CCCHHHHHHHHHHhhhcCcceEEEecCC
Q 013054 129 MWTKEETDQLFELCERFDLRFIVIADRF 156 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDLRw~VI~DRy 156 (450)
-||+||---|-+||++||+| ||.|=.
T Consensus 174 vwt~eeL~~i~elc~kh~v~--VISDEI 199 (388)
T COG1168 174 VWTKEELRKIAELCLRHGVR--VISDEI 199 (388)
T ss_pred cccHHHHHHHHHHHHHcCCE--EEeecc
Confidence 49999999999999999996 677754
No 24
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=34.52 E-value=40 Score=26.92 Aligned_cols=49 Identities=20% Similarity=0.401 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHHHHHhhhcCcceEEEecCCCCCCCHHHHHHHHHHHHHHHHH
Q 013054 127 DPMWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYGVSRAILI 178 (450)
Q Consensus 127 d~~WT~eETdyLfdLc~~fDLRw~VI~DRy~~~RtvEDLK~RYY~V~~~l~~ 178 (450)
.+.||.+|+..|.+|+++| ..||.++....-|..+-..-+-.|+..|..
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~---~~il~~k~~~~~~~~~k~~~W~~I~~~lN~ 50 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKH---KDILENKFSDSVSNKEKRKAWEEIAEELNA 50 (78)
T ss_pred CCCCCHHHHHHHHHHHHHh---HHHHhcccccHHHHHHHHHHHHHHHHHHHh
Confidence 4689999999999999884 456666655444555544444555555554
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=33.20 E-value=25 Score=38.02 Aligned_cols=47 Identities=34% Similarity=0.576 Sum_probs=41.6
Q ss_pred cCCCCCCHHHHHHHHHHhhhcCc-ceEEEecCCCCCCCHHHHHHHHHHH
Q 013054 125 LTDPMWTKEETDQLFELCERFDL-RFIVIADRFPSSRTVEELKDRYYGV 172 (450)
Q Consensus 125 L~d~~WT~eETdyLfdLc~~fDL-Rw~VI~DRy~~~RtvEDLK~RYY~V 172 (450)
+-+++||-+|--.|.+-|+.|++ .|-=|+|-.+ .+|=||-|+.|+..
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~ 117 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKH 117 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHH
Confidence 56789999999999999999998 6888887666 89999999999974
No 26
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=29.32 E-value=57 Score=32.05 Aligned_cols=53 Identities=25% Similarity=0.380 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHhhhcCcceEEEecCCCCCCCHHHHHHHHHHH-HHHHHHhc
Q 013054 127 DPMWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYGV-SRAILIAR 180 (450)
Q Consensus 127 d~~WT~eETdyLfdLc~~fDLRw~VI~DRy~~~RtvEDLK~RYY~V-~~~l~~~R 180 (450)
-..||.||.+-|+.|-..|+-||-+|+=+. +.||--++|--.=+- +++|....
T Consensus 62 rg~fT~eEe~~Ii~lH~~~GNrWs~IA~~L-PGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 62 RGNFSDEEEDLIIKLHALLGNRWSLIAGRL-PGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred CCCCCHHHHHHHHHHHHHHCcHHHHHHhhC-CCcCHHHHHHHHHHHHHHHHHHcC
Confidence 458999999999999999999999998554 579999998766443 45555544
No 27
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=29.26 E-value=40 Score=26.43 Aligned_cols=41 Identities=12% Similarity=0.327 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHhhhcCc-ce---EEEecCCCCCC-CHHHHHHHH
Q 013054 129 MWTKEETDQLFELCERFDL-RF---IVIADRFPSSR-TVEELKDRY 169 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDL-Rw---~VI~DRy~~~R-tvEDLK~RY 169 (450)
.||.||-....+-++.|+. .| --|.+-+...+ |.+.++..+
T Consensus 5 ~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~ 50 (57)
T TIGR01557 5 VWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHL 50 (57)
T ss_pred CCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHH
Confidence 5999999999999999998 89 66777777666 888887765
No 28
>PRK08068 transaminase; Reviewed
Probab=27.44 E-value=56 Score=33.48 Aligned_cols=28 Identities=11% Similarity=0.113 Sum_probs=24.3
Q ss_pred CCCHHHHHHHHHHhhhcCcceEEEecCCC
Q 013054 129 MWTKEETDQLFELCERFDLRFIVIADRFP 157 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDLRw~VI~DRy~ 157 (450)
.|+.+|-..|.++|+++|+ |+|+-|-|.
