Query 027140
Match_columns 227
No_of_seqs 142 out of 628
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 05:32:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027140.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027140hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0948 Nuclear exosomal RNA h 100.0 7.8E-54 1.7E-58 402.2 20.0 225 1-225 725-950 (1041)
2 KOG0947 Cytoplasmic exosomal R 100.0 9.8E-37 2.1E-41 292.6 16.9 217 8-225 936-1156(1248)
3 COG4581 Superfamily II RNA hel 100.0 1.7E-27 3.7E-32 234.6 16.5 220 2-224 726-951 (1041)
4 PF08148 DSHCT: DSHCT (NUC185) 99.9 3.1E-24 6.7E-29 177.1 9.2 88 138-225 1-91 (180)
5 PF13234 rRNA_proc-arch: rRNA- 99.9 5.2E-23 1.1E-27 179.4 10.1 115 1-115 152-267 (268)
6 PF04408 HA2: Helicase associa 94.4 0.052 1.1E-06 40.3 3.6 57 129-188 3-59 (102)
7 smart00847 HA2 Helicase associ 90.4 0.99 2.1E-05 32.3 5.8 60 129-190 3-62 (92)
8 PRK11664 ATP-dependent RNA hel 88.6 3.1 6.7E-05 42.1 9.6 65 123-189 384-448 (812)
9 TIGR01970 DEAH_box_HrpB ATP-de 82.9 2.6 5.6E-05 42.7 5.8 48 123-172 381-429 (819)
10 PF12246 MKT1_C: Temperature d 78.0 1.7 3.7E-05 37.4 2.4 45 130-174 1-53 (243)
11 PRK11512 DNA-binding transcrip 74.7 6.4 0.00014 30.7 4.7 62 122-186 68-139 (144)
12 PRK03573 transcriptional regul 69.4 9.4 0.0002 29.6 4.5 61 122-186 60-130 (144)
13 TIGR01967 DEAH_box_HrpA ATP-de 59.7 19 0.00041 38.4 5.8 63 123-189 449-515 (1283)
14 COG1846 MarR Transcriptional r 58.2 37 0.0008 24.5 5.8 55 121-179 49-113 (126)
15 COG1202 Superfamily II helicas 53.1 18 0.00039 35.6 3.9 65 120-186 612-681 (830)
16 PF14193 DUF4315: Domain of un 47.2 90 0.002 22.4 6.0 15 172-186 46-60 (83)
17 PF07749 ERp29: Endoplasmic re 44.4 42 0.00091 24.5 4.0 35 101-135 60-94 (95)
18 PF04420 CHD5: CHD5-like prote 43.7 1.7E+02 0.0037 23.4 9.3 53 62-115 39-91 (161)
19 PF08461 HTH_12: Ribonuclease 42.7 64 0.0014 21.9 4.5 28 122-149 32-63 (66)
20 cd05495 Bromo_cbp_like Bromodo 41.9 1.4E+02 0.0031 22.1 7.8 67 29-95 3-73 (108)
21 smart00529 HTH_DTXR Helix-turn 41.5 51 0.0011 23.3 4.1 64 122-187 13-80 (96)
22 cd00238 ERp29c ERp29 and ERp38 40.4 1.4E+02 0.0031 21.7 8.2 34 102-135 59-93 (93)
23 PRK11131 ATP-dependent RNA hel 40.3 61 0.0013 34.8 5.9 62 124-189 457-524 (1294)
24 KOG4196 bZIP transcription fac 39.5 1.5E+02 0.0033 23.3 6.5 93 31-137 27-119 (135)
25 PF03444 HrcA_DNA-bdg: Winged 39.2 31 0.00067 24.6 2.5 29 123-151 38-72 (78)
26 PF06969 HemN_C: HemN C-termin 38.0 35 0.00077 22.5 2.6 30 120-149 33-65 (66)
27 PF04977 DivIC: Septum formati 36.8 1.3E+02 0.0029 20.3 6.4 15 129-143 58-73 (80)
28 COG1643 HrpA HrpA-like helicas 36.2 60 0.0013 33.2 4.9 65 123-190 433-497 (845)
29 PF02885 Glycos_trans_3N: Glyc 36.1 19 0.00042 24.3 1.0 17 173-189 31-47 (66)
30 PF08232 Striatin: Striatin fa 35.8 1.4E+02 0.0031 23.2 6.1 40 93-134 21-60 (134)
31 KOG0286 G-protein beta subunit 32.4 32 0.00068 30.9 2.0 52 100-151 5-56 (343)
32 KOG4253 Tryptophan-rich basic 31.8 2.8E+02 0.0061 22.5 8.4 44 64-115 45-88 (175)
33 cd05506 Bromo_plant1 Bromodoma 31.0 1.8E+02 0.0038 20.9 5.6 62 32-94 3-68 (99)
34 cd05500 Bromo_BDF1_2_I Bromodo 30.8 2E+02 0.0044 20.9 6.0 63 28-91 3-69 (103)
35 KOG0925 mRNA splicing factor A 30.3 83 0.0018 30.5 4.5 59 126-185 433-495 (699)
36 PRK00304 hypothetical protein; 29.1 59 0.0013 23.0 2.5 23 171-193 5-27 (75)
37 PF14947 HTH_45: Winged helix- 28.5 58 0.0012 22.6 2.5 38 117-155 29-69 (77)
38 PRK11415 hypothetical protein; 28.5 2.1E+02 0.0045 19.9 5.6 56 55-111 9-67 (74)
39 PF14771 DUF4476: Domain of un 27.3 1.5E+02 0.0032 21.2 4.6 50 123-191 8-57 (95)
40 PF04508 Pox_A_type_inc: Viral 26.8 1.1E+02 0.0023 16.7 2.7 17 100-116 4-20 (23)
41 PF10482 CtIP_N: Tumour-suppre 25.5 2.7E+02 0.0059 21.3 5.7 27 68-94 54-81 (120)
42 cd00632 Prefoldin_beta Prefold 25.0 2.2E+02 0.0047 20.9 5.2 41 96-141 5-45 (105)
43 cd05497 Bromo_Brdt_I_like Brom 24.8 2.9E+02 0.0063 20.4 6.6 55 39-94 15-73 (107)
44 PF14335 DUF4391: Domain of un 24.3 4.3E+02 0.0092 22.1 8.2 74 56-129 134-214 (221)
45 PF13822 ACC_epsilon: Acyl-CoA 23.6 52 0.0011 22.1 1.4 16 173-188 10-25 (62)
46 PF13601 HTH_34: Winged helix 22.0 66 0.0014 22.6 1.8 34 122-155 28-72 (80)
47 PF08385 DHC_N1: Dynein heavy 21.3 7E+02 0.015 23.5 9.6 105 65-171 266-377 (579)
48 KOG0920 ATP-dependent RNA heli 21.2 1.2E+02 0.0025 31.5 3.9 62 122-184 591-653 (924)
No 1
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=7.8e-54 Score=402.23 Aligned_cols=225 Identities=56% Similarity=0.811 Sum_probs=221.6
Q ss_pred CEEEEecccccceeeeeeEEcCCCCCCHHHHHHHHHHHHHHHhhCCCCCCCCCccccCCCCChHHHHHHHHHHHHHHHHH
Q 027140 1 MHVVPVQLPLISTLSKIRLSVPPDLRPLDARQSILLAVQELESRFPQGLPKLNPVKDMKIEDPEVVDLVNQIEELEHKLF 80 (227)
Q Consensus 1 ~~v~~v~l~~i~~is~~~l~ip~~~~~~~~~~~~~~~l~~~~~~~~~~~p~l~p~~~~ki~~~~~~~~~~~~~~l~~~l~ 80 (227)
|.++||+++.|..||++|+++|+|+++.+++..+..+++++.++||+|+|++||+.||+|++.+|.+..++++.|+.++.
T Consensus 725 ~~vvpv~l~~i~~is~~r~~iP~dl~~~d~r~~~~k~v~e~~~rfp~gip~LdPv~dM~I~~~~~~~~~~k~e~lE~~l~ 804 (1041)
T KOG0948|consen 725 MEVVPVLLTLIDAISSIRLYIPKDLRSVDARLSVLKAVQEVKSRFPDGIPLLDPVKDMNIKDVEFKKLVKKIESLEARLE 804 (1041)
T ss_pred eEEEeeeHHHHhhhhHHHhcCcccccCcchHHHHHHHHHHHHHhcCCCCCCcChhhccCccchHHHHHHHHHHHHHHhhc
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCC-ChHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCch
Q 027140 81 AHPLNKS-QDENQIRCFQRKAEVNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDE 159 (227)
Q Consensus 81 ~~p~~~c-~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~l~l~~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~E 159 (227)
.||.|.. ..++.|+.+.++..|..++++++.++++.+...+++|+++|.+||++|||++.+++|.+||||||||+|+||
T Consensus 805 ~hp~~k~~~~~~~~~~f~~K~~l~~~ik~lk~~l~~~~~i~~ldELk~RkRVLrrLG~~t~ddvie~KGrvACEIsSgDE 884 (1041)
T KOG0948|consen 805 SHPLHKSSELEELYKEFQRKETLRAEIKDLKAELKSSQAILQLDELKNRKRVLRRLGYCTSDDVIELKGRVACEISSGDE 884 (1041)
T ss_pred cCcccCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhCCCCCCCeEEEcceEEEEecccch
Confidence 9999999 999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhCCCCCCCHHHHHHHhhhcccccCCCCCcCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027140 160 LLVTELMFNGTFNDLDHHQVAALASCFIPVDKSSEQINLRMELAKPLQQLQESARKIAEVYKMSAN 225 (227)
Q Consensus 160 LllTEll~~g~f~~L~p~eiaAllS~~V~~~r~~~~~~l~~~l~~~~~~l~~ia~~i~~v~~~~~~ 225 (227)
|++|||||+|.|++|+|+|+||||||||||+++++.|.+.++|+.++.+|++.|++|++|+.+|+.
