Query T0519 PF11_0239, unknown, 180 residues
Match_columns 180
No_of_seqs 121 out of 3487
Neff 8.5
Searched_HMMs 11830
Date Fri May 21 18:07:10 2010
Command /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/bin/hhsearch -i /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/hhm/T0519.hhm -d /home/syshi_2/2008/ferredoxin/manualcheck/update/HHsearch/database/pfamA_24_hhmdb -o /home/syshi_3/CASP9/HHsearch4Targetseq/pfamAsearch/hhm/T0519.hhr
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10591 SPARC_Ca_bdg: Secrete 98.7 8E-09 6.7E-13 66.0 5.5 62 35-96 50-111 (113)
2 PF10591 SPARC_Ca_bdg: Secrete 98.3 1.3E-07 1.1E-11 59.1 3.9 62 105-174 51-112 (113)
3 PF00036 efhand: EF hand; Int 97.4 4.6E-05 3.9E-09 44.9 3.2 28 40-67 1-28 (29)
4 PF00036 efhand: EF hand; Int 96.8 0.00026 2.2E-08 40.7 2.5 26 110-135 2-27 (29)
5 PF05042 Caleosin: Caleosin re 96.8 0.0037 3.1E-07 34.2 8.3 122 38-162 6-158 (174)
6 PF09279 efhand_like: Phosphoi 93.9 0.0043 3.6E-07 33.8 0.0 65 110-179 2-70 (83)
7 PF05099 TerB: Tellurite resis 88.7 0.093 7.9E-06 26.3 2.3 93 51-145 35-136 (140)
8 PF09279 efhand_like: Phosphoi 88.5 0.16 1.3E-05 25.0 3.4 57 40-97 1-65 (83)
9 PF08726 efhand_Ca_insen: Ca2+ 87.8 0.031 2.6E-06 29.0 -0.6 64 106-176 4-67 (69)
10 PF05517 p25-alpha: p25-alpha 71.2 2.3 0.00019 18.5 4.7 56 44-99 7-67 (154)
11 PF03979 Sigma70_r1_1: Sigma-7 54.0 4.9 0.00041 16.7 5.1 44 39-84 7-50 (82)
12 PF00046 Homeobox: Homeobox do 49.3 5.8 0.00049 16.2 5.2 45 32-81 6-50 (57)
13 PF07879 PHB_acc_N: PHB/PHA ac 47.6 6.2 0.00052 16.1 3.3 22 115-136 10-31 (64)
14 PF09069 efhand_2: EF-hand; I 41.0 7.9 0.00067 15.5 4.0 23 42-65 6-28 (90)
15 PF09068 efhand_1: EF hand; I 40.6 8 0.00068 15.4 7.5 84 37-135 39-124 (127)
16 PF04558 tRNA_synt_1c_R1: Glut 38.6 8.7 0.00073 15.3 6.5 75 77-151 53-129 (164)
17 PF08976 DUF1880: Domain of un 31.1 6.3 0.00053 16.0 0.9 27 71-97 5-31 (118)
18 PF07499 RuvA_C: RuvA, C-termi 29.0 13 0.0011 14.3 3.8 40 58-99 3-42 (47)
19 PF08100 Dimerisation: Dimeris 26.9 14 0.0012 14.1 2.6 38 44-81 11-49 (51)
20 PF01397 Terpene_synth: Terpen 26.7 14 0.0012 14.1 5.8 98 36-134 27-135 (184)
21 PF12174 RST: RST domain of pl 23.9 16 0.0013 13.8 2.3 62 87-151 6-67 (70)
22 PF10668 Phage_terminase: Phag 21.9 15 0.0013 13.9 1.4 25 110-135 9-33 (60)
23 PF01023 S_100: S-100/ICaBP ty 21.2 18 0.0015 13.5 3.8 29 38-66 5-35 (44)
No 1
>PF10591 SPARC_Ca_bdg: Secreted protein acidic and rich in cysteine Ca binding region; PDB: 1sra_A 1bmo_B 2v53_A 1nub_A.
Probab=98.70 E-value=8e-09 Score=65.96 Aligned_cols=62 Identities=26% Similarity=0.395 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHCCCCCCEEEHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 88999999999983879898061889998773179998899999998644310000123444
Q T0519 35 NNHIKYINELFYKLDTNHNGSLSHREIYTVLASVGIKKWDINRILQALDINDRGNITYTEFM 96 (180)
Q Consensus 35 ~e~~~~l~~~F~~~D~~~dG~Is~~El~~~l~~~g~~~~ei~~i~~~~D~d~~g~I~f~EFi 96 (180)
.+....+.-.|..+|.|+||.|+.+|++.+...+...+.-++.+++.+|.|++|.|++.||.