T Consensus 183 ~~s~~~~~~l~~la~~~~~-~ii~Deay~ 210 (389)
T PRK08068 183 VATKAFFEETVAFAKKHNI-GVVHDFAYG 210 (389)
T ss_pred cCCHHHHHHHHHHHHHcCe-EEEEehhhh
Confidence 4999999999999999998 777777763
No 29
>cd03007 PDI_a_ERp29_N PDIa family, endoplasmic reticulum protein 29 (ERp29) subfamily; ERp29 is a ubiquitous ER-resident protein expressed in high levels in secretory cells. It forms homodimers and higher oligomers in vitro and in vivo. It contains a redox inactive TRX-like domain at the N-terminus, which is homologous to the redox active TRX (a) domains of PDI, and a C-terminal helical domain similar to the C-terminal domain of P5. The expression profile of ERp29 suggests a role in secretory protein production distinct from that of PDI. It has also been identified as a member of the thyroglobulin folding complex. The Drosophila homolog, Wind, is the product of windbeutel, an essential gene in the development of dorsal-ventral patterning. Wind is required for correct targeting of Pipe, a Golgi-resident type II transmembrane protein with homology to 2-O-sulfotransferase.
Probab=26.48 E-value=60 Score=28.93 Aligned_cols=29 Identities=38% Similarity=0.665 Sum_probs=22.2
Q ss_pred HHHhhhcCcc---eEEE-----ec-----CCCCC-CCHHHHHH
Q 013054 139 FELCERFDLR---FIVI-----AD-----RFPSS-RTVEELKD 167 (450)
Q Consensus 139 fdLc~~fDLR---w~VI-----~D-----Ry~~~-RtvEDLK~ 167 (450)
-+||.+|+++ |+.| .+ .|.+. ||.++|..
T Consensus 68 ~~L~~~y~I~~~gyPTl~lF~~g~~~~~~~Y~G~~r~~~~lv~ 110 (116)
T cd03007 68 MELGERYKLDKESYPVIYLFHGGDFENPVPYSGADVTVDALQR 110 (116)
T ss_pred HHHHHHhCCCcCCCCEEEEEeCCCcCCCccCCCCcccHHHHHH
Confidence 4899999997 7755 22 47775 99999974
No 30
>cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Probab=26.13 E-value=77 Score=28.26 Aligned_cols=54 Identities=19% Similarity=0.202 Sum_probs=45.1
Q ss_pred CCHHHHHHHHHHhhhcCcceEEEecCCCC---CCCHHHHHHHHHHHHHHHHHhcCCC
Q 013054 130 WTKEETDQLFELCERFDLRFIVIADRFPS---SRTVEELKDRYYGVSRAILIARAPS 183 (450)
Q Consensus 130 WT~eETdyLfdLc~~fDLRw~VI~DRy~~---~RtvEDLK~RYY~V~~~l~~~R~~~ 183 (450)
|++.--|++..+|+..+++++++.+-++. ..-++.|-.=.-+++++|+..|.+.
T Consensus 74 l~R~~~d~~~~~l~~~gv~l~~~~~~~d~~~~~~l~~~~~~~~~~~~~~~~~~r~~~ 130 (134)
T cd03769 74 LARFGFELLEELFKAYGVEIVVINQEENEELEQELVEDLIEIITSFSARLYGKRSHK 130 (134)
T ss_pred HHHhhHHHHHHHHHHCCCEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHhcCccccc
Confidence 77777778888999999999999987753 3677888888899999999888764
No 31
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=23.98 E-value=56 Score=32.13 Aligned_cols=36 Identities=17% Similarity=0.115 Sum_probs=30.4
Q ss_pred CCCCHHHHHHHHHHhhhcCcc-eEEEecCCCCCCCHH
Q 013054 128 PMWTKEETDQLFELCERFDLR-FIVIADRFPSSRTVE 163 (450)
Q Consensus 128 ~~WT~eETdyLfdLc~~fDLR-w~VI~DRy~~~RtvE 163 (450)
..||.||-+-|.++.+.|+-+ |..|....+-.|+=-
T Consensus 10 GpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GK 46 (238)
T KOG0048|consen 10 GPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGK 46 (238)
T ss_pred CCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccch
Confidence 679999999999999999988 999998876444433
No 32