T Consensus 885 LlLTEliFnG~Fndl~~eq~aaLLSCfVf~eks~e~~~l~~el~~~l~~lqe~ArrIAkVs~ecKl 950 (1041)
T KOG0948|consen 885 LLLTELIFNGIFNDLPVEQAAALLSCFVFQEKSSEAPKLKEELAGPLRQLQESARRIAKVSKECKL 950 (1041)
T ss_pred HHHHHHHHhccccCCCHHHHHHHHhheeehhcccccccchHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 999999999999999999999999999999999988999999999999999999999999999985
No 2
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=100.00 E-value=9.8e-37 Score=292.62 Aligned_cols=217 Identities=26% Similarity=0.354 Sum_probs=190.0
Q ss_pred ccccceeeeeeEEcCCCCCCHHHHHHHHHHHHHHHhh---CCCCCCCCCccccCCCCChHHHHHHHHHHHHHHHHHcCCC
Q 027140 8 LPLISTLSKIRLSVPPDLRPLDARQSILLAVQELESR---FPQGLPKLNPVKDMKIEDPEVVDLVNQIEELEHKLFAHPL 84 (227)
Q Consensus 8 l~~i~~is~~~l~ip~~~~~~~~~~~~~~~l~~~~~~---~~~~~p~l~p~~~~ki~~~~~~~~~~~~~~l~~~l~~~p~ 84 (227)
++.|+.++...+..+...........+.....++... ...++|..+|+++.+.++.++.+...+...+++.+..+||
T Consensus 936 ~~~ie~l~~~~~~~~~~~~~D~~~aal~~~~~~~l~l~~~~~~~~~~~epv~~~k~kd~e~~~~~l~~~n~~~~~~~~~~ 1015 (1248)
T KOG0947|consen 936 VPNIEILCGDALRQIIGKVADGQKAALNESTAQVLDLLEGSLETPTWKEPVNDSKLKDDEVVEMLLERTNLQNLIQGNPC 1015 (1248)
T ss_pred CcchhhhhccccccccccccccHHHHHHHHHHHhhhhhhcCccCcchhhhhhhhhhccHHHHHHHHHHHHHHHHHhcCCc
Confidence 4555556655555443332222233344444444443 2456999999999999999999999999999999999999
Q ss_pred CCC-ChHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCchHHHH
Q 027140 85 NKS-QDENQIRCFQRKAEVNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVT 163 (227)
Q Consensus 85 ~~c-~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~l~l~~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllT 163 (227)
+.| +|.+||....+..+++.++++|+.++++ +++.+.|+|.+|+.||+.+||||+..+|++||||||||+|++|||+|
T Consensus 1016 i~c~~f~~h~s~~~~~~~~~~ei~~L~~~~sd-~~L~l~pey~~RlevLk~~g~vD~~~~V~lkGRvAceI~s~~ELllt 1094 (1248)
T KOG0947|consen 1016 ISCPKFDQHYSLARREYKIEKEIENLEFELSD-QSLLLSPEYHNRLEVLKPLGFVDEMRTVLLKGRVACEINSGNELLLT 1094 (1248)
T ss_pred cCCccHHHHHHHHHHHHHHHHHhhhhhhhhhh-hhhhhCHHHHHHHHHHhhcCcccccceeeecceeeeeecCCcchhHH
Confidence 999 9999999999999999999999999999 99999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCCCCHHHHHHHhhhcccccCCCCCcCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 027140 164 ELMFNGTFNDLDHHQVAALASCFIPVDKSSEQINLRMELAKPLQQLQESARKIAEVYKMSAN 225 (227)
Q Consensus 164 Ell~~g~f~~L~p~eiaAllS~~V~~~r~~~~~~l~~~l~~~~~~l~~ia~~i~~v~~~~~~ 225 (227)
||||+|.|.+++|+|||||||+||||+++...|.++|.+.++.+.+.++++++..++..|+-
T Consensus 1095 eli~dn~l~~l~peeiaallSslV~e~~~e~~~~~~~~l~k~~e~v~~v~~rl~ev~~~~~~ 1156 (1248)
T KOG0947|consen 1095 ELIFDNALVDLSPEEIAALLSSLVCEGKTERPPTLTPYLKKGKERVRDVAKRLEEVQSSHQL 1156 (1248)
T ss_pred HHHHhhhhhhcCHHHHHHHHHHHHhcCccccCCCCChhhhhHHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999999999777899999999999999999999999998763
No 3
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.95 E-value=1.7e-27 Score=234.64 Aligned_cols=220 Identities=31% Similarity=0.369 Sum_probs=198.0
Q ss_pred EEEEecccccceeeeeeEEcCCCCCCHHHHHHHHHHHHHHHhhCCCC-CCCCCccccCCCCChHHHHHHHHHHHHHHHHH
Q 027140 2 HVVPVQLPLISTLSKIRLSVPPDLRPLDARQSILLAVQELESRFPQG-LPKLNPVKDMKIEDPEVVDLVNQIEELEHKLF 80 (227)
Q Consensus 2 ~v~~v~l~~i~~is~~~l~ip~~~~~~~~~~~~~~~l~~~~~~~~~~-~p~l~p~~~~ki~~~~~~~~~~~~~~l~~~l~ 80 (227)
.+..+++..+..+....+.+|+.+.....+......+......+.+| .+.++++.++++.+.++.............+.
T Consensus 726 ~~~~~~~~~~~~~~~~~l~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~v~~~~~~~~~~~~~~~~~~~~~~~~~ 805 (1041)
T COG4581 726 RISFVYLLNATEILELILTMPRRLLSRQGKLRRGEPSNEAIAAGLDGNEKILENVVEMKIQVPELTVSLLKLRFGRYHLS 805 (1041)
T ss_pred eeeeeeeccccccchhhhcCCHhHhhcccchhccchhHHHHHhccccchhhhhhcccccccchhHHHHHHHHhhcccccC
Confidence 56778888898999999999987654444444555555565666565 56999999999999999999999999999999
Q ss_pred cCCCCCC-ChHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCch
Q 027140 81 AHPLNKS-QDENQIRCFQRKAEVNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDE 159 (227)
Q Consensus 81 ~~p~~~c-~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~l~l~~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~E 159 (227)
.+|.+.| .+..|++.......|..+++++...+ +.+.+.++|..+..+|+.+||++.+.+|+.|||+||||+|++|
T Consensus 806 ~~~~~~~~~~~~~~~~~~~~~~L~~~i~~l~~~~---~~~~~l~~~~~l~~~l~~~g~~~~~~~v~~kGr~a~eI~s~~e 882 (1041)
T COG4581 806 ENPLMNFDGAERLIENELLLSDLQAEIEDLSSSI---EALSFLDDYKTLQEVLKKLGFIEDNAVVLIKGRVAAEISSEDE 882 (1041)
T ss_pred CCccccchHHHHHHHhHhHHHHHHHHHHHHHHHH---HHhhhhHHHHHHHHHHHhhcCCCcccccccccceeeeecCCCc
Confidence 9999999 99999999999999999999999998 4567899999999999999999998999999999999999999
Q ss_pred HHHHHHHHhCCCCCCCHHHHHHHhhhcccccCCC----CCcCCcHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027140 160 LLVTELMFNGTFNDLDHHQVAALASCFIPVDKSS----EQINLRMELAKPLQQLQESARKIAEVYKMSA 224 (227)
Q Consensus 160 LllTEll~~g~f~~L~p~eiaAllS~~V~~~r~~----~~~~l~~~l~~~~~~l~~ia~~i~~v~~~~~ 224 (227)
|++|||||+|.|++++|+|+||++|||||+++++ +.|.++|.|++++..+.+++++|.+++.+++
T Consensus 883 llL~e~i~~g~f~~l~p~e~aallSa~v~e~~~~d~~~~~~~~~~~l~~~~~~l~e~~~kl~~~~~~~~ 951 (1041)
T COG4581 883 LLLTELIFSGEFNDLEPEELAALLSAFVFEEKTDDGTAEAPEITPALRDALLRLLELARKLNKDQNSSQ 951 (1041)
T ss_pred hHHHHHHHcCCccCCCHHHHHHHHHheeeccCCcccccccccCCHHHHhHHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999986 4577899999999999999999999999886
No 4
>PF08148 DSHCT: DSHCT (NUC185) domain; InterPro: IPR012961 This C-terminal domain is found in DOB1/SK12/helY-like DEAD box helicases [].; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides; PDB: 4A4Z_A 2XGJ_B 3L9O_A.