T Consensus 50 ~~~~~~~~~~F~~lD~n~Dg~L~~~El~~~~~~l~~~e~c~~~f~~~cD~n~Dg~Is~~E~~ 111 (113)
T PF10591_consen 50 QECKEELHWMFKQLDKNGDGVLSRSELKPLRAPLVPMEHCIEKFLKECDVNKDGKISLEEWC 111 (113)
T ss_dssp GGGHHHHHHH------T----B-TTTTGGGGSTTSTTGGGHHHHHHHH-TT-SSSB-HHHH-
T ss_pred HHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHH
T ss_conf 88899999999986888889818999999999863349999999998189899989999783
No 2
>PF10591 SPARC_Ca_bdg: Secreted protein acidic and rich in cysteine Ca binding region; PDB: 1sra_A 1bmo_B 2v53_A 1nub_A.
Probab=98.34 E-value=1.3e-07 Score=59.13 Aligned_cols=62 Identities=27% Similarity=0.356 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHH
Q ss_conf 0001234432210358996147899999985179998999999998364889865444334547899999
Q T0519 105 IESTFLKAAFNKIDKDEDGYISKSDIVSLVHDKVLDNNDIDNFFLSVHSIKKGIPREHIINKISFQEFKD 174 (180)
Q Consensus 105 ~~~e~l~~aF~~~D~d~~G~It~~el~~~l~~~~~~~~~~~~~~~~~d~~~dg~~~~~~~~~is~~eF~~ 174 (180)
...+.+...|..+|+|++|+|+.+||+.+.......+.-+..++..+|.|+||. ||+.||..
T Consensus 51 ~~~~~~~~~F~~lD~n~Dg~L~~~El~~~~~~l~~~e~c~~~f~~~cD~n~Dg~--------Is~~E~~~ 112 (113)
T PF10591_consen 51 ECKEELHWMFKQLDKNGDGVLSRSELKPLRAPLVPMEHCIEKFLKECDVNKDGK--------ISLEEWCK 112 (113)
T ss_dssp GGHHHHHHH------T----B-TTTTGGGGSTTSTTGGGHHHHHHHH-TT-SSS--------B-HHHH--
T ss_pred HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC--------CCHHHHHC
T ss_conf 889999999998688888981899999999986334999999999818989998--------99997835
No 3
>PF00036 efhand: EF hand; InterPro: IPR002048 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both side by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; GO: 0005509 calcium ion binding; PDB: 1rsw_A 1cb1_A 1rsx_A 3icb_A 1rt0_A 1d1o_A 1cdn_A 4icb_A 2bcb_A 1ksm_A ....
Probab=97.37 E-value=4.6e-05 Score=44.88 Aligned_cols=28 Identities=29% Similarity=0.532 Sum_probs=20.1
Q ss_pred HHHHHHHHHCCCCCCEEEHHHHHHHHHC
Q ss_conf 9999999838798980618899987731
Q T0519 40 YINELFYKLDTNHNGSLSHREIYTVLAS 67 (180)
Q Consensus 40 ~l~~~F~~~D~~~dG~Is~~El~~~l~~ 67 (180)
+++++|+.+|+|+||+|+.+||+.+++.
T Consensus 1 E~~~~f~~~D~d~dG~I~~~Ef~~~l~~ 28 (29)
T PF00036_consen 1 ELKEMFREFDKDGDGKISFDEFKEMLKS 28 (29)
T ss_dssp HHHHHHHHHSTTTSSCBEHHHHHHHHHH
T ss_pred CHHHHHHHHCCCCCCCCCHHHHHHHHHH
T ss_conf 9889999878999996969999999984
No 4
>PF00036 efhand: EF hand; InterPro: IPR002048 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both side by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; GO: 0005509 calcium ion binding; PDB: 1rsw_A 1cb1_A 1rsx_A 3icb_A 1rt0_A 1d1o_A 1cdn_A 4icb_A 2bcb_A 1ksm_A ....
Probab=96.78 E-value=0.00026 Score=40.66 Aligned_cols=26 Identities=38% Similarity=0.613 Sum_probs=14.8
Q ss_pred HHHHHHHCCCCCCCCCCHHHHHHHHH
Q ss_conf 34432210358996147899999985
Q T0519 110 LKAAFNKIDKDEDGYISKSDIVSLVH 135 (180)
Q Consensus 110 l~~aF~~~D~d~~G~It~~el~~~l~ 135 (180)
++.+|+.+|+|++|+|+.+|+..+++
T Consensus 2 ~~~~f~~~D~d~dG~I~~~Ef~~~l~ 27 (29)
T PF00036_consen 2 LKEMFREFDKDGDGKISFDEFKEMLK 27 (29)
T ss_dssp HHHHHHHHSTTTSSCBEHHHHHHHHH
T ss_pred HHHHHHHHCCCCCCCCCHHHHHHHHH
T ss_conf 88999987899999696999999998
No 5
>PF05042 Caleosin: Caleosin related protein; InterPro: IPR007736 This family contains plant proteins related to caleosin. Caleosins contain calcium-binding domains and have an oleosin-like association with lipid bodies. Caleosins are present at relatively low levels and are mainly bound to microsomal membrane fractions at the early stages of seed development. As the seeds mature, overall levels of caleosins increased dramatically and they were associated almost exclusively with storage lipid bodies . The calcium binding domain is probably related to the calcium-binding EF-hands motif IPR002048 from INTERPRO.