>PF03776 MinE: Septum formation topological specificity factor MinE; InterPro: IPR005527 Cytokinesis needs to be regulated spatially in order to ensure that it occurs between the daughter genomes. In prokaryotes such as Escherichia coli, cytokinesis is initiated by FtsZ, a tubulin-like protein that assembles into a ring structure at the cell centre called the Z ring. A fundamental problem in prokaryotic cell biology is to understand how the midcell division site is identified. Two major negative regulatory systems are known to be involved in preventing Z-ring assembly at all sites except the midcell. One of these systems, called nucleoid occlusion, blocks Z-ring assembly in the area occupied by an unsegregated nucleoid until a critical stage in chromosome replication or segregation is reached. The other system consists of three proteins, MinC, MinD and MinE, which prevent assembly of Z rings in regions of the cell not covered by the nucleoid, such as the cell poles. MinC is an inhibitor of FtsZ polymerisation, resulting in the inhibition of Z ring assembly in the cell; MinD greatly enhances the inhibitory effects of MinC in vivo; and MinE antagonizes the effects of MinC and MinD []. MinE is a small bifunctional protein. The amino terminus of MinE is required to interact with MinD, while the carboxyl terminus is required for `topological specificity' - that is, the ability of MinE to antagonise MinCD inhibition of Z rings at the midcell position but not at the poles.; GO: 0032955 regulation of barrier septum formation, 0051301 cell division; PDB: 2KXO_A 3MCD_B 3KU7_A 3R9J_C 3R9I_E 1EV0_B.
Probab=23.94 E-value=1.2e+02 Score=24.70 Aligned_cols=34 Identities=24% Similarity=0.233 Sum_probs=27.9
Q ss_pred cceEEEecCCCC-C--CCHHHHHHHHHHHHHHHHHhc
Q 013054 147 LRFIVIADRFPS-S--RTVEELKDRYYGVSRAILIAR 180 (450)
Q Consensus 147 LRw~VI~DRy~~-~--RtvEDLK~RYY~V~~~l~~~R 180 (450)
|..++++||-+. + -.++.||.=-..|..+++..-
T Consensus 9 Lk~iL~~dR~~~~~~~~~l~~lk~eil~viskYv~i~ 45 (70)
T PF03776_consen 9 LKLILAHDRGGLSPQPDYLEQLKKEILEVISKYVEID 45 (70)
T ss_dssp EEEEEEEECCSC-CTTSSHHHHHHHHHHHHHHHS---
T ss_pred HHHHHHHHccCCCCcHHHHHHHHHHHHHHHHhheecC
Confidence 788999999864 3 699999999999999999764
No 33
>cd06227 Peptidase_M14-like_2 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. The A forms have slightly differe
Probab=23.84 E-value=1.3e+02 Score=30.47 Aligned_cols=78 Identities=23% Similarity=0.332 Sum_probs=54.2
Q ss_pred CCCCceeccccccccCCCcEEe-----eeeecCCCCCCCCCCCcccccCCCccccCCHHHHHhhcCCCCCCHHHHHHHHH
Q 013054 66 EKITWQWLPFTNSARKDNLQLY-----HWVRVVNGVPPTGDYSFAKYNKSVDVVKYTDEEYEKYLTDPMWTKEETDQLFE 140 (450)
Q Consensus 66 k~~~W~~~pF~N~AR~D~l~L~-----HWvr~~~~~~~~~~y~FaKfN~~v~ip~ytdeEY~~~L~d~~WT~eETdyLfd 140 (450)
....|-..|.-|| ||.... .|++-..+++..-.|+| .|+..-. .+-++.|. -..--+.-||.-|.+
T Consensus 98 ~~~~i~ivP~~NP---DG~~~~~~~~~~wR~N~~GVDLNRNf~~-~w~~~~~--~~~~~~y~---G~~~~sEpEt~av~~ 168 (272)
T cd06227 98 DNFDLKIIPNENP---DGRKKVESGNYCLRENENGVDLNRNYGA-DWGFKED--DYEDEEYS---GPAPFSEPETRVLRD 168 (272)
T ss_pred hcCcEEEEeccCC---chheeEeccCcccccCCccccccccCCc-ccccCCC--CccccccC---CCCCCCcHHHHHHHH
Confidence 4468999999997 999874 59988777777777765 4554322 22333342 122457789999999
Q ss_pred HhhhcCcceEEE
Q 013054 141 LCERFDLRFIVI 152 (450)
Q Consensus 141 Lc~~fDLRw~VI 152 (450)
+++++...++|-
T Consensus 169 ~~~~~~~~~~i~ 180 (272)
T cd06227 169 LLTSFSPDVFLS 180 (272)
T ss_pred HHHhCCCeEEEE
Confidence 999987665554
No 34
>PRK09147 succinyldiaminopimelate transaminase; Provisional
Probab=22.40 E-value=84 Score=32.28 Aligned_cols=28 Identities=18% Similarity=0.484 Sum_probs=23.2
Q ss_pred CCCHHHHHHHHHHhhhcCcceEEEecCCC
Q 013054 129 MWTKEETDQLFELCERFDLRFIVIADRFP 157 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDLRw~VI~DRy~ 157 (450)
.||.++...|.++|+++|+ |+|+-|-|.