Probab=99.91 E-value=3.1e-24 Score=177.12 Aligned_cols=88 Identities=44% Similarity=0.682 Sum_probs=69.2
Q ss_pred ccCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhcccccCCCCC-cCC--cHHHHHHHHHHHHHHH
Q 027140 138 INADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCFIPVDKSSEQ-INL--RMELAKPLQQLQESAR 214 (227)
Q Consensus 138 id~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~V~~~r~~~~-~~l--~~~l~~~~~~l~~ia~ 214 (227)
||++++||+|||+||+|+++|||++|||||+|+|++|+|+|+||++|||||++++++. ... ++.+.++++++.++++
T Consensus 1 id~~~~vt~kGr~a~~I~~~~eLl~te~l~~g~f~~L~p~elAa~lS~~v~e~~~~~~~~~~~~~~~l~~~~~~l~~~~~ 80 (180)
T PF08148_consen 1 IDEDNVVTLKGRVACEIYSEDELLLTELLFSGVFDDLDPAELAALLSCFVYEPRREDEEERYPPSPRLREALEQLQEIAE 80 (180)
T ss_dssp B-TTS-BSHHHHHHCC--SSTHHHHHHHHHCTCCCCS-HHHHHHHHHHHC-----SS---------HHHHHHHHHHHHHH
T ss_pred CCCCCccCHHHHHHHHHcCcccHHHHHHHHcCCCCCCCHHHHHHHHHHhhcccccCcccccccccHHHHHHHHHHHHHHH
Confidence 7899999999999999999999999999999999999999999999999999997654 222 2389999999999999
Q ss_pred HHHHHHHHhcC
Q 027140 215 KIAEVYKMSAN 225 (227)
Q Consensus 215 ~i~~v~~~~~~ 225 (227)
+|++++.+||.
T Consensus 81 ~l~~~~~~~~l 91 (180)
T PF08148_consen 81 RLAKVEREHGL 91 (180)
T ss_dssp HHHHHHHHTT-
T ss_pred HHHHHHHHhCC
Confidence 99999999986
No 5
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=99.89 E-value=5.2e-23 Score=179.44 Aligned_cols=115 Identities=50% Similarity=0.855 Sum_probs=102.6
Q ss_pred CEEEEecccccceeeeeeEEcCCCCCCHHHHHHHHHHHHHHHhhCCCCCCCCCccccCCCCChHHHHHHHHHHHHHHHHH
Q 027140 1 MHVVPVQLPLISTLSKIRLSVPPDLRPLDARQSILLAVQELESRFPQGLPKLNPVKDMKIEDPEVVDLVNQIEELEHKLF 80 (227)
Q Consensus 1 ~~v~~v~l~~i~~is~~~l~ip~~~~~~~~~~~~~~~l~~~~~~~~~~~p~l~p~~~~ki~~~~~~~~~~~~~~l~~~l~ 80 (227)
+.|+||++++|..||++|+++|+|+++.++|+++.++++++.++|++|+|.|||++||+|++.+|.+...+++.|++++.
T Consensus 152 ~~vv~v~l~~I~~ISs~rl~lp~dl~~~~~r~~~~~~l~el~~r~~~giP~LDPi~DmkI~d~~~~e~~~k~~~Le~rl~ 231 (268)
T PF13234_consen 152 MEVVPVPLSCISSISSVRLKLPKDLRPQEARKQVLKSLQELLKRFPDGIPLLDPIKDMKIKDPEFVELVKKIEALEKRLS 231 (268)
T ss_dssp EEEEEEECCGEEEEEEEE----TTTTSCCCHHHHHHHHHHHHHHSSS--TCHHCHHHH----HHHHHHHHHHHHHHHHHH
T ss_pred EEEEEeeHHHHHHhhceeeeCcccccchHHHHHHHHHHHHHHHhCCCCCCccChHHhCCCCcHHHHHHHHHHHHHHHHHH
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCC-ChHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027140 81 AHPLNKS-QDENQIRCFQRKAEVNHEIQQLKSKMRD 115 (227)
Q Consensus 81 ~~p~~~c-~~~~~~~~~~~~~~l~~~~~~l~~~l~~ 115 (227)
+||||.| ++++||..++++..|+.+++.|++++++
T Consensus 232 ~~~~~~~~~~~~~~~~~~~k~~l~~~i~~Lk~~l~~ 267 (268)
T PF13234_consen 232 SHPLHKCPDFEEHYALYHEKAELQEEIKALKRQLSD 267 (268)
T ss_dssp HSCHCCSSSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999 9999999999999999999999999986
No 6
>PF04408 HA2: Helicase associated domain (HA2); InterPro: IPR007502 This presumed domain is about 90 amino acid residues in length. It is found as a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.; GO: 0004386 helicase activity; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=94.38 E-value=0.052 Score=40.33 Aligned_cols=57 Identities=21% Similarity=0.316 Sum_probs=34.8
Q ss_pred HHHHhHcCCccCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhccc
Q 027140 129 SRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCFIP 188 (227)
Q Consensus 129 ~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~V~ 188 (227)
...|..||.||+++.+|.-|+.++.+-- +--+---+++...|+- ..+++.+.|++-.
T Consensus 3 ~~~L~~Lgald~~~~lT~lG~~~~~lPl-~p~~a~~Ll~~~~~~~--~~~~~~iaa~ls~ 59 (102)
T PF04408_consen 3 LELLKSLGALDENGNLTPLGRKMSQLPL-DPRLAKMLLYGIQFGC--LDEALIIAAILSV 59 (102)
T ss_dssp HHHHHHTTSB-TTS-B-HHHHHHTTSSS--HHHHHHHHHHHHCT---HHHHHHHHHHHTS
T ss_pred HHHHHHCCCCCCCCCcCHHHHHHHHCCC-chHhHhHhhhcccccc--HHHHHHHHHHHcC
Confidence 4679999999999999999999999985 4444444444444544 3344444444443
No 7
>smart00847 HA2 Helicase associated domain (HA2) Add an annotation. This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.
Probab=90.37 E-value=0.99 Score=32.28 Aligned_cols=60 Identities=17% Similarity=0.202 Sum_probs=43.8
Q ss_pred HHHHhHcCCccCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhccccc
Q 027140 129 SRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCFIPVD 190 (227)
Q Consensus 129 ~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~V~~~ 190 (227)
...|..+|-||.++.+|.-|+..+++-. +- -++-+|..+...+=-..++++++|++-.++
T Consensus 3 ~~~L~~LgAld~~~~lT~lG~~m~~lPl-~P-rla~~Ll~a~~~~~c~~~~~~i~a~ls~~~ 62 (92)
T smart00847 3 LELLYELGALDDDGRLTPLGRKMAELPL-DP-RLAKMLLAAAELFGCLDEILTIAAMLSVGD 62 (92)
T ss_pred HHHHHHCCCcCCCCCcCHHHHHHHHCCC-Ch-HHHHHHHHHHhhcCcHHHHHHHHHHhcCCC
Confidence 4679999999999999999999999975 44 445555555432014578888888876543
No 8
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=88.60 E-value=3.1 Score=42.15 Aligned_cols=65 Identities=20% Similarity=0.287 Sum_probs=47.4
Q ss_pred HHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhcccc
Q 027140 123 DELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCFIPV 189 (227)
Q Consensus 123 ~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~V~~ 189 (227)
..+.+=+..|+.||.||+++.+|.-||..+++-. +.-+-.-+|....|. -..-.+||.++|+..+
T Consensus 384 ~~~~~A~~~L~~lgald~~g~lT~~G~~m~~lp~-~Prla~~ll~a~~~~-~~~l~~a~~laall~e 448 (812)
T PRK11664 384 AALAAAKRLLQQLGALDGQGRLTARGRKMAALGN-DPRLAAMLVAAKEDD-EAALATAAKLAAILEE 448 (812)
T ss_pred HHHHHHHHHHHHCCCCCCCCCcCHHHHHHHhcCC-chHHHHHHHHHHhcC-chhhHHHHHHHHhhcc
Confidence 5688889999999999999999999999999975 554444444444444 2111368888887664
No 9
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=82.85 E-value=2.6 Score=42.74 Aligned_cols=48 Identities=17% Similarity=0.394 Sum_probs=37.7
Q ss_pred HHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCchHHHHHHHHhC-CCC
Q 027140 123 DELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNG-TFN 172 (227)
Q Consensus 123 ~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllTEll~~g-~f~ 172 (227)
..+.+-+..|..||.||+++.+|.-|+..+++-. |- -++-||..+ .|.