Probab=96.77 E-value=0.0037 Score=34.20 Aligned_cols=122 Identities=12% Similarity=0.170 Sum_probs=74.7
Q ss_pred HHHHHHHHHHHCCCCCCEEEHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH-HHHHHHHHH-----HHHH-----------
Q ss_conf 99999999983879898061889998773179998899999998644310-000123444-----3321-----------
Q T0519 38 IKYINELFYKLDTNHNGSLSHREIYTVLASVGIKKWDINRILQALDINDR-GNITYTEFM-----AGCY----------- 100 (180)
Q Consensus 38 ~~~l~~~F~~~D~~~dG~Is~~El~~~l~~~g~~~~ei~~i~~~~D~d~~-g~I~f~EFi-----a~~~----------- 100 (180)
...|++.-..+|.|+||.|.+.|-...++.+|....- .++..+=+|.. ++.+...++ .+.+
T Consensus 6 ~TvLQqHvaFFDrd~DGiIyP~eTy~GfralGf~~~~--S~~~a~~In~~lSy~T~p~w~P~p~f~Iyv~nIhk~kHGSD 83 (174)
T PF05042_consen 6 MTVLQQHVAFFDRDKDGIIYPWETYQGFRALGFNILL--SLLAAIIINGALSYPTRPSWLPSPFFPIYVKNIHKAKHGSD 83 (174)
T ss_pred CCHHHHHHHHCCCCCCCEECHHHHHHHHHHHCCCHHH--HHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCC
T ss_conf 4388876752378999468758987799991866999--99999998546688777888999830686240000453687
Q ss_pred -----HHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCH---------HHHHHHHHHHCCCCCCCCCCC
Q ss_conf -----10000001234432210358996147899999985179998---------999999998364889865444
Q T0519 101 -----RWKNIESTFLKAAFNKIDKDEDGYISKSDIVSLVHDKVLDN---------NDIDNFFLSVHSIKKGIPREH 162 (180)
Q Consensus 101 -----~~~~~~~e~l~~aF~~~D~d~~G~It~~el~~~l~~~~~~~---------~~~~~~~~~~d~~~dg~~~~~ 162 (180)
..-....++.+.+|.+++..+.+.+|..|+..++++...+. -++.-+. .+-.+.||....+
T Consensus 84 sg~YD~eGRFvp~kFEeIFsKya~~~pd~LT~~El~~ml~~nR~~~D~~GW~aa~~EW~~ly-~L~~d~dG~l~Ke 158 (174)
T PF05042_consen 84 SGTYDTEGRFVPQKFEEIFSKYARTRPDALTFDELWEMLKGNRNPNDPFGWFAAFFEWGLLY-ILAKDKDGFLHKE 158 (174)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH-HHHCCCCCCCCHH
T ss_conf 65346778686799999999847789875489999999996568677321126785899999-9860705875188
No 6
>PF09279 efhand_like: Phosphoinositide-specific phospholipase C, efhand-like; InterPro: IPR015359 This domain is predominantly found in the enzyme phosphoinositol-specific phospholipase C. It adopts a structure consisting of a core of four alpha helices, in an EF like fold, and is required for functioning of the enzyme . ; PDB: 2fju_B 2zkm_X 1djg_B 1djy_B 2isd_A 1qat_B 1djz_B 1dji_B 1djh_B 1djx_A ....
Probab=93.89 E-value=0.0043 Score=33.81 Aligned_cols=65 Identities=14% Similarity=0.385 Sum_probs=29.7
Q ss_pred HHHHHHHCCCCCCCCCCHHHHHHHHHHCC----CCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHC
Q ss_conf 34432210358996147899999985179----99899999999836488986544433454789999997510
Q T0519 110 LKAAFNKIDKDEDGYISKSDIVSLVHDKV----LDNNDIDNFFLSVHSIKKGIPREHIINKISFQEFKDYMLST 179 (180)
Q Consensus 110 l~~aF~~~D~d~~G~It~~el~~~l~~~~----~~~~~~~~~~~~~d~~~dg~~~~~~~~~is~~eF~~~l~~~ 179 (180)
+..+|..|.. +.+++|+++|...+...+ .+.+.+.+++.....+.. ....+.+++++|..||.|.
