Query 030427
Match_columns 177
No_of_seqs 120 out of 242
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 13:34:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030427.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030427hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04658 TAFII55_N: TAFII55 pr 100.0 1.6E-60 3.4E-65 385.5 13.6 142 19-169 1-161 (162)
2 KOG4011 Transcription initiati 100.0 9E-60 2E-64 411.0 9.6 157 11-176 14-186 (330)
3 cd08047 TAF7 TATA Binding Prot 100.0 5.7E-59 1.2E-63 375.0 13.1 149 20-176 1-162 (162)
4 COG5414 TATA-binding protein-a 100.0 1.5E-46 3.2E-51 328.0 3.3 154 8-174 61-225 (392)
5 PF03869 Arc: Arc-like DNA bin 64.2 5.1 0.00011 26.5 1.7 22 21-42 5-26 (50)
6 PF02767 DNA_pol3_beta_2: DNA 51.0 29 0.00063 25.7 4.1 45 27-78 68-112 (116)
7 PF11979 DUF3480: Domain of un 45.3 30 0.00065 31.9 4.0 68 6-73 164-246 (356)
8 KOG1180 Acyl-CoA synthetase [L 45.0 10 0.00022 37.3 1.0 43 60-102 482-525 (678)
9 PRK13744 conjugal transfer pro 37.7 15 0.00032 26.5 0.7 14 116-129 17-30 (83)
10 PHA01513 mnt Mnt 36.7 30 0.00065 25.5 2.2 23 20-42 5-27 (82)
11 PF04282 DUF438: Family of unk 33.3 17 0.00038 26.0 0.5 31 131-163 19-50 (71)
12 TIGR01624 LRP1_Cterm LRP1 C-te 32.6 48 0.001 22.4 2.5 17 61-77 31-47 (50)
13 PF09696 Ctf8: Ctf8; InterPro 32.0 1.7E+02 0.0038 22.5 5.9 31 58-88 54-85 (122)
14 PLN02330 4-coumarate--CoA liga 31.7 31 0.00066 31.4 1.9 40 61-102 388-427 (546)
15 PRK12582 acyl-CoA synthetase; 30.8 47 0.001 31.0 3.0 16 87-102 447-462 (624)
16 cd02639 R3H_RRM R3H domain of 29.9 37 0.00081 23.4 1.7 27 100-128 6-32 (60)
17 KOG1176 Acyl-CoA synthetase [L 29.1 14 0.00031 35.4 -0.8 17 86-102 402-418 (537)
18 PF14836 Ubiquitin_3: Ubiquiti 27.6 31 0.00067 25.7 1.0 27 126-157 12-38 (88)
19 PF05142 DUF702: Domain of unk 27.2 52 0.0011 27.0 2.3 17 62-78 133-149 (154)
20 PF04179 Init_tRNA_PT: Initiat 27.2 43 0.00092 31.6 2.0 22 115-136 232-253 (451)
21 PRK01115 DNA polymerase slidin 25.2 1.9E+02 0.0042 23.8 5.5 44 32-78 72-118 (247)
22 PRK06164 acyl-CoA synthetase; 24.7 59 0.0013 29.3 2.4 15 88-102 402-416 (540)
23 PF14201 DUF4318: Domain of un 24.2 1.1E+02 0.0023 22.1 3.3 25 51-75 33-57 (74)
24 KOG1177 Long chain fatty acid 23.6 33 0.00072 33.4 0.6 20 83-102 452-471 (596)
25 PRK06334 long chain fatty acid 23.3 90 0.0019 28.6 3.4 15 88-102 406-420 (539)
26 KOG1487 GTP-binding protein DR 22.4 1.1E+02 0.0024 27.9 3.6 44 64-107 95-144 (358)
27 PRK08180 feruloyl-CoA synthase 21.8 61 0.0013 30.2 2.0 17 86-102 434-450 (614)
28 TIGR00194 uvrC excinuclease AB 21.7 33 0.00073 33.2 0.3 63 73-137 373-442 (574)
29 PF13078 DUF3942: Protein of u 21.7 1.9E+02 0.0042 23.0 4.4 42 50-91 45-86 (126)
30 PF00501 AMP-binding: AMP-bind 20.3 41 0.00088 28.9 0.5 11 92-102 388-398 (417)
No 1
>PF04658 TAFII55_N: TAFII55 protein conserved region; InterPro: IPR006751 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. TAFII55 binds to TAFII250 and inhibits its acetyltransferase activity. The exact role of TAFII55 is currently unknown. The conserved region is situated towards the N-terminal of the protein [].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005669 transcription factor TFIID complex
Probab=100.00 E-value=1.6e-60 Score=385.47 Aligned_cols=142 Identities=41% Similarity=0.721 Sum_probs=123.4
Q ss_pred ccceeEEecCc-chHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECCeecceeeccCCeeeeeeeeccCcceEEee
Q 030427 19 MEEQFILRVPP-SVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGNDHFPVSLMDLPCVVESFKTYDDCALVKTA 97 (177)
Q Consensus 19 ~EeqfILRlP~-~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~~~y~a~LvDLP~IiEs~KT~D~k~~yKta 97 (177)
||+|||||||| +.|++||++|++|..+. ..+++++| .|+|+|+|+++|+.|+|+|||||||||||||+|+++|||||
T Consensus 1 ~E~q~ILR~p~~~~ad~lr~~i~~~~~~~-~~~I~~~~-~d~R~~~v~i~~~~y~a~LvDLP~IvEs~KT~D~k~~yKta 78 (162)
T PF04658_consen 1 IEEQFILRLPPGEDADRLREAIEEGDINE-KLDIDFKF-KDGRRAVVRIGGQIYSAKLVDLPCIVESHKTLDKKNFYKTA 78 (162)