T Consensus 381 ~~i~~a~~~L~~lgald~~~~lT~~G~~~~~lp~-~p-~l~~~ll~~~~~~ 429 (819)
T TIGR01970 381 VALAAARQLLQRLGALDAQGRLTAHGKAMAALGC-HP-RLAAMLLSAHSTG 429 (819)
T ss_pred HHHHHHHHHHHHCCCCCCCCCcCHHHHHHHhcCC-CH-HHHHHHHHhhhcC
Confidence 4578888999999999999999999999999985 54 444455444 444
No 10
>PF12246 MKT1_C: Temperature dependent protein affecting M2 dsRNA replication; InterPro: IPR022039 This domain family is found in eukaryotes, and is typically between 231 and 255 amino acids in length. There is a single completely conserved residue P that may be functionally important. MKT1 is required for maintenance of K2 toxin above 30 degrees C in strains with the L-A-HN variant of the L-A double-stranded RNA virus of Saccharomyces cerevisiae. MKT1 is a 93 kDa protein with serine-rich regions and the retroviral protease signature, DTG. This family is the C-terminal region of MKT1.
Probab=77.98 E-value=1.7 Score=37.45 Aligned_cols=45 Identities=27% Similarity=0.245 Sum_probs=38.4
Q ss_pred HHHhHcCCccCCCccchhhHHhhhhcCC------ch--HHHHHHHHhCCCCCC
Q 027140 130 RVLKKLGHINADGVVQLKGRAACLIDTG------DE--LLVTELMFNGTFNDL 174 (227)
Q Consensus 130 ~VL~~Lgyid~~~~vt~KGrvAceI~s~------~E--LllTEll~~g~f~~L 174 (227)
|.|.-+||+|+...+|.=|++.....+. .| +++.|||..|+++.=
T Consensus 1 R~L~l~Gyi~~~~~lT~wGk~L~~~~~~~~~~~~~E~~ll~lELlR~g~L~~~ 53 (243)
T PF12246_consen 1 RFLELRGYIDKSHELTPWGKALAKALKSLKPNDLQEALLLLLELLRFGVLTLN 53 (243)
T ss_pred CchhHHhHhcCCCCcCHHHHHHHHHHhccCchhhhhHHHHHHHHHHcCCcCCC
Confidence 3578899999999999999999888754 22 899999999999865
No 11
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=74.69 E-value=6.4 Score=30.66 Aligned_cols=62 Identities=21% Similarity=0.187 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhHcCCccC-----C-----CccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhc
Q 027140 122 RDELKNRSRVLKKLGHINA-----D-----GVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCF 186 (227)
Q Consensus 122 ~~e~~~~~~VL~~Lgyid~-----~-----~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~ 186 (227)
.+..-+.++-|.+.|||.. | -.+|.||+-+.+--. -.+.+-+.+.+|++++|+|++++...+
T Consensus 68 ~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~~~~~---~~~~~~~~~~l~~~ls~ee~~~l~~~L 139 (144)
T PRK11512 68 LGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAICEQCH---QLVGQDLHQELTKNLTADEVATLEHLL 139 (144)
T ss_pred HHHHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHHHHHH---HHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence 5777889999999999963 1 388999997653311 122344567789999999999886543
No 12
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=69.39 E-value=9.4 Score=29.56 Aligned_cols=61 Identities=13% Similarity=0.082 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhHcCCccC-----C-----CccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhc
Q 027140 122 RDELKNRSRVLKKLGHINA-----D-----GVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCF 186 (227)
Q Consensus 122 ~~e~~~~~~VL~~Lgyid~-----~-----~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~ 186 (227)
.+...+.++-|.+.|||.. | -.+|.||+-..+--. -..+-+.+.+|.+++|+|+..+...+
T Consensus 60 ~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~~~~----~~~~~~~~~~~~~l~~ee~~~l~~~l 130 (144)
T PRK03573 60 QPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLISEVE----AVINKTRAEILHGISAEEIEQLITLI 130 (144)
T ss_pred hhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHHHHHH----HHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 4677899999999999963 1 269999998776331 22344556688999999998887665
No 13
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=59.65 E-value=19 Score=38.44 Aligned_cols=63 Identities=19% Similarity=0.345 Sum_probs=45.0
Q ss_pred HHHHHHHHHHhHcCCccCCC---ccchhhHHhhhhcCCchHHHHHHHHhCC-CCCCCHHHHHHHhhhcccc
Q 027140 123 DELKNRSRVLKKLGHINADG---VVQLKGRAACLIDTGDELLVTELMFNGT-FNDLDHHQVAALASCFIPV 189 (227)
Q Consensus 123 ~e~~~~~~VL~~Lgyid~~~---~vt~KGrvAceI~s~~ELllTEll~~g~-f~~L~p~eiaAllS~~V~~ 189 (227)
..+.+-+..|..||.||+++ .+|.-|+..+++.- + --++-||..|. |.-+ .+++.+.|++-.+
T Consensus 449 ~~i~~A~~~L~~LGAld~~~~~~~LT~lGr~ma~LPl-d-PrlarmLl~a~~~gcl--~e~l~IaA~Ls~~ 515 (1283)
T TIGR01967 449 RAIRDGFRLLEELGALDDDEAEPQLTPIGRQLAQLPV-D-PRLARMLLEAHRLGCL--QEVLIIASALSIQ 515 (1283)
T ss_pred HHHHHHHHHHHHCCCCCCCCCCccccHHHHHHhhcCC-C-hHHHHHHHHhhhcCCH--HHHHHHHHHHcCC
Confidence 34778889999999999887 79999999999986 4 45566666655 4433 3455555555433
No 14
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=58.21 E-value=37 Score=24.52 Aligned_cols=55 Identities=16% Similarity=0.146 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHhHcCCccC-----C-----CccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHH
Q 027140 121 FRDELKNRSRVLKKLGHINA-----D-----GVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQV 179 (227)
Q Consensus 121 l~~e~~~~~~VL~~Lgyid~-----~-----~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~ei 179 (227)
-.+...+.++-|.+-|||.. | -.+|.||+-+.+-... ..+-+...+|.+++++|+
T Consensus 49 ~~~~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~~~~~~----~~~~~~~~~~~~l~~~e~ 113 (126)
T COG1846 49 DRSTVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELLEQLLP----AAQELLAEILAGLSEEEL 113 (126)
T ss_pred CHHHHHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHHHHhcc----HHHHHHHHhccCCCHHHH
Confidence 45777889999999999953 2 2899999988877654 677778889999999995
No 15
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=53.09 E-value=18 Score=35.55 Aligned_cols=65 Identities=22% Similarity=0.236 Sum_probs=51.3
Q ss_pred HHHH--HHHHHHHHHhHcCCccCCC---ccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhc
Q 027140 120 KFRD--ELKNRSRVLKKLGHINADG---VVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCF 186 (227)
Q Consensus 120 ~l~~--e~~~~~~VL~~Lgyid~~~---~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~ 186 (227)
.++. +.++.+.-|+.+|||+.+| .+|..||+++.=.. .--.+|.|.+|+..+.+|=-||+-|.-|
T Consensus 612 ~~g~~~~~~k~l~~Lee~g~i~~~G~~v~~T~yGrava~~Fl--~p~~a~~Ir~~v~~~~~pl~i~~~l~pf 681 (830)
T COG1202 612 MLGAAFDPKKALSKLEEYGMIKKKGNIVRPTPYGRAVAMSFL--GPSEAEFIREGVLASMDPLRIAAELEPF 681 (830)
T ss_pred hccccCCHHHHHHHHHhcCCeeccCCEeeeccccceeEEeec--CchHHHHHHHhhhccCChHhHhhccccc
Confidence 4444 6788899999999999654 79999998764332 2346889999999999999999877666
No 16
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=47.20 E-value=90 Score=22.45 Aligned_cols=15 Identities=13% Similarity=0.255 Sum_probs=13.2
Q ss_pred CCCCHHHHHHHhhhc
Q 027140 172 NDLDHHQVAALASCF 186 (227)
Q Consensus 172 ~~L~p~eiaAllS~~ 186 (227)
-+|+|++++|+|+..
T Consensus 46 ~~mtp~eL~~~L~~~ 60 (83)
T PF14193_consen 46 MKMTPEELAAFLRAM 60 (83)
T ss_pred cCCCHHHHHHHHHHH
Confidence 469999999999887
No 17
>PF07749 ERp29: Endoplasmic reticulum protein ERp29, C-terminal domain; InterPro: IPR011679 ERp29 is a ubiquitously expressed endoplasmic reticulum protein found in mammals []. This protein is found associated with an N-terminal thioredoxin-like domain (IPR006662 from INTERPRO), which is homologous to the domain of human protein disulphide isomerase (PDI). ERp29 may help mediate the chaperone function of PDI. The C-terminal Erp29 domain has a 5-helical bundle fold. ERp29 is thought to form part of the thyroglobulin folding complex []. ; GO: 0005783 endoplasmic reticulum; PDB: 2QC7_B 1G7D_A 2C0G_B 1OVN_A 2C0F_A 2C0E_A 2C1Y_A.