T Consensus 2 i~~if~~ys~-~~~~mt~~~l~~FL~~~Q~e~~~~~~~~~~ii~~~e~~~~----~~~~~~ls~dgF~~yL~S~ 70 (83)
T PF09279_consen 2 IEEIFKKYSS-NKEYMTAEELRRFLREEQGEPRLDEEQAKEIIEKYEPNEE----NKQRGQLSLDGFTRYLFSD 70 (83)
T ss_dssp HHCCHHHH-----SSEEHHHHHHHHHHTS--ST---HHHHHHHHHH---HH----HHHTTEEE----HHHHHS-
T ss_pred HHHHHHHHCC-CCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHH----HHHCCCCCHHHHHHHHCCC
T ss_conf 8999999818-9995689999999999745731529999999999811275----6654782999999997798
No 7
>PF05099 TerB: Tellurite resistance protein TerB; InterPro: IPR007791 This family contains the TerB tellurite resistance proteins from a number of bacteria.; PDB: 2h5n_A 2jxu_A.
Probab=88.69 E-value=0.093 Score=26.31 Aligned_cols=93 Identities=15% Similarity=0.243 Sum_probs=58.6
Q ss_pred CCCCEEEHHHHHHHHH----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H-HHHHHHHHHHHHHCCCCCCCC
Q ss_conf 9898061889998773----179998899999998644310000123444332110-0-000012344322103589961
Q T0519 51 NHNGSLSHREIYTVLA----SVGIKKWDINRILQALDINDRGNITYTEFMAGCYRW-K-NIESTFLKAAFNKIDKDEDGY 124 (180)
Q Consensus 51 ~~dG~Is~~El~~~l~----~~g~~~~ei~~i~~~~D~d~~g~I~f~EFia~~~~~-~-~~~~e~l~~aF~~~D~d~~G~ 124 (180)
--||.|+.+|...+.. .+++++.+.+.++..+..-.....++.+++...... . ......+..++.+... ||.
T Consensus 35 ~aDG~v~~~E~~~i~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~r~~ll~~l~~ia~A--DG~ 112 (140)
T PF05099_consen 35 KADGEVSEEEIEAIRRLLRERFGLDDEEAQELIEAFNELKQEPIDLEELLRELAEALSPEEREELLEALWAIAYA--DGE 112 (140)
T ss_dssp H------CHHHHHHHHHHGCTGGGSCHHHHHHHHHHCHHHHHTS-HHHHHHHHCTS--HHHHHHHHHH--TTTT------
T ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHC--CCC
T ss_conf 867999999999999999984199999999999999998741547999999998626899999999999999854--789
Q ss_pred CCHHHHH---HHHHHCCCCHHHHH
Q ss_conf 4789999---99851799989999
Q T0519 125 ISKSDIV---SLVHDKVLDNNDID 145 (180)
Q Consensus 125 It~~el~---~~l~~~~~~~~~~~ 145 (180)
++..|-. .+....++++..+.
T Consensus 113 ~~~~E~~~l~~ia~~Lgl~~~~~~ 136 (140)
T PF05099_consen 113 IDPEEQEFLRRIAEALGLSEEEFE 136 (140)
T ss_dssp -SCCHHHHHHHHHHH----SS---
T ss_pred CCHHHHHHHHHHHHHCCCCHHHHH
T ss_conf 999999999999999399999972
No 8
>PF09279 efhand_like: Phosphoinositide-specific phospholipase C, efhand-like; InterPro: IPR015359 This domain is predominantly found in the enzyme phosphoinositol-specific phospholipase C. It adopts a structure consisting of a core of four alpha helices, in an EF like fold, and is required for functioning of the enzyme . ; PDB: 2fju_B 2zkm_X 1djg_B 1djy_B 2isd_A 1qat_B 1djz_B 1dji_B 1djh_B 1djx_A ....
Probab=88.49 E-value=0.16 Score=25.02 Aligned_cols=57 Identities=19% Similarity=0.379 Sum_probs=44.7
Q ss_pred HHHHHHHHHCCCCCCEEEHHHHHHHHHCC----CCCHHHHHHHHHHHHHHH----HHHHHHHHHHH
Q ss_conf 99999998387989806188999877317----999889999999864431----00001234443
Q T0519 40 YINELFYKLDTNHNGSLSHREIYTVLASV----GIKKWDINRILQALDIND----RGNITYTEFMA 97 (180)
Q Consensus 40 ~l~~~F~~~D~~~dG~Is~~El~~~l~~~----g~~~~ei~~i~~~~D~d~----~g~I~f~EFia 97 (180)
+++++|..+.. +.+.+|.++|...|... ..+...+..++..+..+. .+.+++++|..