T ss_pred CcceEEEecCChhHHHHHHHHHHcCCCCC-CceEEEec-CCCCEEEEEECCEEcceEEeecCceeeEEeecccCeEEEEe
Confidence 79999999999 89999999999997532 12445555 69999999999999999999999999999999999999999
Q ss_pred ccceeEEecCCCC------------------CCCCcccccCCCCccccccccccccCCCCCChHHHHHHHHHHHHHhcCC
Q 030427 98 DIGQMIMVREPGD------------------STPDAVEYRHGLTPPMRDARKRRFRREPDLNPELVQRVEKDLLNIMTGA 159 (177)
Q Consensus 98 DIsQMLvv~~~~~------------------~~p~~~~~~hGiTPPmknvRkRRFRK~~~~~~~~ie~VE~el~~Ll~gg 159 (177)
||||||+|+++.+ ..+..|+|||||||||||||||||||+... ..++++||+||.+||+
T Consensus 79 DI~QMLiv~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~hGiTPP~knvrkRRFRk~~~~-~~~i~~vE~ev~~LL~-- 155 (162)
T PF04658_consen 79 DISQMLIVYEPIEDEEEAKETDLKEKKKNKEKEDKKFEWPHGITPPMKNVRKRRFRKRKKK-YREIPEVEKEVKRLLR-- 155 (162)
T ss_pred ccceeEEEeccCCCcccccccccccccccccccccccCCCCCCChhhhhHHHhhhccCccc-cccHHHHHHHHHHHHh--
Confidence 9999999998721 123578999999999999999999999543 5899999999999999
Q ss_pred Cccccccccc
Q 030427 160 TVENADILKF 169 (177)
Q Consensus 160 ~~~~~~~~~~ 169 (177)
.|.+|.
T Consensus 156 ----~D~~A~ 161 (162)
T PF04658_consen 156 ----EDAEAV 161 (162)
T ss_pred ----cchhhc
Confidence 555554
No 2
>KOG4011 consensus Transcription initiation factor TFIID, subunit TAF7 [Transcription]
Probab=100.00 E-value=9e-60 Score=410.96 Aligned_cols=157 Identities=43% Similarity=0.662 Sum_probs=145.7
Q ss_pred CCCCCCCcccceeEEecCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECCeecceeeccCCeeeeeeeeccC
Q 030427 11 GNKFNRALMEEQFILRVPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGNDHFPVSLMDLPCVVESFKTYDD 90 (177)
Q Consensus 11 ~~~~~~~~~EeqfILRlP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~~~y~a~LvDLP~IiEs~KT~D~ 90 (177)
+..+++|+||+|||||+||+++.+++++++++. .+++|+|.|++|+|+|+|+|||+.|+|+|||||||||||||+|+
T Consensus 14 a~~ed~~e~EsqfILRvPp~~~~~v~~~~~~~~---~~~~l~i~~~~D~R~~vV~i~n~~l~akLvDLPtVvEs~KT~D~ 90 (330)
T KOG4011|consen 14 AEAEDDPEMESQFILRVPPDIACRVDRAASEDG---DKDELSIKLKPDGRHAVVRINNQLLPAKLVDLPTVVESNKTLDN 90 (330)
T ss_pred cccccchhhhhheeeecCHHHHHHHHHHhhccc---ccccceeeeccCCceeEEEECCEEccceeeccchhhhhhhcccc
Confidence 344889999999999999999999999998874 67899999999999999999999999999999999999999999
Q ss_pred cceEEeeccceeEEecCC-----CCCCC-----------CcccccCCCCccccccccccccCCCCCChHHHHHHHHHHHH
Q 030427 91 CALVKTADIGQMIMVREP-----GDSTP-----------DAVEYRHGLTPPMRDARKRRFRREPDLNPELVQRVEKDLLN 154 (177)
Q Consensus 91 k~~yKtaDIsQMLvv~~~-----~~~~p-----------~~~~~~hGiTPPmknvRkRRFRK~~~~~~~~ie~VE~el~~ 154 (177)
|+|||||||||||||+.+ ++..| ..|.|||||||||||||||||||++..++-++.+||++|.+
T Consensus 91 k~lyKtADIsQMLvc~~~~~e~ie~~~p~~~~k~~~~k~k~y~y~HGiTPPmKnvRkRRFRK~~~kk~~e~~eVEkevkr 170 (330)
T KOG4011|consen 91 KTLYKTADISQMLVCTEDVEEGIEDEDPDAARKKAKEKEKKYIYPHGITPPMKNVRKRRFRKTKKKKPMEVPEVEKEVKR 170 (330)
T ss_pred ccceeecchheeEEEecCccccccccChhhHHHhhhhhhhceecccCCCcchhHHHHHHhhhccccCCCchHHHHHHHHH
Confidence 999999999999999988 45555 57999999999999999999999976666689999999999
Q ss_pred HhcCCCcccccccccccceeee
Q 030427 155 IMTGATVENADILKFKSNFSIV 176 (177)
Q Consensus 155 Ll~gg~~~~~~~~~~~s~~~~~ 176 (177)
||. .|.+|.+-.|+||
T Consensus 171 LLr------~D~eA~Sv~~eiv 186 (330)
T KOG4011|consen 171 LLR------ADNEAVSVRWEIV 186 (330)
T ss_pred HHh------hhhhhhhhheeee
Confidence 999 8999999999997
No 3
>cd08047 TAF7 TATA Binding Protein (TBP) Associated Factor 7 (TAF7) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 7 (TAF7) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the preinitiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving
Probab=100.00 E-value=5.7e-59 Score=374.98 Aligned_cols=149 Identities=43% Similarity=0.772 Sum_probs=132.7
Q ss_pred cceeEEecCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECCeecceeeccCCeeeeeeeeccCcceEEeecc
Q 030427 20 EEQFILRVPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGNDHFPVSLMDLPCVVESFKTYDDCALVKTADI 99 (177)