Probab=44.44 E-value=42 Score=24.53 Aligned_cols=35 Identities=26% Similarity=0.371 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhHc
Q 027140 101 EVNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKKL 135 (227)
Q Consensus 101 ~l~~~~~~l~~~l~~~~~l~l~~e~~~~~~VL~~L 135 (227)
-+..|+++|.+-+...-+..=.++|..|++||+.+
T Consensus 60 fv~~E~~RL~~lL~~~l~~~K~del~~R~NIL~~F 94 (95)
T PF07749_consen 60 FVAKEIARLERLLEGKLSPEKKDELQKRLNILSSF 94 (95)
T ss_dssp HHHHHHHHHHHHHHSSS-HHHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHc
Confidence 35677888888777544555679999999999875
No 18
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=43.67 E-value=1.7e+02 Score=23.44 Aligned_cols=53 Identities=15% Similarity=0.211 Sum_probs=33.8
Q ss_pred ChHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027140 62 DPEVVDLVNQIEELEHKLFAHPLNKSQDENQIRCFQRKAEVNHEIQQLKSKMRD 115 (227)
Q Consensus 62 ~~~~~~~~~~~~~l~~~l~~~p~~~c~~~~~~~~~~~~~~l~~~~~~l~~~l~~ 115 (227)
..+..++..++.++.+++.+-.-. +.|....+.-++..++++|++.++...+.
T Consensus 39 ~~~~~~l~~Ei~~l~~E~~~iS~q-DeFAkwaKl~Rk~~kl~~el~~~~~~~~~ 91 (161)
T PF04420_consen 39 SKEQRQLRKEILQLKRELNAISAQ-DEFAKWAKLNRKLDKLEEELEKLNKSLSS 91 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHTTS-TT-TSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHcCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666777888888877765331 16666666666666666666666666665
No 19
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=42.74 E-value=64 Score=21.88 Aligned_cols=28 Identities=21% Similarity=0.438 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHhHcCCccCCC----ccchhhH
Q 027140 122 RDELKNRSRVLKKLGHINADG----VVQLKGR 149 (227)
Q Consensus 122 ~~e~~~~~~VL~~Lgyid~~~----~vt~KGr 149 (227)
-....++++.|.+-||+...+ .+|.||.
T Consensus 32 e~avRrrLr~me~~Glt~~~g~~G~~iT~~G~ 63 (66)
T PF08461_consen 32 EEAVRRRLRAMERDGLTRKVGRQGRIITEKGL 63 (66)
T ss_pred HHHHHHHHHHHHHCCCccccCCcccccCHHHH
Confidence 478899999999999997532 4777765
No 20
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=41.88 E-value=1.4e+02 Score=22.12 Aligned_cols=67 Identities=21% Similarity=0.360 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHhhCCCCCCCCCccccCCCCChHHHHHHH---HHHHHHHHHHcCCCCCC-ChHHHHHH
Q 027140 29 DARQSILLAVQELESRFPQGLPKLNPVKDMKIEDPEVVDLVN---QIEELEHKLFAHPLNKS-QDENQIRC 95 (227)
Q Consensus 29 ~~~~~~~~~l~~~~~~~~~~~p~l~p~~~~ki~~~~~~~~~~---~~~~l~~~l~~~p~~~c-~~~~~~~~ 95 (227)
+=++.+...+.++.+.-+...|+..|+..-+..-+++.+.+. .+..++..|.++...+. .|...+.+
T Consensus 3 ~l~~~~~~il~~l~~~~~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~l 73 (108)
T cd05495 3 ELRQALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWL 73 (108)
T ss_pred HHHHHHHHHHHHHHHcCcccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCCHHHHHHHHHH
Confidence 346667777777776656778999998754444567777766 46778888888776665 55554443
No 21
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=41.52 E-value=51 Score=23.29 Aligned_cols=64 Identities=16% Similarity=0.138 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHhHcCCccCC----CccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhcc
Q 027140 122 RDELKNRSRVLKKLGHINAD----GVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCFI 187 (227)
Q Consensus 122 ~~e~~~~~~VL~~Lgyid~~----~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~V 187 (227)
.+...+.+.-|++.|||... ..+|.+|+-..+--...--.+.+.+.. ..+++++++..++..|-
T Consensus 13 ~stvs~~l~~L~~~glI~r~~~~~~~lT~~g~~~~~~~~~~~~~~~~~l~~--~~~~~~~e~~~l~~~l~ 80 (96)
T smart00529 13 PPTVTQMLKKLEKDGLVEYEPYRGITLTEKGRRLARRLLRKHRLLERFLVD--VLGVDEEEVHEEAERLE 80 (96)
T ss_pred hHHHHHHHHHHHHCCCEEEcCCCceEechhHHHHHHHHHHHHHHHHHHHHH--HhCCCHHHHHHHHHHHH
Confidence 46677888889999999752 478888877543221111123333332 22789999888877764
No 22
>cd00238 ERp29c ERp29 and ERp38, C-terminal domain; composed of the protein disulfide isomerase (PDI)-like proteins ERp29 and ERp38. ERp29 (also called ERp28) is a ubiquitous endoplasmic reticulum (ER)-resident protein expressed in high levels in secretory cells. It contains a redox inactive TRX-like domain at the N-terminus. 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 and is essential in regulating the secretion of thyroglobulin. 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. ERp38 is a P5-like protein, first isolated from alfalfa (the cDNA clone was named G1), which contains two redox active TRX domains at the N-terminus, like human P5.
Probab=40.41 E-value=1.4e+02 Score=21.68 Aligned_cols=34 Identities=24% Similarity=0.414 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHhhhh-hhHHHHHHHHHHHHHhHc
Q 027140 102 VNHEIQQLKSKMRDSQ-IQKFRDELKNRSRVLKKL 135 (227)
Q Consensus 102 l~~~~~~l~~~l~~~~-~l~l~~e~~~~~~VL~~L 135 (227)
+..|+++|.+-+.... +..-.++|..|.+||+.|
T Consensus 59 v~~E~~RL~~iL~~~~ls~~K~del~~R~NIL~~F 93 (93)
T cd00238 59 VEKELARLERLLEKKGLAPEKADELTRRLNILRSF 93 (93)
T ss_pred HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhcC
Confidence 5677888888887633 556679999999999864
No 23
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=40.33 E-value=61 Score=34.77 Aligned_cols=62 Identities=18% Similarity=0.311 Sum_probs=41.7
Q ss_pred HHHHHHHHHhHcCCccCC-----CccchhhHHhhhhcCCchHHHHHHHHhCC-CCCCCHHHHHHHhhhcccc
Q 027140 124 ELKNRSRVLKKLGHINAD-----GVVQLKGRAACLIDTGDELLVTELMFNGT-FNDLDHHQVAALASCFIPV 189 (227)
Q Consensus 124 e~~~~~~VL~~Lgyid~~-----~~vt~KGrvAceI~s~~ELllTEll~~g~-f~~L~p~eiaAllS~~V~~ 189 (227)
...+=+..|..||.||.+ +.+|.-|+..+++.- |- -++-+|..|. |+-++ |+..+.|++-.+
T Consensus 457 ~i~~al~~L~~LgAld~~~~~~~~~LT~lG~~la~LPl-dP-rlakmLl~a~~~~c~~--evl~IaA~Lsv~ 524 (1294)
T PRK11131 457 NIQDGVRLLEELGAITTDEQASAYKLTPLGRQLAQLPV-DP-RLARMVLEAQKHGCVR--EVMIITSALSIQ 524 (1294)
T ss_pred HHHHHHHHHHHCCCCCccccCCCccCcHHHHHHHhCCC-Ch-HHHHHHHHhhhcCCHH--HHHHHHHHHcCC
Confidence 356668899999999853 579999999999986 44 5555555554 55444 344444444333
No 24
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=39.54 E-value=1.5e+02 Score=23.25 Aligned_cols=93 Identities=18% Similarity=0.258 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHhhCCCCCCCCCccccCCCCChHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHHHH
Q 027140 31 RQSILLAVQELESRFPQGLPKLNPVKDMKIEDPEVVDLVNQIEELEHKLFAHPLNKSQDENQIRCFQRKAEVNHEIQQLK 110 (227)
Q Consensus 31 ~~~~~~~l~~~~~~~~~~~p~l~p~~~~ki~~~~~~~~~~~~~~l~~~l~~~p~~~c~~~~~~~~~~~~~~l~~~~~~l~ 110 (227)
-.-+..+++++-+.+. +...+++..+-++...|.+.=.+..|..-...+...+-.++..|.++++.|+
T Consensus 27 d~LvsmSVReLNr~Lr------------G~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~qqv~~L~ 94 (135)
T KOG4196|consen 27 DELVSMSVRELNRHLR------------GLSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQQVEKLK 94 (135)