T Consensus 1 ei~~if~~ys~-~~~~mt~~~l~~FL~~~Q~e~~~~~~~~~~ii~~~e~~~~~~~~~~ls~dgF~~ 65 (83)
T PF09279_consen 1 EIEEIFKKYSS-NKEYMTAEELRRFLREEQGEPRLDEEQAKEIIEKYEPNEENKQRGQLSLDGFTR 65 (83)
T ss_dssp HHHCCHHHH-----SSEEHHHHHHHHHHTS--ST---HHHHHHHHHH---HHHHHTTEEE----HH
T ss_pred CHHHHHHHHCC-CCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCHHHHHCCCCCHHHHHH
T ss_conf 98999999818-999568999999999974573152999999999981127566547829999999
No 9
>PF08726 efhand_Ca_insen: Ca2+ insensitive EF hand; InterPro: IPR014837 EF hands are helix-loop-helix binding motifs involved in the regulation of many cellular processes. EF hands usually bind to Ca2+ ions, which cause a major conformational change that allows the protein to interact with its designated targets. This protein corresponds to an EF hand which has partially or entirely lost its calcium-binding properties. The calcium insensitive EF hand is still able to mediate protein-protein recognition . ; PDB: 1h8b_A 1sjj_B.
Probab=87.78 E-value=0.031 Score=28.97 Aligned_cols=64 Identities=13% Similarity=0.229 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 00123443221035899614789999998517999899999999836488986544433454789999997
Q T0519 106 ESTFLKAAFNKIDKDEDGYISKSDIVSLVHDKVLDNNDIDNFFLSVHSIKKGIPREHIINKISFQEFKDYM 176 (180)
Q Consensus 106 ~~e~l~~aF~~~D~d~~G~It~~el~~~l~~~~~~~~~~~~~~~~~d~~~dg~~~~~~~~~is~~eF~~~l 176 (180)
+.+.+..+|+.+ .++++|||.+||++.+.. +.++-+...+..-. |.-.....+..+|..|+.-|
T Consensus 4 TaEqv~~aFr~l-A~~KpYIT~~dL~~~L~p-----e~aey~~~~M~~~~-g~~~~~~~~~~DY~sf~~~l 67 (69)
T PF08726_consen 4 TAEQVIEAFRAL-AGGKPYITEEDLRRSLTP-----EQAEYCIQRMPPYE-GPDGDAIPGAYDYISFMRSL 67 (69)
T ss_dssp TCHHHHHHHHCC-TTS-SCE-HHHHHHHS-C-----CCHHHHHCCSEC-------------EECHHHHCCH
T ss_pred CHHHHHHHHHHH-HCCCCCCCHHHHHHHCCC-----HHHHHHHHHCCCCC-CCCCCCCCCCCCHHHHHHHH
T ss_conf 799999999999-779980169999987080-----88999999884768-98767898874899999998
No 10
>PF05517 p25-alpha: p25-alpha ; InterPro: IPR008907 This family encodes a 25 kDa protein that is phosphorylated by a Ser/Thr-Pro kinase . It has been described as a brain specific protein, but it is found in Tetrahymena thermophila.; PDB: 1pul_A 2jrf_A 1wlm_A.
Probab=71.21 E-value=2.3 Score=18.51 Aligned_cols=56 Identities=14% Similarity=0.347 Sum_probs=41.1
Q ss_pred HHHHHCCCCCCEEEHHHHHHHHHCCC-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99983879898061889998773179-----998899999998644310000123444332
Q T0519 44 LFYKLDTNHNGSLSHREIYTVLASVG-----IKKWDINRILQALDINDRGNITYTEFMAGC 99 (180)
Q Consensus 44 ~F~~~D~~~dG~Is~~El~~~l~~~g-----~~~~ei~~i~~~~D~d~~g~I~f~EFia~~ 99 (180)
.|..+-+.....++...|..+++..+ ++..+++.+|..+-......|+|++|..+.
T Consensus 7 ~Fa~fG~~~~~~M~~~~f~K~~kD~~lid~kiT~td~DIiF~KvK~k~~r~I~f~~F~~aL 67 (154)
T PF05517_consen 7 AFASFGKKNGKEMDSKQFAKLCKDCGLIDKKITSTDVDIIFAKVKAKSARRITFEQFLEAL 67 (154)
T ss_dssp HHHC--T-SSSEE---HHHHHHHHTT---SS----HHHHHHHHHS-SS-SSEEHHHHHHHH
T ss_pred HHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHCCCCCEECHHHHHHHH
T ss_conf 9997267863435588999999986886888762677788898604777252299999999
No 11
>PF03979 Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognized by the major sigma factors , . This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase , . Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0030528 transcription regulator activity, 0045449 regulation of transcription; PDB: 2k6x_A.
Probab=53.97 E-value=4.9 Score=16.66 Aligned_cols=44 Identities=23% Similarity=0.244 Sum_probs=24.9
Q ss_pred HHHHHHHHHHCCCCCCEEEHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf 9999999983879898061889998773179998899999998644
Q T0519 39 KYINELFYKLDTNHNGSLSHREIYTVLASVGIKKWDINRILQALDI 84 (180)
Q Consensus 39 ~~l~~~F~~~D~~~dG~Is~~El~~~l~~~g~~~~ei~~i~~~~D~ 84 (180)
..++.+...- -..|+||++|+..+|....+++..++.++..+..