T Consensus 182 ~~s~~~~~~l~~~a~~~~~-~ii~De~y~ 209 (396)
T PRK09147 182 VLPLDDWKKLFALSDRYGF-VIASDECYS 209 (396)
T ss_pred cCCHHHHHHHHHHHHHcCe-EEEeecccc
Confidence 5999999999999999987 566666564
No 35
>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=22.36 E-value=1.6e+02 Score=30.17 Aligned_cols=68 Identities=21% Similarity=0.305 Sum_probs=51.8
Q ss_pred ccccCCHHHHHhhcCCCCCCHHHHHHHHHHhhhcCcceEEE----ecCCCCCCCHHHHHHHHHHHHHHHHHh
Q 013054 112 DVVKYTDEEYEKYLTDPMWTKEETDQLFELCERFDLRFIVI----ADRFPSSRTVEELKDRYYGVSRAILIA 179 (450)
Q Consensus 112 ~ip~ytdeEY~~~L~d~~WT~eETdyLfdLc~~fDLRw~VI----~DRy~~~RtvEDLK~RYY~V~~~l~~~ 179 (450)
+..++|-+|=+.-|.-=+||++|--.|..+|.+.+.|++-+ |-||+-.--=+-+-++=+.|..+-+..
T Consensus 33 DFvEmSvDEsDeRLaRLDWs~~er~~l~~ai~etgv~ipSmClSaHRRfPfGS~D~~~r~~aleiM~KaI~L 104 (287)
T COG3623 33 DFVEMSVDESDERLARLDWSKEERLALVNAIQETGVRIPSMCLSAHRRFPFGSKDEATRQQALEIMEKAIQL 104 (287)
T ss_pred CeEEEeccchHHHHHhcCCCHHHHHHHHHHHHHhCCCccchhhhhhccCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 34566777777777777999999999999999999999987 778873323355667777777766554
No 36
>PF07357 DRAT: Dinitrogenase reductase ADP-ribosyltransferase (DRAT); InterPro: IPR009953 This family consists of several bacterial dinitrogenase reductase ADP-ribosyltransferase (DRAT) proteins. Members of this family seem to be specific to Rhodospirillum, Rhodobacter and Azospirillum species. Dinitrogenase reductase ADP-ribosyl transferase (DRAT) carries out the transfer of the ADP-ribose from NAD to the Arg-101 residue of one subunit of the dinitrogenase reductase homodimer, resulting in inactivation of that enzyme. Dinitrogenase reductase-activating glycohydrolase (DRAG) removes the ADP-ribose group attached to dinitrogenase reductase, thus restoring nitrogenase activity. The DRAT-DRAG system negatively regulates nitrogenase activity in response to exogenous NH4+ or energy limitation in the form of a shift to darkness or to anaerobic conditions [].