Q Consensus 20 EeqfILRlP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~~~y~a~LvDLP~IiEs~KT~D~k~~yKtaDI 99 (177)
|+||||||||+.|++||+++++|..+.. .+.+.+..|+|+|+|+|+|+.|+|+|||||||||||||+|+++|||||||
T Consensus 1 E~q~ILR~p~~~a~~vr~~i~~~~~~~~--~~~~~~~~d~R~~~v~v~~~~y~a~LvdLPtiiEs~KT~D~k~~yKtaDI 78 (162)
T cd08047 1 EEQFILRLPPDVADRLRKAIEEGDSNEK--LLSITLFEDSRRAVVRINGQKYPAKLVDLPTIIESHKTLDKKNLYKTADI 78 (162)
T ss_pred CCeEEEEcCcHHHHHHHHHHHcCCCccc--ccccccCCCCcEEEEEECCEEcceEEeecCceeeeeeccccCceEEecCh
Confidence 8999999999999999999999975321 13455567999999999999999999999999999999999999999999
Q ss_pred ceeEEecCCCCCC-------------CCcccccCCCCccccccccccccCCCCCChHHHHHHHHHHHHHhcCCCcccccc
Q 030427 100 GQMIMVREPGDST-------------PDAVEYRHGLTPPMRDARKRRFRREPDLNPELVQRVEKDLLNIMTGATVENADI 166 (177)
Q Consensus 100 sQMLvv~~~~~~~-------------p~~~~~~hGiTPPmknvRkRRFRK~~~~~~~~ie~VE~el~~Ll~gg~~~~~~~ 166 (177)
||||+|+++.++. +..++|||||||||+|||+|||||++.....++++||++|.+||+ .|.
T Consensus 79 ~QMliv~~~~~~~~~~~~~~~~~~~~~~~~~~~hGLTPP~~~vrkRrfrk~~~~~~~~i~~vEkev~~ll~------~d~ 152 (162)
T cd08047 79 SQMLIVYEPDDSEKEAKEAKLDKKDKPKKFEYPHGLTPPMKNVRKRRFRKTPSKKIAEIEEVEKEVKRLLK------EDT 152 (162)
T ss_pred hhEEEEecCCCchhhhhhccccccccccccccCCCCCcCchhhhhcccccccccccchHHHHHHHHHHHHH------hhh
Confidence 9999999886531 357899999999999999999999976556669999999999999 788
Q ss_pred cccccceeee
Q 030427 167 LKFKSNFSIV 176 (177)
Q Consensus 167 ~~~~s~~~~~ 176 (177)
+|.++.|+++
T Consensus 153 ~a~~~~~e~~ 162 (162)
T cd08047 153 EAVSVEYEVI 162 (162)
T ss_pred hhcceeeeeC
Confidence 9999999875
No 4
>COG5414 TATA-binding protein-associated factor [Transcription]
Probab=100.00 E-value=1.5e-46 Score=327.99 Aligned_cols=154 Identities=31% Similarity=0.490 Sum_probs=135.5
Q ss_pred ccCCCCCCCCcccceeEEecCcch-HHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECCeecceeeccCCeeeeeee
Q 030427 8 FFSGNKFNRALMEEQFILRVPPSV-AERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGNDHFPVSLMDLPCVVESFK 86 (177)
Q Consensus 8 ~~~~~~~~~~~~EeqfILRlP~~~-a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~~~y~a~LvDLP~IiEs~K 86 (177)
...|+-++||.||+|||||+||++ +++|++++.+| ..++++|+|+ |.|+|+|++||+.|+|+||||||||||.|
T Consensus 61 SEASD~EdD~~iE~q~ILRl~p~~~~e~V~~~~esG----~~s~I~ik~k-d~R~aVvt~N~~~Y~ailVdLPciIEsnK 135 (392)
T COG5414 61 SEASDIEDDPLIEQQFILRLHPSIQIEHVVDLGESG----DYSGITIKIK-DDRSAVVTHNNKKYPAILVDLPCIIESNK 135 (392)
T ss_pred cccccccccchhhhceeeecCCccchHHHHHHhhcC----CccCceEEec-cCceEEEEECCcccceeEeecceeEeccc
Confidence 445778899999999999999984 89999999997 4678999999 99999999999999999999999999999
Q ss_pred eccCcceEEeeccceeEE----ecCCCCCC------CCcccccCCCCccccccccccccCCCCCChHHHHHHHHHHHHHh
Q 030427 87 TYDDCALVKTADIGQMIM----VREPGDST------PDAVEYRHGLTPPMRDARKRRFRREPDLNPELVQRVEKDLLNIM 156 (177)
Q Consensus 87 T~D~k~~yKtaDIsQMLv----v~~~~~~~------p~~~~~~hGiTPPmknvRkRRFRK~~~~~~~~ie~VE~el~~Ll 156 (177)
|+|+|++||+|||||||| |+.+.... ...|.|+|||||||+|||.|||||+ .++.+|+.||++|.+||
T Consensus 136 S~D~k~~~K~aDisqmlvA~E~v~hensflN~~lk~~~~y~y~hGlspPl~~Vr~rRFRkk--~s~~eIe~VEk~Vd~LL 213 (392)
T COG5414 136 SMDSKQHYKVADISQMLVALEAVYHENSFLNKHLKKEREYYYLHGLSPPLKYVRARRFRKK--SSKIEIEEVEKKVDDLL 213 (392)
T ss_pred ccchhhhHhHhhHHHHHHHHhhhcccchhhHHHHHHHhhhhccccCCchhHHHHHHHHHhh--cCcchHHHHHHHHHHHH
Confidence 999999999999999999 44332222 1368999999999999999999999 68888999999999999
Q ss_pred cCCCccccccccccccee
Q 030427 157 TGATVENADILKFKSNFS 174 (177)
Q Consensus 157 ~gg~~~~~~~~~~~s~~~ 174 (177)
+ +|.-|++-.|+
T Consensus 214 ~------~D~~Aesvs~~ 225 (392)
T COG5414 214 E------KDMKAESVSVV 225 (392)
T ss_pred H------HhhhhhhhHHH
Confidence 9 77777665443
No 5
>PF03869 Arc: Arc-like DNA binding domain; InterPro: IPR005569 Arc repressor act by the cooperative binding of two Arc repressor dimers to a 21-base-pair operator site. Each Arc dimer uses an antiparallel beta-sheet to recognise bases in the major groove [].; GO: 0003677 DNA binding; PDB: 3QOQ_D 1MNT_B 1QTG_B 1BDV_A 1PAR_C 1BDT_C 1ARR_B 1MYL_F 1MYK_A 1NLA_B ....