T Consensus 7 ~~i~~Li~~g--K~~G~lT~~EI~~~Lp~~~~~~d~id~i~~~L~~ 50 (82)
T PF03979_consen 7 EKIKKLIALG--KKKGYLTYDEINDALPDDDLDPDQIDEIYEFLEE 50 (82)
T ss_dssp HHHHHHHH----------BHHHHHHH-S-S---HHHHHHHHHHHHH
T ss_pred HHHHHHHHHH--HHCCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf 9999999987--5668686999998777778999999999999998
No 12
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates , , . Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies . The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA . The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1ftz_A 1jgg_B 1hdd_D 1p7i_D 3hdd_B 2hot_A 1du0_B 2hdd_A 1enh_A 1ztr_A ....
Probab=49.28 E-value=5.8 Score=16.23 Aligned_cols=45 Identities=20% Similarity=0.322 Sum_probs=36.7
Q ss_pred CCCHHHHHHHHHHHHHHCCCCCCEEEHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf 89888999999999983879898061889998773179998899999998
Q T0519 32 SVINNHIKYINELFYKLDTNHNGSLSHREIYTVLASVGIKKWDINRILQA 81 (180)
Q Consensus 32 ~~~~e~~~~l~~~F~~~D~~~dG~Is~~El~~~l~~~g~~~~ei~~i~~~ 81 (180)
..+++++..|.+.|.. +...+.++...+...+|++...|...|+.
T Consensus 6 ~~t~~q~~~Le~~f~~-----~~~P~~~~~~~La~~~~l~~~~V~~WF~n 50 (57)
T PF00046_consen 6 RFTKEQLEILEEYFEK-----NPYPSEEEIEELAKELGLSEKQVKNWFQN 50 (57)
T ss_dssp SSSHHHHHHHHHHHHH-----SSSCCHHHHHHHHHHHTS-HHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHH-----CCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999999987-----57565005565423343200455124998
No 13
>PF07879 PHB_acc_N: PHB/PHA accumulation regulator DNA-binding domain; InterPro: IPR012909 This domain is found at the N-terminus of the polyhydroxyalkanoate (PHA) synthesis regulators. These regulators have been shown to directly bind DNA and PHA . The invariant nature of this domain compared to the C-terminal IPR007897 from INTERPRO domain(s) suggests that it contains the DNA-binding function.
Probab=47.62 E-value=6.2 Score=16.08 Aligned_cols=22 Identities=32% Similarity=0.560 Sum_probs=18.4
Q ss_pred HHCCCCCCCCCCHHHHHHHHHH
Q ss_conf 2103589961478999999851
Q T0519 115 NKIDKDEDGYISKSDIVSLVHD 136 (180)
Q Consensus 115 ~~~D~d~~G~It~~el~~~l~~ 136 (180)
++||+..+-|||.++++++.+.
T Consensus 10 RLYDT~~S~YITL~di~~lV~~ 31 (64)
T PF07879_consen 10 RLYDTETSSYITLEDIAQLVRE 31 (64)
T ss_pred CCCCCCCCEEEEHHHHHHHHHC
T ss_conf 5516887537779999999978
No 14
>PF09069 efhand_2: EF-hand; InterPro: IPR015154 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding . ; PDB: 1eg3_A 1eg4_A.
Probab=41.00 E-value=7.9 Score=15.48 Aligned_cols=23 Identities=26% Similarity=0.540 Sum_probs=10.0
Q ss_pred HHHHHHHCCCCCCEEEHHHHHHHH
Q ss_conf 999998387989806188999877
Q T0519 42 NELFYKLDTNHNGSLSHREIYTVL 65 (180)
Q Consensus 42 ~~~F~~~D~~~dG~Is~~El~~~l 65 (180)
|=+|..+ .|.+|.++..-|...|
T Consensus 6 RYlF~~i-sd~~g~~~~~~l~~lL 28 (90)
T PF09069_consen 6 RYLFSQI-SDSNGMMDQRKLGLLL 28 (90)
T ss_dssp HHHHHHH-S-----B-TTT---HH
T ss_pred HHHHHHH-HCCCCCCCHHHHHHHH
T ss_conf 9999897-3899876299999999
No 15
>PF09068 efhand_1: EF hand; InterPro: IPR015153 Like other EF hand domains, this domain forms a helix-loop-helix motif, though since it does not contain the canonical pattern of calcium binding residues found in many EF hand domains, it does not bind calcium ions. The main function of this domain is the provision of specificity in beta-dystroglycan recognition, though in dystrophin it serves an additional role: stabilisation of the WW domain (IPR001202 from INTERPRO), enhancing dystroglycan binding . ; PDB: 1eg3_A 1eg4_A.