T ss_pred HHHHHhhHHHHHHHhc------------CCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566677766541 1235666667777777776655555532133333445567788888888888
Q ss_pred HHHhhhhhhHHHHHHHHHHHHHhHcCC
Q 027140 111 SKMRDSQIQKFRDELKNRSRVLKKLGH 137 (227)
Q Consensus 111 ~~l~~~~~l~l~~e~~~~~~VL~~Lgy 137 (227)
.+++...- -.+-|+.+..-|..+|+
T Consensus 95 ~e~s~~~~--E~da~k~k~e~l~~~~~ 119 (135)
T KOG4196|consen 95 EENSRLRR--ELDAYKSKYEALQNSAV 119 (135)
T ss_pred HHHHHHHH--HHHHHHHHHHHHHhhhh
Confidence 88777322 35778888888888887
No 25
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=39.21 E-value=31 Score=24.61 Aligned_cols=29 Identities=21% Similarity=0.286 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhHcCCccC------CCccchhhHHh
Q 027140 123 DELKNRSRVLKKLGHINA------DGVVQLKGRAA 151 (227)
Q Consensus 123 ~e~~~~~~VL~~Lgyid~------~~~vt~KGrvA 151 (227)
-.-+|-+..|+.||||+. ..++|.||=-+
T Consensus 38 aTIRN~M~~Le~lGlve~~p~~s~GriPT~~aYr~ 72 (78)
T PF03444_consen 38 ATIRNEMADLEELGLVESQPHPSGGRIPTDKAYRA 72 (78)
T ss_pred HHHHHHHHHHHHCCCccCCCCCCCCCCcCHHHHHH
Confidence 456778889999999973 24788887433
No 26
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=37.96 E-value=35 Score=22.52 Aligned_cols=30 Identities=27% Similarity=0.406 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHhHcCCccCC---CccchhhH
Q 027140 120 KFRDELKNRSRVLKKLGHINAD---GVVQLKGR 149 (227)
Q Consensus 120 ~l~~e~~~~~~VL~~Lgyid~~---~~vt~KGr 149 (227)
.+.+.|...+.-|.+-|++.-+ -.+|.+|+
T Consensus 33 ~~~~~~~~~l~~l~~~Gll~~~~~~l~lT~~G~ 65 (66)
T PF06969_consen 33 DFAEEFQKELEELQEDGLLEIDGGRLRLTEKGR 65 (66)
T ss_dssp -THHH-HHHHHHHHHTTSEEE-SSEEEE-TTTG
T ss_pred CHHHHHHHHHHHHHHCCCEEEeCCEEEECcccC
Confidence 4678889999999999999643 37888887
No 27
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=36.81 E-value=1.3e+02 Score=20.27 Aligned_cols=15 Identities=27% Similarity=0.598 Sum_probs=9.1
Q ss_pred HHHHh-HcCCccCCCc
Q 027140 129 SRVLK-KLGHINADGV 143 (227)
Q Consensus 129 ~~VL~-~Lgyid~~~~ 143 (227)
-++=+ +|||+-++.+
T Consensus 58 e~~AR~~lgm~~~~E~ 73 (80)
T PF04977_consen 58 EKVAREKLGMVKPGEI 73 (80)
T ss_pred HHHHHHHcCCcCCCCE
Confidence 34444 7888876543
No 28
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=36.21 E-value=60 Score=33.22 Aligned_cols=65 Identities=20% Similarity=0.254 Sum_probs=47.0
Q ss_pred HHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhccccc
Q 027140 123 DELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCFIPVD 190 (227)
Q Consensus 123 ~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~V~~~ 190 (227)
.-+..=+..|..||-+|.+|.+|--|+-++.+.. |-=+-.-++..+.+.- -.|++.+.|++-+++
T Consensus 433 ~~i~~A~~~L~~LGAld~~g~LT~lG~~ms~lpl-dprLA~mLl~a~~~g~--~~e~~~Ias~Ls~~~ 497 (845)
T COG1643 433 AAIQAALTLLQELGALDDSGKLTPLGKQMSLLPL-DPRLARMLLTAPEGGC--LGEAATIASMLSEQD 497 (845)
T ss_pred HHHHHHHHHHHHcCCcCCCCCCCHHHHHHHhCCC-ChHHHHHHHhccccCc--HHHHHHHHHhhccCC
Confidence 4566677889999999999999999999999985 4444444444444332 246677777777766
No 29
>PF02885 Glycos_trans_3N: Glycosyl transferase family, helical bundle domain Prosite entry for Thymidine and pyrimidine-nucleoside phosphorylases; InterPro: IPR017459 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. The glycosyl transferase family includes anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase (2.4.2.2 from EC) catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism. This N-terminal domain is found in various family 3 glycosyl transferases, including anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism.; PDB: 2DSJ_B 2ELC_B 2BPQ_A 1ZVW_B 3QR9_B 1V8G_B 2WK5_C 2J0F_C 2WK6_B 1UOU_A ....
Probab=36.08 E-value=19 Score=24.27 Aligned_cols=17 Identities=18% Similarity=0.210 Sum_probs=13.3
Q ss_pred CCCHHHHHHHhhhcccc
Q 027140 173 DLDHHQVAALASCFIPV 189 (227)
Q Consensus 173 ~L~p~eiaAllS~~V~~ 189 (227)
.++|.|++|+|.++-+.
T Consensus 31 ~~s~~qiaAfL~al~~k 47 (66)
T PF02885_consen 31 EVSDAQIAAFLMALRMK 47 (66)
T ss_dssp SS-HHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHh
Confidence 46799999999998774
No 30
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=35.83 E-value=1.4e+02 Score=23.21 Aligned_cols=40 Identities=23% Similarity=0.326 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhH
Q 027140 93 IRCFQRKAEVNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKK 134 (227)
Q Consensus 93 ~~~~~~~~~l~~~~~~l~~~l~~~~~l~l~~e~~~~~~VL~~ 134 (227)
..|-.++.+++.+|..|+-+....++ +..++.++++.|+.
T Consensus 21 ~~WeiERaEmkarIa~LEGE~r~~e~--l~~dL~rrIkMLE~ 60 (134)
T PF08232_consen 21 NQWEIERAEMKARIAFLEGERRGQEN--LKKDLKRRIKMLEY 60 (134)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence 35667899999999999999888555 68999999998863
No 31
>KOG0286 consensus G-protein beta subunit [General function prediction only]
Probab=32.41 E-value=32 Score=30.88 Aligned_cols=52 Identities=25% Similarity=0.350 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhHcCCccCCCccchhhHHh
Q 027140 100 AEVNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKKLGHINADGVVQLKGRAA 151 (227)
Q Consensus 100 ~~l~~~~~~l~~~l~~~~~l~l~~e~~~~~~VL~~Lgyid~~~~vt~KGrvA 151 (227)
..|.+|.++|+.++.+.+.-..--++.++..=|..+|++.=...-++||.++
T Consensus 5 ~~l~~Eae~L~~qi~~~r~~~~D~~l~q~a~~~~~~~~i~~~~rr~LkGH~~ 56 (343)
T KOG0286|consen 5 EQLRQEAEQLKNQIRDARKKLNDVTLAQIAERLESVGRIQMRTRRTLKGHLN 56 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccHHHHhhccccceeeeeeeEEEeccccc
Confidence 3444445555555444222111133455666677777777666788888765
No 32
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=31.77 E-value=2.8e+02 Score=22.53 Aligned_cols=44 Identities=20% Similarity=0.370 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027140 64 EVVDLVNQIEELEHKLFAHPLNKSQDENQIRCFQRKAEVNHEIQQLKSKMRD 115 (227)
Q Consensus 64 ~~~~~~~~~~~l~~~l~~~p~~~c~~~~~~~~~~~~~~l~~~~~~l~~~l~~ 115 (227)
...+..+++.++.+.+.+-.. ...+.++.+++++++.+.++++.
T Consensus 45 k~~q~~~ei~dmKqelnavs~--------qD~fAkwaRlnRKi~kl~~ele~ 88 (175)
T KOG4253|consen 45 KESQKVAEIQDMKQELNAVSM--------QDNFAKWARLNRKINKLDKELET 88 (175)
T ss_pred HHHHHHHHHHHHHHHHhhhhh--------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 334556777777777765433 46677888888888888888766
No 33
>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=31.04 E-value=1.8e+02 Score=20.92 Aligned_cols=62 Identities=15% Similarity=0.206 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHhhCCCCCCCCCccccCCCCChHHHHHHH---HHHHHHHHHHcCCCCCC-ChHHHHH
Q 027140 32 QSILLAVQELESRFPQGLPKLNPVKDMKIEDPEVVDLVN---QIEELEHKLFAHPLNKS-QDENQIR 94 (227)
Q Consensus 32 ~~~~~~l~~~~~~~~~~~p~l~p~~~~ki~~~~~~~~~~---~~~~l~~~l~~~p~~~c-~~~~~~~ 94 (227)
+.+.+.+.++.+. +.+.|+..|+..-+-.-+++.+... .+..++.+|.++...+. .|.....