Probab=22.29 E-value=59 Score=33.10 Aligned_cols=54 Identities=20% Similarity=0.542 Sum_probs=37.2
Q ss_pred CCcEEeeeeecCCCCCCCCCCCcccccCCCccccCCHHHHHhhcCC-------CCCCHHHHHHHHHHhh
Q 013054 82 DNLQLYHWVRVVNGVPPTGDYSFAKYNKSVDVVKYTDEEYEKYLTD-------PMWTKEETDQLFELCE 143 (450)
Q Consensus 82 D~l~L~HWvr~~~~~~~~~~y~FaKfN~~v~ip~ytdeEY~~~L~d-------~~WT~eETdyLfdLc~ 143 (450)
.|++|+.||-.-=+. +..|-+.+ |..+..+.|..|+.+ ++=-...-|.|++.|+
T Consensus 100 EGAVLKGWVESRFGL-------~PtfHk~~-i~~~~s~a~~~Y~~ekm~~~~~tNaI~~QLDLLYeycQ 160 (262)
T PF07357_consen 100 EGAVLKGWVESRFGL-------LPTFHKEP-IRRFHSEAWARYVEEKMSGRFHTNAIESQLDLLYEYCQ 160 (262)
T ss_pred hhhhhhhhhhhccCc-------CcccccCc-CCCCCCHHHHHHHHHHhhhccccchHHHHHHHHHHHHH
Confidence 499999999874443 33455443 889999999999974 2333445666666665
No 37
>PRK07681 aspartate aminotransferase; Provisional
Probab=22.05 E-value=86 Score=32.29 Aligned_cols=28 Identities=7% Similarity=0.237 Sum_probs=24.4
Q ss_pred CCCHHHHHHHHHHhhhcCcceEEEecCCC
Q 013054 129 MWTKEETDQLFELCERFDLRFIVIADRFP 157 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDLRw~VI~DRy~ 157 (450)
-||.+|-..|.++|+++|+ |+|+-|-|.
T Consensus 182 ~~s~~~~~~i~~~a~~~~~-~iI~De~y~ 209 (399)
T PRK07681 182 MAHEDFFKEVIAFAKKHNI-IVVHDFAYA 209 (399)
T ss_pred CCCHHHHHHHHHHHHHcCe-EEEEeccch
Confidence 4999999999999999998 777777664
No 38
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=21.77 E-value=42 Score=38.34 Aligned_cols=47 Identities=21% Similarity=0.344 Sum_probs=41.4
Q ss_pred CCCCCHHHHHHHHHHhhhcCcceEEEecCC---CCCCCHHHHHHHHHHHH
Q 013054 127 DPMWTKEETDQLFELCERFDLRFIVIADRF---PSSRTVEELKDRYYGVS 173 (450)
Q Consensus 127 d~~WT~eETdyLfdLc~~fDLRw~VI~DRy---~~~RtvEDLK~RYY~V~ 173 (450)
...||.||-+-|..|+.+--.-=+|=|||. -..||--.|--|||.+-
T Consensus 305 ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~L 354 (939)
T KOG0049|consen 305 EKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTL 354 (939)
T ss_pred hhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheecc
Confidence 467999999999999999999999999985 36899999999999764
No 39
>PRK06620 hypothetical protein; Validated
Probab=21.67 E-value=1.5e+02 Score=28.58 Aligned_cols=41 Identities=12% Similarity=0.270 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHhhhcCcceEEEecCCCCCCCHHHHHHHH
Q 013054 129 MWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRY 169 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDLRw~VI~DRy~~~RtvEDLK~RY 169 (450)
.|+.++--|||+.|++=+-..+|.+|+.+..-++.||..|+
T Consensus 96 ~~~~~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl 136 (214)
T PRK06620 96 NWQEPALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRI 136 (214)
T ss_pred cchHHHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHH
Confidence 58777888999999999987788888887777789999887
No 40
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=21.63 E-value=72 Score=31.77 Aligned_cols=79 Identities=14% Similarity=0.204 Sum_probs=47.0
Q ss_pred CCccccCCHHHHHhhcCCCCCCHHHHHHHHHHhhh-----------cCcceEEEecCCCCCCCHHHHHHHHHHHHHHHHH
Q 013054 110 SVDVVKYTDEEYEKYLTDPMWTKEETDQLFELCER-----------FDLRFIVIADRFPSSRTVEELKDRYYGVSRAILI 178 (450)
Q Consensus 110 ~v~ip~ytdeEY~~~L~d~~WT~eETdyLfdLc~~-----------fDLRw~VI~DRy~~~RtvEDLK~RYY~V~~~l~~ 178 (450)
.|+++.||-|-|. =+.+|.++||+|+.+ .+.|.-||-|+= +=-++|++..-.+..