Probab=40.57 E-value=8 Score=15.44 Aligned_cols=84 Identities=15% Similarity=0.105 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHCCCC--CCEEEHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999838798--98061889998773179998899999998644310000123444332110000001234432
Q T0519 37 HIKYINELFYKLDTNH--NGSLSHREIYTVLASVGIKKWDINRILQALDINDRGNITYTEFMAGCYRWKNIESTFLKAAF 114 (180)
Q Consensus 37 ~~~~l~~~F~~~D~~~--dG~Is~~El~~~l~~~g~~~~ei~~i~~~~D~d~~g~I~f~EFia~~~~~~~~~~e~l~~aF 114 (180)
.+..+.++|.....++ +-.|+..++...|. .++..+.....+..+-+.. ......+--+....
T Consensus 39 ~~~~~~~~f~~~~l~~~~d~~l~v~~l~~~L~----------~ly~~l~~~~p~~~~i~~~-----~v~~~vdL~LNwLl 103 (127)
T PF09068_consen 39 DLWNVIEAFRRHGLNQSNDQLLSVSQLITCLS----------SLYDQLNERLPTLVQIPSD-----NVELCVDLLLNWLL 103 (127)
T ss_dssp -HHHHHHHHHHTT---T-TSEE-HHHHHHHHH----------HHHHHHHHHSTTS--HH----------HHHHHHHHHHH
T ss_pred CHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHH----------HHHHHHHHHCCCCCCCCHH-----HHHHHHHHHHHHHH
T ss_conf 39999999997698754555789999999999----------9999999878896678705-----89889999999999
Q ss_pred HHCCCCCCCCCCHHHHHHHHH
Q ss_conf 210358996147899999985
Q T0519 115 NKIDKDEDGYISKSDIVSLVH 135 (180)
Q Consensus 115 ~~~D~d~~G~It~~el~~~l~ 135 (180)
.+||..++|.|++-.++.++-
T Consensus 104 nvYD~~R~G~Irvls~Ki~L~ 124 (127)
T PF09068_consen 104 NVYDPGRTGKIRVLSFKIALA 124 (127)
T ss_dssp HHH-------EEHHHHH----
T ss_pred HHHCCCCCCEEEEHHHHHHHH
T ss_conf 984878887454249999999
No 16
>PF04558 tRNA_synt_1c_R1: Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1 ; InterPro: IPR007639 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . This is a region found N-terminal to the catalytic domain of glutaminyl-tRNA synthetase (6.1.1.18 from EC) in eukaryotes but not in Escherichia coli. This region is thought to bind RNA in a non-specific manner, enhancing interactions between the tRNA and enzyme, but is not essential for enzyme function .; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm
Probab=38.58 E-value=8.7 Score=15.26 Aligned_cols=75 Identities=8% Similarity=0.027 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHCCCCCCCCCCHHHHHHHHH-HCCCCHHHHHHHHHHH
Q ss_conf 9999864431000012344433211000-0001234432210358996147899999985-1799989999999983
Q T0519 77 RILQALDINDRGNITYTEFMAGCYRWKN-IESTFLKAAFNKIDKDEDGYISKSDIVSLVH-DKVLDNNDIDNFFLSV 151 (180)
Q Consensus 77 ~i~~~~D~d~~g~I~f~EFia~~~~~~~-~~~e~l~~aF~~~D~d~~G~It~~el~~~l~-~~~~~~~~~~~~~~~~ 151 (180)
.+++..-.-..+...-..|++...-... -+...+..||.++-.++...++..+|-..|+ |...+++++...+...
T Consensus 53 LL~~latk~k~~~~~~r~~lv~~I~~~klkT~~Qv~AA~~yv~~~~~~~~d~~~fe~~cGVGV~VT~eqi~~~V~~~ 129 (164)
T PF04558_consen 53 LLYQLATKLKPQALPHRPLLVQYIVSGKLKTNLQVDAALKYVKSNGEEPIDVAEFEKECGVGVVVTPEQIERAVKKY 129 (164)
T ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCEEECHHHHHHHHHHH
T ss_conf 99999986477431107999999995788979999999999997899888989999977998788899999999999
No 17
>PF08976 DUF1880: Domain of unknown function (DUF1880); InterPro: IPR015070 This protein is found predominantly in DJ binding protein. It has no known function. ; PDB: 1wlz_B.