T Consensus 3 ~~c~~il~~l~~~-~~~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~s~~ef~~D~~ 68 (99)
T cd05506 3 KQCGTLLRKLMKH-KWGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVR 68 (99)
T ss_pred HHHHHHHHHHHhC-CCCccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCCCHHHHHHHHH
Confidence 4566667777664 5678999997643223455665554 46777788887776654 5544443
No 34
>cd05500 Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=30.79 E-value=2e+02 Score=20.92 Aligned_cols=63 Identities=17% Similarity=0.284 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHhhCCCCCCCCCccccCCCCChHHHHHHH---HHHHHHHHHHcCCCCCC-ChHH
Q 027140 28 LDARQSILLAVQELESRFPQGLPKLNPVKDMKIEDPEVVDLVN---QIEELEHKLFAHPLNKS-QDEN 91 (227)
Q Consensus 28 ~~~~~~~~~~l~~~~~~~~~~~p~l~p~~~~ki~~~~~~~~~~---~~~~l~~~l~~~p~~~c-~~~~ 91 (227)
...++.+.+.++.+.+. +...|+..|++-.+-.-+++.+... .+..+..++.+....+. .|..
T Consensus 3 ~~~~~~~~~ii~~l~~~-~~a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~Y~s~~~f~~ 69 (103)
T cd05500 3 KHQHKFLLSSIRSLKRL-KDARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTA 69 (103)
T ss_pred HHHHHHHHHHHHHHHcC-CCChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCCCCCHHHHHH
Confidence 45567788888888765 6678999998643323445555544 35566666666655443 4433
No 35
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=30.25 E-value=83 Score=30.47 Aligned_cols=59 Identities=22% Similarity=0.236 Sum_probs=41.9
Q ss_pred HHHHHHHhHcCCc---cCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCC-CHHHHHHHhhh
Q 027140 126 KNRSRVLKKLGHI---NADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDL-DHHQVAALASC 185 (227)
Q Consensus 126 ~~~~~VL~~Lgyi---d~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L-~p~eiaAllS~ 185 (227)
+.+++.|+.|+|+ |.+|.+|.-|++++|.-- |.-+.--+|-+-.|+=- +-=-|+|+||+
T Consensus 433 EtLMrALE~LnYLaaLdDdGnLT~lG~imSEFPL-dPqLAkmLi~S~efnCsnEiLsisAMLsv 495 (699)
T KOG0925|consen 433 ETLMRALEVLNYLAALDDDGNLTSLGEIMSEFPL-DPQLAKMLIGSCEFNCSNEILSISAMLSV 495 (699)
T ss_pred HHHHHHHHHhhhhhhhCCCcccchhhhhhhcCCC-ChHHHHHHhhcCCCCchHHHHHHHhcccC
Confidence 3455556665555 779999999999999987 66677777777777733 23456777764
No 36
>PRK00304 hypothetical protein; Provisional
Probab=29.12 E-value=59 Score=23.02 Aligned_cols=23 Identities=17% Similarity=0.440 Sum_probs=19.9
Q ss_pred CCCCCHHHHHHHhhhcccccCCC
Q 027140 171 FNDLDHHQVAALASCFIPVDKSS 193 (227)
Q Consensus 171 f~~L~p~eiaAllS~~V~~~r~~ 193 (227)
++.|+|+-+-+|+-.||..+.++
T Consensus 5 ~~~L~~eTL~nLIeefv~ReGTD 27 (75)
T PRK00304 5 YDQLEADTLTRLIEDFVTRDGTD 27 (75)
T ss_pred hHhCCHHHHHHHHHHHHhccCcc
Confidence 45699999999999999988774
No 37
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=28.53 E-value=58 Score=22.61 Aligned_cols=38 Identities=18% Similarity=0.019 Sum_probs=28.6
Q ss_pred hhhHHHHHHHHHHHHHhHcCCccCC---CccchhhHHhhhhc
Q 027140 117 QIQKFRDELKNRSRVLKKLGHINAD---GVVQLKGRAACLID 155 (227)
Q Consensus 117 ~~l~l~~e~~~~~~VL~~Lgyid~~---~~vt~KGrvAceI~ 155 (227)
.++ -++.+...+.-|...|+|..+ ..+|.||+-+.+..
T Consensus 29 ~~L-~~~~~~~yL~~L~~~gLI~~~~~~Y~lTekG~~~l~~l 69 (77)
T PF14947_consen 29 ANL-NYSTLKKYLKELEEKGLIKKKDGKYRLTEKGKEFLEEL 69 (77)
T ss_dssp ST---HHHHHHHHHHHHHTTSEEEETTEEEE-HHHHHHHHHH
T ss_pred hCc-CHHHHHHHHHHHHHCcCeeCCCCEEEECccHHHHHHHH
Confidence 454 478999999999999999653 58999998776543
No 38
>PRK11415 hypothetical protein; Provisional
Probab=28.49 E-value=2.1e+02 Score=19.91 Aligned_cols=56 Identities=16% Similarity=0.350 Sum_probs=33.6
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHHH---cCCCCCCChHHHHHHHHHHHHHHHHHHHHHH
Q 027140 55 VKDMKIEDPEVVDLVNQIEELEHKLF---AHPLNKSQDENQIRCFQRKAEVNHEIQQLKS 111 (227)
Q Consensus 55 ~~~~ki~~~~~~~~~~~~~~l~~~l~---~~p~~~c~~~~~~~~~~~~~~l~~~~~~l~~ 111 (227)
|..++-+|..|..+..+.+.|..++. .+|-... -.+.-..-.++..|.++|.++-.
T Consensus 9 I~~Lk~~D~~F~~L~~~h~~Ld~~I~~lE~~~~~~~-d~~i~~LKk~KL~LKDeI~~~L~ 67 (74)
T PRK11415 9 ISRLKNENPRFMSLFDKHNKLDHEIARKEGSDGRGY-NAEVVRMKKQKLQLKDEMLKILQ 67 (74)
T ss_pred HHHHHhcCHHHHHHHHHHHHHHHHHHHHHcCCCCCC-HHHHHHHHHHHHHhHHHHHHHHH
Confidence 34555678999999999999988884 4443222 11222334455566666555543
No 39
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=27.27 E-value=1.5e+02 Score=21.25 Aligned_cols=50 Identities=22% Similarity=0.132 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHHHHHHhhhcccccC
Q 027140 123 DELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQVAALASCFIPVDK 191 (227)
Q Consensus 123 ~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~eiaAllS~~V~~~r 191 (227)
.+|++.+..|++.+|=+ +-+=+.+.+..+.- -++.+|++.++++|-|+..
T Consensus 8 ~~f~~~~~~lk~~~fd~------------------dkl~~l~~~~~~~~-~~T~~Qv~~il~~f~fd~~ 57 (95)
T PF14771_consen 8 NDFEQFLEQLKKESFDS------------------DKLKVLEAAAKTNN-CFTCAQVKQILSLFSFDND 57 (95)
T ss_pred HHHHHHHHHHHcCCCcH------------------HHHHHHHHHHhcCC-ceeHHHHHHHHHHcCCCHH
Confidence 57778888888777765 22233333333322 5899999999999999643
No 40
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=26.78 E-value=1.1e+02 Score=16.65 Aligned_cols=17 Identities=12% Similarity=0.409 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHhhh
Q 027140 100 AEVNHEIQQLKSKMRDS 116 (227)
Q Consensus 100 ~~l~~~~~~l~~~l~~~ 116 (227)
.+++.+|.+|+.+++.+
T Consensus 4 ~rlr~rI~dLer~L~~C 20 (23)
T PF04508_consen 4 NRLRNRISDLERQLSEC 20 (23)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45666777777776653
No 41
>PF10482 CtIP_N: Tumour-suppressor protein CtIP N-terminal domain; InterPro: IPR019518 CtIP is predominantly a nuclear protein that complexes with both BRCA1 and the BRCA1-associated RING domain protein (BARD1). At the protein level, CtIP expression varies with cell cycle progression in a pattern identical to that of BRCA1. Thus, the steady-state levels of CtIP polypeptides, which remain low in resting cells and G1 cycling cells, increase dramatically as Dividing cells traverse the G1/S boundary. CtIP can potentially modulate the functions ascribed to BRCA1 in transcriptional regulation, DNA repair, and/or cell cycle checkpoint control []. This N-terminal domain carries a coiled-coil region and is essential for homodimerisation of the protein []. The C-terminal domain is family CtIP_C and carries functionally important CxxC and RHR motifs, absence of which lead cells to grow slowly and show hypersensitivity to genotoxins [].