Probab=64.21 E-value=5.1 Score=26.51 Aligned_cols=22 Identities=36% Similarity=0.603 Sum_probs=17.7
Q ss_pred ceeEEecCcchHHHHHHHHhcC
Q 030427 21 EQFILRVPPSVAERIDRLLSEN 42 (177)
Q Consensus 21 eqfILRlP~~~a~~lr~~v~~~ 42 (177)
.||-||||.++.+.|+..-...
T Consensus 5 ~~f~lRlP~~l~~~lk~~A~~~ 26 (50)
T PF03869_consen 5 PQFNLRLPEELKEKLKERAEEN 26 (50)
T ss_dssp EEEEEECEHHHHHHHHHHHHHT
T ss_pred CceeeECCHHHHHHHHHHHHHh
Confidence 5999999999999988655443
No 6
>PF02767 DNA_pol3_beta_2: DNA polymerase III beta subunit, central domain; InterPro: IPR022637 This entry describes the central domain of the beta chain of DNA polymerase III. This is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The beta chain is required for initiation of replication from an RNA primer, nucleotide triphosphate (dNTP) residues being added to the 5'-end of the growing DNA chain.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication, 0009360 DNA polymerase III complex; PDB: 3T0P_B 3P16_A 3RB9_B 2AWA_C 1VPK_A 2AVT_B 2XUR_B 3Q4K_A 3BEP_A 3D1G_A ....
Probab=51.01 E-value=29 Score=25.65 Aligned_cols=45 Identities=22% Similarity=0.424 Sum_probs=34.0
Q ss_pred cCcchHHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECCeecceeeccC
Q 030427 27 VPPSVAERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGNDHFPVSLMDL 78 (177)
Q Consensus 27 lP~~~a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~~~y~a~LvDL 78 (177)
+|...+..+.+++... ++.+.|.+. +.++.|.+++..+..+|+|-
T Consensus 68 Ip~k~l~~l~k~l~~~-----~~~v~i~~~--~~~i~f~~~~~~~~srli~g 112 (116)
T PF02767_consen 68 IPAKALKELKKLLSDE-----DEEVEISIS--DNQIIFKFDNIEITSRLIDG 112 (116)
T ss_dssp EEHHHHHHHHHHSSTT-----SSEEEEEEE--SSEEEEEESSEEEEEE-BSS
T ss_pred EechHHHHHhhhcccC-----CceEEEEEc--CCEEEEEECCEEEEEEEecc
Confidence 4777788888877662 235777664 78899999999999999874
No 7
>PF11979 DUF3480: Domain of unknown function (DUF3480); InterPro: IPR022557 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 350 to 362 amino acids in length. This domain is found C-terminal to PF01363 from PFAM.
Probab=45.25 E-value=30 Score=31.88 Aligned_cols=68 Identities=19% Similarity=0.293 Sum_probs=44.3
Q ss_pred ccccCCCCCCCCcccceeEEecCcchHHHHHHHHhcCCCC--------CCC---CCeeEEEecCCceEE----EEECCee
Q 030427 6 LFFFSGNKFNRALMEEQFILRVPPSVAERIDRLLSENESS--------EED---KSLDLSFCEDGRSGT----FVIGNDH 70 (177)
Q Consensus 6 ~~~~~~~~~~~~~~EeqfILRlP~~~a~~lr~~v~~~~~~--------~~~---~~l~i~~~~d~R~~~----v~i~~~~ 70 (177)
|+.+|+---..--.|.+.-+|++++.-+.||++|+++..- +.+ ..++|+|..+...+. --|||+.