T Consensus 50 ~lTvYaFS~eN~~-------R~~~Ev~~Lm~L~~~~l~~~~~~~~~~~irvr~iG~~~---~Lp~~~~~~i~~~e~---- 115 (233)
T PRK14841 50 YLTAFSFSTENWK-------RPKEEVEFLMDLFVQMIDREMELLRRERVRVRILGRKE---GLPEKVLKKWQEVEE---- 115 (233)
T ss_pred EEEEEeeeHhhcC-------CCHHHHHHHHHHHHHHHHHHHHHHHHcCcEEEEEeChh---hCCHHHHHHHHHHHH----
Confidence 4677788877665 367999999999864 478888887762 222455544333322
Q ss_pred hcCCCCCCCCCCCccCCCCChHHHHHH
Q 013054 179 ARAPSPTDVSGHPLVKDPYNVSQEVER 205 (450)
Q Consensus 179 ~R~~~~~~~~~~~l~~~~fd~~~E~~R 205 (450)
.-.. .+. .+-.+-++|+-..|+.+
T Consensus 116 ~T~~-~~~--~~Lnia~~Yggr~EI~~ 139 (233)
T PRK14841 116 KTKE-FDR--MTLVIAFNYGGRREILD 139 (233)
T ss_pred HhcC-CCC--cEEEEEecCCCHHHHHH
Confidence 2111 111 11123378999888743
No 41
>PHA02550 32 single-stranded DNA binding protein; Provisional
Probab=20.85 E-value=1.1e+02 Score=31.73 Aligned_cols=63 Identities=25% Similarity=0.494 Sum_probs=47.6
Q ss_pred CCCcccccCCCccccCCHHHHHhhcCCCCCCHHHHHHHHHHhhhcCcceEEEecCCCCCCCHHHHHHHHHHHHHHHHHhc
Q 013054 101 DYSFAKYNKSVDVVKYTDEEYEKYLTDPMWTKEETDQLFELCERFDLRFIVIADRFPSSRTVEELKDRYYGVSRAILIAR 180 (450)
Q Consensus 101 ~y~FaKfN~~v~ip~ytdeEY~~~L~d~~WT~eETdyLfdLc~~fDLRw~VI~DRy~~~RtvEDLK~RYY~V~~~l~~~R 180 (450)
.|-=.+|-..-.|+.+.||+|...| |. +++||.=+|..|-| .|.|+|+.||=.|...=+..+
T Consensus 187 NYD~s~f~~~s~l~~i~De~~~~~i----we-----------~~hdL~e~~a~~~F---Ksye~L~~rf~kVmG~s~~~~ 248 (304)
T PHA02550 187 NYDDSKFAAPSPLPNIDDEAFQKEI----WE-----------QMHDLSEFVAPDKF---KSYEELETKFNKVMGTSAVGG 248 (304)
T ss_pred CcccccccccccCCCCCcHHHHHHH----HH-----------hcccHHHHhCHHhc---CCHHHHHHHHHHHhccccccc
Confidence 4666778788889999999998776 22 56777777777766 689999999999986444434
Q ss_pred C
Q 013054 181 A 181 (450)
Q Consensus 181 ~ 181 (450)
+
T Consensus 249 a 249 (304)
T PHA02550 249 A 249 (304)
T ss_pred c
Confidence 3
No 42
>PRK06290 aspartate aminotransferase; Provisional
Probab=20.54 E-value=93 Score=32.64 Aligned_cols=28 Identities=14% Similarity=0.315 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHhhhcCcceEEEecCCC
Q 013054 129 MWTKEETDQLFELCERFDLRFIVIADRFP 157 (450)
Q Consensus 129 ~WT~eETdyLfdLc~~fDLRw~VI~DRy~ 157 (450)
-|+.+|-..|.++|+++++ |+|+-|-|.
T Consensus 195 v~s~e~l~~l~~la~~~~~-~iI~DEaY~ 222 (410)
T PRK06290 195 VATKEFYEEVVDFAKENNI-IVVQDAAYA 222 (410)
T ss_pred CCCHHHHHHHHHHHHHcCe-EEEEecchh
Confidence 4999999999999999998 777777764
No 43
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=20.37 E-value=1.7e+02 Score=24.99 Aligned_cols=34 Identities=26% Similarity=0.355 Sum_probs=21.8
Q ss_pred HHHHHHHHHhCCCCCCCCChHHHHHHHHHHHHHHHHH
Q 013054 328 KRVEQALQELGVNLKPKVPTKAVCAEHLELRKEILTL 364 (450)
Q Consensus 328 K~Ie~~L~ELgv~~kP~mPT~~vc~~f~eLR~~Iv~L 364 (450)
+.|..+|.+.+ ....|++++.+.+.+++.+++.|
T Consensus 62 ~~i~~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~l 95 (99)
T cd04765 62 EGAKQALKEDG---AAAIREEEAEERLPSIRAELLDL 95 (99)
T ss_pred HHHHHHHHhcc---ccccchhhHHHHHHHHHHHHHHH
Confidence 44455554433 33357888888888888887765
Done!