Probab=25.51 E-value=2.7e+02 Score=21.34 Aligned_cols=27 Identities=22% Similarity=0.283 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHcCCCCCC-ChHHHHH
Q 027140 68 LVNQIEELEHKLFAHPLNKS-QDENQIR 94 (227)
Q Consensus 68 ~~~~~~~l~~~l~~~p~~~c-~~~~~~~ 94 (227)
+...+..|+.+|++-.|..| -..++.+
T Consensus 54 L~e~i~~LE~RLRaGlCDRC~VtqE~ak 81 (120)
T PF10482_consen 54 LHENIKVLENRLRAGLCDRCTVTQELAK 81 (120)
T ss_pred HHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence 44578889999999999999 8777665
No 42
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=25.00 E-value=2.2e+02 Score=20.87 Aligned_cols=41 Identities=12% Similarity=0.327 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhHcCCccCC
Q 027140 96 FQRKAEVNHEIQQLKSKMRDSQIQKFRDELKNRSRVLKKLGHINAD 141 (227)
Q Consensus 96 ~~~~~~l~~~~~~l~~~l~~~~~l~l~~e~~~~~~VL~~Lgyid~~ 141 (227)
..++..++.++..+..+++. +-.+..-...|+..+.-++++
T Consensus 5 ~~~~q~l~~~~~~l~~~~~~-----l~~~~~E~~~v~~EL~~l~~d 45 (105)
T cd00632 5 LAQLQQLQQQLQAYIVQRQK-----VEAQLNENKKALEELEKLADD 45 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHcCCCc
Confidence 44556666666666666554 334455555666666666543
No 43
>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=24.79 E-value=2.9e+02 Score=20.41 Aligned_cols=55 Identities=13% Similarity=0.218 Sum_probs=35.6
Q ss_pred HHHHhhCCCCCCCCCccccCCCCChHHHHHHH---HHHHHHHHHHcCCCCCC-ChHHHHH
Q 027140 39 QELESRFPQGLPKLNPVKDMKIEDPEVVDLVN---QIEELEHKLFAHPLNKS-QDENQIR 94 (227)
Q Consensus 39 ~~~~~~~~~~~p~l~p~~~~ki~~~~~~~~~~---~~~~l~~~l~~~p~~~c-~~~~~~~ 94 (227)
..+.+ .+.+.|+..|++.-+-.-+++.+.+. .+..++.+|.++...+. .|.....
T Consensus 15 ~~l~~-~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s~~ef~~D~~ 73 (107)
T cd05497 15 KALWK-HKFAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFN 73 (107)
T ss_pred HHHHh-CCcCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 34433 46789999998754334566777766 46777888888766554 5554444
No 44
>PF14335 DUF4391: Domain of unknown function (DUF4391)
Probab=24.26 E-value=4.3e+02 Score=22.13 Aligned_cols=74 Identities=18% Similarity=0.246 Sum_probs=46.2
Q ss_pred ccCCCCChHHHHHHHHHHHHHHHHHcCCCCCC-------ChHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q 027140 56 KDMKIEDPEVVDLVNQIEELEHKLFAHPLNKS-------QDENQIRCFQRKAEVNHEIQQLKSKMRDSQIQKFRDELKNR 128 (227)
Q Consensus 56 ~~~ki~~~~~~~~~~~~~~l~~~l~~~p~~~c-------~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~l~l~~e~~~~ 128 (227)
..+.+.......+..-++.+-.++....++.- +..+......+..+|+.+++.|+.++....+..-.-++...
T Consensus 134 ~~l~~~~~~~~~l~~lY~~l~~~i~~~~~~~~~g~~~~~~~~~~~~~~~~i~~L~kei~~L~~~~~kEkq~nrkveln~e 213 (221)
T PF14335_consen 134 DELSLKLPPGLNLDALYESLVNQIIALNAAPNTGEFEKTSLWERIERLEQIEKLEKEIAKLKKKIKKEKQFNRKVELNTE 213 (221)
T ss_pred hhccccCcccccHHHHHHHHHHHHhcchhhhhcCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHH
Confidence 33444444445556667777777777666542 44566667788889999999999888874443333333333
Q ss_pred H
Q 027140 129 S 129 (227)
Q Consensus 129 ~ 129 (227)
+
T Consensus 214 l 214 (221)
T PF14335_consen 214 L 214 (221)
T ss_pred H
Confidence 3
No 45
>PF13822 ACC_epsilon: Acyl-CoA carboxylase epsilon subunit
Probab=23.58 E-value=52 Score=22.13 Aligned_cols=16 Identities=19% Similarity=0.339 Sum_probs=12.2
Q ss_pred CCCHHHHHHHhhhccc
Q 027140 173 DLDHHQVAALASCFIP 188 (227)
Q Consensus 173 ~L~p~eiaAllS~~V~ 188 (227)
+-+++|+|||...|.-
T Consensus 10 nPt~eElAAL~aVlaa 25 (62)
T PF13822_consen 10 NPTDEELAALTAVLAA 25 (62)
T ss_pred CCCHHHHHHHHHHHHH
Confidence 4689999998766653
No 46
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=22.03 E-value=66 Score=22.61 Aligned_cols=34 Identities=21% Similarity=0.221 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHhHcCCccCC-----------CccchhhHHhhhhc
Q 027140 122 RDELKNRSRVLKKLGHINAD-----------GVVQLKGRAACLID 155 (227)
Q Consensus 122 ~~e~~~~~~VL~~Lgyid~~-----------~~vt~KGrvAceI~ 155 (227)
...+.+.++.|++-|||... ..+|.|||-|-+-+
T Consensus 28 ~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~~~~~~ 72 (80)
T PF13601_consen 28 DGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGREAFERY 72 (80)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHHHHHHH
Confidence 46677889999999999631 47889999876544
No 47
>PF08385 DHC_N1: Dynein heavy chain, N-terminal region 1; InterPro: IPR013594 Dynein heavy chains interact with other heavy chains to form dimers, and with intermediate chain-light chain complexes to form a basal cargo binding unit []. The region featured in this family includes the sequences implicated in mediating these interactions []. It is thought to be flexible and not to adopt a rigid conformation [].
Probab=21.25 E-value=7e+02 Score=23.54 Aligned_cols=105 Identities=12% Similarity=0.084 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCC-ChHHHHHHHHHHHHHHHHHHHHHHHHhhh--hhhHHHHHHHHHHHHHhHcCCccCC
Q 027140 65 VVDLVNQIEELEHKLFAHPLNKS-QDENQIRCFQRKAEVNHEIQQLKSKMRDS--QIQKFRDELKNRSRVLKKLGHINAD 141 (227)
Q Consensus 65 ~~~~~~~~~~l~~~l~~~p~~~c-~~~~~~~~~~~~~~l~~~~~~l~~~l~~~--~~l~l~~e~~~~~~VL~~Lgyid~~ 141 (227)
+.+...+...+.+.+.+.++ .+ +....-.|.......+..+..++..+... +.+.-......++++|.+++.+-..
T Consensus 266 ~~~i~~~~~~~~~~~~~~~y-d~ld~~~~~~w~~~~~~f~~~i~~lE~~l~~~l~~~f~~~~s~~~~~~ll~~f~~L~~R 344 (579)
T PF08385_consen 266 IDEIEEEFNEAYEPFKSLDY-DILDVSNEEEWERDFSEFRERIEDLERRLANILRQAFDDCSSPEEAFRLLQKFKSLLNR 344 (579)
T ss_pred HHHHHHHHHHHHHHHhcCCC-CcCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHhHhcc
Confidence 33444555566666665553 22 32222344444444555555555555443 1222224556677777777766421
Q ss_pred ----CccchhhHHhhhhcCCchHHHHHHHHhCCC
Q 027140 142 ----GVVQLKGRAACLIDTGDELLVTELMFNGTF 171 (227)
Q Consensus 142 ----~~vt~KGrvAceI~s~~ELllTEll~~g~f 171 (227)
..+.-+-........ +|+-...-.|+...
T Consensus 345 p~I~~~l~~~~~~ll~~~~-~ei~~~~~~f~~~~ 377 (579)
T PF08385_consen 345 PRIRKALQEKYEQLLQQFK-EEIDQLKKIFDNQK 377 (579)
T ss_pred hHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhcc
Confidence 122233333333333 55555566666544
No 48
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=21.24 E-value=1.2e+02 Score=31.52 Aligned_cols=62 Identities=23% Similarity=0.262 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHhHcCCccCCCccchhhHHhhhhcCCchHHHHHHHHhCCCCCCCHHH-HHHHhh
Q 027140 122 RDELKNRSRVLKKLGHINADGVVQLKGRAACLIDTGDELLVTELMFNGTFNDLDHHQ-VAALAS 184 (227)
Q Consensus 122 ~~e~~~~~~VL~~Lgyid~~~~vt~KGrvAceI~s~~ELllTEll~~g~f~~L~p~e-iaAllS 184 (227)
.+...+=+..|+.+|-+|.+..+|.=|+.++.+-. |--+==.++|.++|.-|+|.= |||.||
T Consensus 591 ~~~v~~a~~~L~~igaL~~~e~LT~LG~~la~lPv-d~~igK~ll~g~if~cLdp~l~iaa~Ls 653 (924)
T KOG0920|consen 591 ADAVDLAIERLKQIGALDESEELTPLGLHLASLPV-DVRIGKLLLFGAIFGCLDPALTIAAALS 653 (924)
T ss_pred hHHHHHHHHHHHHhccccCcccchHHHHHHHhCCC-ccccchhheehhhccccchhhhHHHHhc
Confidence 46677888999999999999999999999999985 777777888999999999975 555677
Done!