T Consensus 164 LKssSg~~aKsSIVEDGlmVQi~~e~m~~Lr~ALr~~kDf~I~cg~~d~~~~~~e~V~i~Wv~~d~~~n~gv~SpIDg~s 243 (356)
T PF11979_consen 164 LKSSSGFLAKSSIVEDGLMVQITPETMESLRQALREMKDFTITCGKVDAEDSQVEYVDIQWVDDDENFNKGVISPIDGKS 243 (356)
T ss_pred ccccccccccceEEeeeeEEEecHHHHHHHHHHHHhCCCeEEecCCcccccccccEEEEEEecCCcccCCCcccCCCCce
Confidence 3334433334456899999999999999999999887521 111 247888875544432 2367777
Q ss_pred cce
Q 030427 71 FPV 73 (177)
Q Consensus 71 y~a 73 (177)
+.+
T Consensus 244 leg 246 (356)
T PF11979_consen 244 LEG 246 (356)
T ss_pred ecC
Confidence 754
No 8
>KOG1180 consensus Acyl-CoA synthetase [Lipid transport and metabolism]
Probab=44.99 E-value=10 Score=37.29 Aligned_cols=43 Identities=23% Similarity=0.375 Sum_probs=29.0
Q ss_pred ceEEEEECCeecceeeccCC-eeeeeeeeccCcceEEeecccee
Q 030427 60 RSGTFVIGNDHFPVSLMDLP-CVVESFKTYDDCALVKTADIGQM 102 (177)
Q Consensus 60 R~~~v~i~~~~y~a~LvDLP-~IiEs~KT~D~k~~yKtaDIsQM 102 (177)
-+|.+.|+|.....=-..=| -.=|+++..|.+.||+||||++.
T Consensus 482 PrGEI~i~G~~vt~gY~kn~ekT~e~ft~~~G~~WF~TGDIGe~ 525 (678)
T KOG1180|consen 482 PRGEILIGGPNVTMGYYKNEEKTKEDFTVEDGQRWFRTGDIGEF 525 (678)
T ss_pred CCceEEecCCccChhhhCChhhhhhhceecCCcEEEecccccee
Confidence 38889888855432111111 13478888899999999999874
No 9
>PRK13744 conjugal transfer protein TrbG; Provisional
Probab=37.66 E-value=15 Score=26.48 Aligned_cols=14 Identities=43% Similarity=0.930 Sum_probs=11.9
Q ss_pred ccccCCCCcccccc
Q 030427 116 VEYRHGLTPPMRDA 129 (177)
Q Consensus 116 ~~~~hGiTPPmknv 129 (177)
..|-+|||||+-.|
T Consensus 17 vlyesgitpplcev 30 (83)
T PRK13744 17 VLYESGITPPLCEV 30 (83)
T ss_pred EeeecCCCCccccc
Confidence 47889999999766
No 10
>PHA01513 mnt Mnt
Probab=36.72 E-value=30 Score=25.55 Aligned_cols=23 Identities=30% Similarity=0.541 Sum_probs=17.6
Q ss_pred cceeEEecCcchHHHHHHHHhcC
Q 030427 20 EEQFILRVPPSVAERIDRLLSEN 42 (177)
Q Consensus 20 EeqfILRlP~~~a~~lr~~v~~~ 42 (177)
.-||-||||.++-+.|+.+-+.+
T Consensus 5 ~~qf~LRLP~eLk~rL~~aA~~n 27 (82)
T PHA01513 5 DPQFNLRLPYELKEKLKQRAKAN 27 (82)
T ss_pred CcceeeeCCHHHHHHHHHHHHHh
Confidence 35899999999988887655443
No 11
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=33.27 E-value=17 Score=25.97 Aligned_cols=31 Identities=26% Similarity=0.549 Sum_probs=23.1
Q ss_pred cccccCC-CCCChHHHHHHHHHHHHHhcCCCccc
Q 030427 131 KRRFRRE-PDLNPELVQRVEKDLLNIMTGATVEN 163 (177)
Q Consensus 131 kRRFRK~-~~~~~~~ie~VE~el~~Ll~gg~~~~ 163 (177)
|++|.+. ..+++.+|..+|++|.. .|-++++
T Consensus 19 k~~F~~~~~~Vs~~EI~~~Eq~Li~--eG~~~ee 50 (71)
T PF04282_consen 19 KEEFKKLFSDVSASEISAAEQELIQ--EGMPVEE 50 (71)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHH--cCCCHHH
Confidence 6777764 45789999999999887 6644444
No 12
>TIGR01624 LRP1_Cterm LRP1 C-terminal domain. This model represents a tightly conserved small domain found in LRP1 and related plant proteins. This family also contains a well-conserved putative zinc finger domain (TIGR01623). The rest of the sequence of most members consists of highly divergent, low-complexity sequence.
Probab=32.63 E-value=48 Score=22.40 Aligned_cols=17 Identities=35% Similarity=0.401 Sum_probs=15.0
Q ss_pred eEEEEECCeecceeecc
Q 030427 61 SGTFVIGNDHFPVSLMD 77 (177)
Q Consensus 61 ~~~v~i~~~~y~a~LvD 77 (177)
.+.|+|+|..|.+.|.|
T Consensus 31 Qt~V~IgGHvFkGiLyD 47 (50)
T TIGR01624 31 QATVTIGGHVFKGFLHD 47 (50)
T ss_pred EEEEEECceEEeeEEec
Confidence 35799999999999987
No 13
>PF09696 Ctf8: Ctf8; InterPro: IPR018607 Ctf8 (chromosome transmissions fidelity 8) is a component of the Ctf18 RFC-like complex which is a DNA clamp loader involved in sister chromatid cohesion.
Probab=32.03 E-value=1.7e+02 Score=22.49 Aligned_cols=31 Identities=13% Similarity=0.131 Sum_probs=27.3
Q ss_pred CCceEEEEEC-CeecceeeccCCeeeeeeeec
Q 030427 58 DGRSGTFVIG-NDHFPVSLMDLPCVVESFKTY 88 (177)
Q Consensus 58 d~R~~~v~i~-~~~y~a~LvDLP~IiEs~KT~ 88 (177)
++.++.+.|| ++.+.|+.+.|+.=.=.++--
T Consensus 54 ~~~~~~L~IG~~q~L~Gkv~kL~kPLaVLrk~ 85 (122)
T PF09696_consen 54 WMKRVTLYIGKHQRLEGKVVKLKKPLAVLRKR 85 (122)
T ss_pred CCCeEEEEECCCEEEEEEEeccCCCEEEEEEc
Confidence 7889999999 999999999999877777555
No 14
>PLN02330 4-coumarate--CoA ligase-like 1
Probab=31.70 E-value=31 Score=31.36 Aligned_cols=40 Identities=18% Similarity=0.228 Sum_probs=22.8
Q ss_pred eEEEEECCeecceeeccCCeeeeeeeeccCcceEEeecccee
Q 030427 61 SGTFVIGNDHFPVSLMDLPCVVESFKTYDDCALVKTADIGQM 102 (177)
Q Consensus 61 ~~~v~i~~~~y~a~LvDLP~IiEs~KT~D~k~~yKtaDIsQM 102 (177)
.|.+.+.|.....-..+-|.-. .+++|...||+|||++.+
T Consensus 388 ~Gel~v~g~~~~~gy~~~~~~~--~~~~~~~g~~~TGD~~~~ 427 (546)
T PLN02330 388 PGELCVRSQCVMQGYYNNKEET--DRTIDEDGWLHTGDIGYI 427 (546)
T ss_pred ceEEEEecchhhhhhccCccch--hhhccCCCceecccEEEE
Confidence 4555555543333333333322 245677789999998765
No 15
>PRK12582 acyl-CoA synthetase; Provisional
Probab=30.80 E-value=47 Score=31.02 Aligned_cols=16 Identities=13% Similarity=0.436 Sum_probs=12.6
Q ss_pred eccCcceEEeecccee
Q 030427 87 TYDDCALVKTADIGQM 102 (177)
Q Consensus 87 T~D~k~~yKtaDIsQM 102 (177)
.++...||+|||++.+
T Consensus 447 ~f~~dgw~~TGDlg~~ 462 (624)
T PRK12582 447 AFDEEGFYRLGDAARF 462 (624)
T ss_pred hcCccCCccccceEEe
Confidence 4555679999999876
No 16
>cd02639 R3H_RRM R3H domain of mainly fungal proteins which are associated with a RNA recognition motif (RRM) domain. Present in this group is the RNA-binding post-transcriptional regulator Cip2 (Csx1-interacting protein 2) involved in counteracting Csx1 function. Csx1 plays a central role in controlling gene expression during oxidative stress. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=29.94 E-value=37 Score=23.37 Aligned_cols=27 Identities=19% Similarity=0.471 Sum_probs=18.7
Q ss_pred ceeEEecCCCCCCCCcccccCCCCccccc
Q 030427 100 GQMIMVREPGDSTPDAVEYRHGLTPPMRD 128 (177)
Q Consensus 100 sQMLvv~~~~~~~p~~~~~~hGiTPPmkn 128 (177)
||+|+-.++.+ -....||+|+||--+.
T Consensus 6 sqlllFkdd~~--~~eL~Fp~~ls~~eRr 32 (60)
T cd02639 6 SQLLLFKDDRM--RDELAFPSSLSPAERR 32 (60)
T ss_pred eeEEEEecCCC--ceEEEcCCCCCHHHHH
Confidence 57777766544 4567899999986443
No 17
>KOG1176 consensus Acyl-CoA synthetase [Lipid transport and metabolism]
Probab=29.09 E-value=14 Score=35.37 Aligned_cols=17 Identities=29% Similarity=0.601 Sum_probs=14.2
Q ss_pred eeccCcceEEeecccee
Q 030427 86 KTYDDCALVKTADIGQM 102 (177)
Q Consensus 86 KT~D~k~~yKtaDIsQM 102 (177)
.++|+..||+|||||=+
T Consensus 402 ~~~~~~GW~~TGDiGy~ 418 (537)
T KOG1176|consen 402 EAFDDDGWFHTGDLGYF 418 (537)
T ss_pred hhcccCCccccCceEEE
Confidence 48888899999999743
No 18
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=27.55 E-value=31 Score=25.70 Aligned_cols=27 Identities=15% Similarity=0.444 Sum_probs=22.9
Q ss_pred ccccccccccCCCCCChHHHHHHHHHHHHHhc
Q 030427 126 MRDARKRRFRREPDLNPELVQRVEKDLLNIMT 157 (177)
Q Consensus 126 mknvRkRRFRK~~~~~~~~ie~VE~el~~Ll~ 157 (177)
|.++..+.|.|+ +.|..||+++.+++.
T Consensus 12 l~~~~t~~FSk~-----DTI~~v~~~~rklf~ 38 (88)
T PF14836_consen 12 LQSVLTKQFSKT-----DTIGFVEKEMRKLFN 38 (88)
T ss_dssp CCEEEEEEE-TT-----SBHHHHHHHHHHHCT
T ss_pred cccHhHhhcccc-----ChHHHHHHHHHHHhC
Confidence 678889999998 478899999999988
No 19
>PF05142 DUF702: Domain of unknown function (DUF702) ; InterPro: IPR007818 This is a family of plant proteins of unknown function.
Probab=27.22 E-value=52 Score=27.00 Aligned_cols=17 Identities=29% Similarity=0.296 Sum_probs=15.3
Q ss_pred EEEEECCeecceeeccC
Q 030427 62 GTFVIGNDHFPVSLMDL 78 (177)
Q Consensus 62 ~~v~i~~~~y~a~LvDL 78 (177)
+.|+|+|..|.|.|.|-
T Consensus 133 TaV~IGGHVFKGiLYDq 149 (154)
T PF05142_consen 133 TAVNIGGHVFKGILYDQ 149 (154)
T ss_pred EeEEECCEEeeeeeecc
Confidence 48999999999999983
No 20
>PF04179 Init_tRNA_PT: Initiator tRNA phosphoribosyl transferase ; InterPro: IPR007306 This enzyme (2.4.2 from EC) modifies exclusively the initiator tRNA in position 64 using 5'-phosphoribosyl-1'-pyrophosphate as the modification donor. As the initiator tRNA participates both in the initiation and elongation of translation, the 2'-O-ribosyl phosphate modification discriminates the initiator tRNAs from the elongator tRNAs. ; GO: 0016763 transferase activity, transferring pentosyl groups
Probab=27.17 E-value=43 Score=31.64 Aligned_cols=22 Identities=27% Similarity=0.336 Sum_probs=17.2
Q ss_pred cccccCCCCccccccccccccC
Q 030427 115 AVEYRHGLTPPMRDARKRRFRR 136 (177)
Q Consensus 115 ~~~~~hGiTPPmknvRkRRFRK 136 (177)
.-.|-|||||++-|.-+..+-.
T Consensus 232 ~E~Wa~GLTP~lFW~~~~~Ll~ 253 (451)
T PF04179_consen 232 HESWARGLTPQLFWANKDELLS 253 (451)
T ss_pred hhhccCCCChHHHHhCHHHHhc
Confidence 3579999999999976666533
No 21
>PRK01115 DNA polymerase sliding clamp; Validated
Probab=25.19 E-value=1.9e+02 Score=23.76 Aligned_cols=44 Identities=20% Similarity=0.467 Sum_probs=30.1
Q ss_pred HHHHHHHHhcCCCCCCCCCeeEEEecCCceEEEEECC---eecceeeccC
Q 030427 32 AERIDRLLSENESSEEDKSLDLSFCEDGRSGTFVIGN---DHFPVSLMDL 78 (177)
Q Consensus 32 a~~lr~~v~~~~~~~~~~~l~i~~~~d~R~~~v~i~~---~~y~a~LvDL 78 (177)
+..+.++++.-. .++.+.|.+..++.+..|.+++ ..|..+|+|-
T Consensus 72 l~~l~~il~~~~---~~~~v~i~~~~~~~~l~~~~~~~~~~~~~~~Lieg 118 (247)
T PRK01115 72 LEDLKKILKRAK---KGDKLELELDEEENKLKITFGGEKTREFSLPLLDV 118 (247)
T ss_pred HHHHHHHHhhCC---CCCEEEEEEcCCCCEEEEEEecCcEEEEEEEeecc
Confidence 445555554421 2346778876567899999999 8888888774
No 22
>PRK06164 acyl-CoA synthetase; Validated
Probab=24.71 E-value=59 Score=29.27 Aligned_cols=15 Identities=27% Similarity=0.437 Sum_probs=11.8
Q ss_pred ccCcceEEeecccee
Q 030427 88 YDDCALVKTADIGQM 102 (177)
Q Consensus 88 ~D~k~~yKtaDIsQM 102 (177)
++...||+|||++.+
T Consensus 402 ~~~~~~~~TGDl~~~ 416 (540)
T PRK06164 402 LTDDGYFRTGDLGYT 416 (540)
T ss_pred ccCCCceecCCeEEE
Confidence 444569999999876
No 23
>PF14201 DUF4318: Domain of unknown function (DUF4318)
Probab=24.21 E-value=1.1e+02 Score=22.07 Aligned_cols=25 Identities=24% Similarity=0.333 Sum_probs=21.1
Q ss_pred eeEEEecCCceEEEEECCeecceee
Q 030427 51 LDLSFCEDGRSGTFVIGNDHFPVSL 75 (177)
Q Consensus 51 l~i~~~~d~R~~~v~i~~~~y~a~L 75 (177)
.++.|-.+..-++|.++|..|.+.+
T Consensus 33 ~~l~Fisr~~Pi~~~idg~lYev~i 57 (74)
T PF14201_consen 33 ESLEFISRDKPITFKIDGVLYEVEI 57 (74)
T ss_pred CceEEEecCCcEEEEECCeEEEEEE
Confidence 5677777888999999999999875
No 24
>KOG1177 consensus Long chain fatty acid acyl-CoA ligase [Lipid transport and metabolism]
Probab=23.61 E-value=33 Score=33.40 Aligned_cols=20 Identities=25% Similarity=0.245 Sum_probs=16.9
Q ss_pred eeeeeccCcceEEeecccee
Q 030427 83 ESFKTYDDCALVKTADIGQM 102 (177)
Q Consensus 83 Es~KT~D~k~~yKtaDIsQM 102 (177)
++-+|+++.-||+||||+-|
T Consensus 452 kT~eti~~drW~~TGDi~~m 471 (596)
T KOG1177|consen 452 KTKETIGNDRWYDTGDIAVM 471 (596)
T ss_pred cchhhcccccceecCceEEE
Confidence 45577888899999999987
No 25
>PRK06334 long chain fatty acid--[acyl-carrier-protein] ligase; Validated
Probab=23.34 E-value=90 Score=28.60 Aligned_cols=15 Identities=20% Similarity=0.253 Sum_probs=12.0
Q ss_pred ccCcceEEeecccee
Q 030427 88 YDDCALVKTADIGQM 102 (177)
Q Consensus 88 ~D~k~~yKtaDIsQM 102 (177)
.++..||+|||++.+
T Consensus 406 ~~~~~w~~TGD~g~~ 420 (539)
T PRK06334 406 LGGETWYVTGDLGYV 420 (539)
T ss_pred eCCceeEECCCEEEE
Confidence 355679999999876
No 26
>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]
Probab=22.38 E-value=1.1e+02 Score=27.91 Aligned_cols=44 Identities=18% Similarity=0.253 Sum_probs=33.0
Q ss_pred EEECCee-cce---eeccCCeeeeeeeecc--CcceEEeeccceeEEecC
Q 030427 64 FVIGNDH-FPV---SLMDLPCVVESFKTYD--DCALVKTADIGQMIMVRE 107 (177)
Q Consensus 64 v~i~~~~-y~a---~LvDLP~IiEs~KT~D--~k~~yKtaDIsQMLvv~~ 107 (177)
.+|.|.. |.| .|.|||-|||.-|-=- .|+..-+|--|..+++.-
T Consensus 95 ~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg~qviavartcnli~~vl 144 (358)
T KOG1487|consen 95 TTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAVARTCNLIFIVL 144 (358)
T ss_pred EEecceEeccccceeeecCcchhcccccCCCCccEEEEEeecccEEEEEe
Confidence 4566665 654 6899999999998544 367899999998877553
No 27
>PRK08180 feruloyl-CoA synthase; Reviewed
Probab=21.82 E-value=61 Score=30.21 Aligned_cols=17 Identities=12% Similarity=0.376 Sum_probs=13.3
Q ss_pred eeccCcceEEeecccee
Q 030427 86 KTYDDCALVKTADIGQM 102 (177)
Q Consensus 86 KT~D~k~~yKtaDIsQM 102 (177)
+.++...||+|||++.+
T Consensus 434 ~~~~~dgw~~TGDlg~~ 450 (614)
T PRK08180 434 EAFDEEGYYRSGDAVRF 450 (614)
T ss_pred hhcccCCceeccceEEe
Confidence 34555679999999887
No 28
>TIGR00194 uvrC excinuclease ABC, C subunit. This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.
Probab=21.71 E-value=33 Score=33.20 Aligned_cols=63 Identities=25% Similarity=0.470 Sum_probs=47.1
Q ss_pred eeeccCCeeeeeeeeccCcceEEeeccceeEEecCCCCCCCCcc-cc-cCCCCcc-----ccccccccccCC
Q 030427 73 VSLMDLPCVVESFKTYDDCALVKTADIGQMIMVREPGDSTPDAV-EY-RHGLTPP-----MRDARKRRFRRE 137 (177)
Q Consensus 73 a~LvDLP~IiEs~KT~D~k~~yKtaDIsQMLvv~~~~~~~p~~~-~~-~hGiTPP-----mknvRkRRFRK~ 137 (177)
+.+++||+. ...-.+|..++.=+.=|+-| ||++.+.+....| .| -++++.| |+-|-.|||++.
T Consensus 373 ~~~l~L~~~-~rIE~fDiSh~~G~~~V~sm-Vvf~~G~~~k~~YR~f~i~~~~~~dDya~m~Evl~RR~~r~ 442 (574)
T TIGR00194 373 ASLLNLPKI-KRIEIFDISHIDGSQTVGSM-VVFEDGKPLKASYRRYNINSITGGDDYAAMREVLRRRYSSI 442 (574)
T ss_pred HHHhCcCCC-CEEEEEECCccCCCcceEEE-EEEeCCccChhhCCeeecCCCCCCCHHHHHHHHHHHHHhhh
Confidence 578899988 88999999999999999999 6676776655433 11 1244444 888889999773
No 29
>PF13078 DUF3942: Protein of unknown function (DUF3942)
Probab=21.69 E-value=1.9e+02 Score=22.95 Aligned_cols=42 Identities=26% Similarity=0.314 Sum_probs=35.0
Q ss_pred CeeEEEecCCceEEEEECCeecceeeccCCeeeeeeeeccCc
Q 030427 50 SLDLSFCEDGRSGTFVIGNDHFPVSLMDLPCVVESFKTYDDC 91 (177)
Q Consensus 50 ~l~i~~~~d~R~~~v~i~~~~y~a~LvDLP~IiEs~KT~D~k 91 (177)
+.+..|...+++-.+++++..|...+--=-.|||.+|+.|+-
T Consensus 45 n~~~~~~ts~~~s~i~i~nikfk~~vd~e~NiI~v~k~~d~~ 86 (126)
T PF13078_consen 45 NPDFFFFTSGRNSHIVIENIKFKTRVDKERNIIEVTKIVDMV 86 (126)
T ss_pred CCceEEEEcCCcceEEEeeeEEEEEEcccccEEEEEEecCce
Confidence 344555557899999999999999988888999999999874
No 30
>PF00501 AMP-binding: AMP-binding enzyme; InterPro: IPR000873 A number of prokaryotic and eukaryotic enzymes, which appear to act via an ATP-dependent covalent binding of AMP to their substrate, share a region of sequence similarity [, , ]. This region is a Ser/Thr/Gly-rich domain that is further characterised by a conserved Pro-Lys-Gly triplet. The family of enzymes includes luciferase, long chain fatty acid Co-A ligase, acetyl-CoA synthetase and various other closely-related synthetases.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2V7B_A 2Y4O_B 2VSQ_A 3L8C_B 1RY2_A 3KXW_A 3LNV_A 3ETC_B 3A9U_A 3A9V_A ....
Probab=20.26 E-value=41 Score=28.87 Aligned_cols=11 Identities=27% Similarity=0.691 Sum_probs=10.1
Q ss_pred ceEEeecccee
Q 030427 92 ALVKTADIGQM 102 (177)
Q Consensus 92 ~~yKtaDIsQM 102 (177)
.||+|||++.+
T Consensus 388 ~~~~TGD~g~~ 398 (417)
T PF00501_consen 388 GWYRTGDLGRL 398 (417)
T ss_dssp SEEEEEEEEEE
T ss_pred cceecceEEEE
Confidence 49999999987
Done!