Probab=31.10 E-value=6.3 Score=16.05 Aligned_cols=27 Identities=26% Similarity=0.674 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 988999999986443100001234443
Q T0519 71 KKWDINRILQALDINDRGNITYTEFMA 97 (180)
Q Consensus 71 ~~~ei~~i~~~~D~d~~g~I~f~EFia 97 (180)
++...+++|..+-.|..|.+-|.||++
T Consensus 5 tDeQFd~LW~~mPvN~~G~lkY~eFLs 31 (118)
T PF08976_consen 5 TDEQFDRLWNEMPVNAKGNLKYHEFLS 31 (118)
T ss_dssp -HHHHHHHHTTS-B-----EEHHHHHH
T ss_pred CHHHHHHHHHHCCCCCCCCCCHHHHHH
T ss_conf 288999999858778556650799998
No 18
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure . In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB . Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 Holliday junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1ixr_B 1ixs_A 1cuk_A 1hjp_A 1c7y_A 1bvs_B 2ztc_B 2h5x_B 2ztd_B.
Probab=28.97 E-value=13 Score=14.35 Aligned_cols=40 Identities=13% Similarity=0.264 Sum_probs=28.9
Q ss_pred HHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 889998773179998899999998644310000123444332
Q T0519 58 HREIYTVLASVGIKKWDINRILQALDINDRGNITYTEFMAGC 99 (180)
Q Consensus 58 ~~El~~~l~~~g~~~~ei~~i~~~~D~d~~g~I~f~EFia~~ 99 (180)
.+|...+|..+|.++.++....+.+.. ....+.++.|...
T Consensus 3 ~~ea~~AL~~LGy~~~ea~~a~~~~~~--~~~~~~e~~ir~A 42 (47)
T PF07499_consen 3 LEEAVSALLALGYSRKEAEKALKKVLK--NEDLSVEELIRAA 42 (47)
T ss_dssp HHHHHHHHHH----HHHHHHHHHHHHH--STTS-HHHHHHHH
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHC--CCCCCHHHHHHHH
T ss_conf 899999999939999999999999760--7999999999999
No 19
>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins .; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1zg3_A 1zgj_A 1zga_A 1zhf_A 1kyz_E 1kyw_A 1fp1_D 1fpq_A 1fpx_A 1fp2_A ....
Probab=26.93 E-value=14 Score=14.14 Aligned_cols=38 Identities=18% Similarity=0.228 Sum_probs=19.6
Q ss_pred HHHHHCCCCCCEEEHHHHHHHHHCC-CCCHHHHHHHHHH
Q ss_conf 9998387989806188999877317-9998899999998
Q T0519 44 LFYKLDTNHNGSLSHREIYTVLASV-GIKKWDINRILQA 81 (180)
Q Consensus 44 ~F~~~D~~~dG~Is~~El~~~l~~~-g~~~~ei~~i~~~ 81 (180)
+|+.+...++|.+|.+|+.+.+... .....-++++++.
T Consensus 11 I~diI~~~g~~~ls~~ela~~l~~~~p~~~~~L~RimR~ 49 (51)
T PF08100_consen 11 IPDIIHNAGGGPLSLSELAAALPTINPSAPPMLDRIMRL 49 (51)
T ss_dssp HHHHHHH-S---EEHHHHHHHCTG--GGGHHHHHHHHHH
T ss_pred CHHHHHHCCCCCCCHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf 499998848988799999986576783026799879987
No 20
>PF01397 Terpene_synth: Terpene synthase, N-terminal domain; InterPro: IPR001906 Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C_10) synthases, sesquiterpene (C_15) synthases and the diterpene (C_20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf . Tpsa includes vetispiridiene synthase Q39979 from SWISSPROT, 5-epi- aristolochene synthase, Q40577 from SWISSPROT and (+)-delta-cadinene synthase P93665 from SWISSPROT. Tpsb includes (-)-limonene synthase, Q40322 from SWISSPROT. Tpsc includes copalyl diphosphate synthase (kaurene synthase A), O04408 from SWISSPROT. Tpsd includes taxadiene synthase, Q41594 from SWISSPROT, pinene synthase, O24475 from SWISSPROT and myrcene synthase, O24474 from SWISSPROT. Tpse includes ent-kaurene synthase B Q39548 from SWISSPROT. Tpsf includes linalool synthase Q9ZPN5 from SWISSPROT. In the fungus Phaeosphaeria sp.L487 the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein .; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 1n24_A 1n23_A 1n1b_B 1n22_B 1n20_B 1n1z_A 1n21_A 2j5c_A 2ong_B 2onh_A ....
Probab=26.67 E-value=14 Score=14.11 Aligned_cols=98 Identities=20% Similarity=0.322 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHCCCCC-CEEEHHHHHHHHHCCCCC---HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH--
Q ss_conf 899999999998387989-806188999877317999---889999999864431-0000123444332110000001--
Q T0519 36 NHIKYINELFYKLDTNHN-GSLSHREIYTVLASVGIK---KWDINRILQALDIND-RGNITYTEFMAGCYRWKNIEST-- 108 (180)
Q Consensus 36 e~~~~l~~~F~~~D~~~d-G~Is~~El~~~l~~~g~~---~~ei~~i~~~~D~d~-~g~I~f~EFia~~~~~~~~~~e-- 108 (180)
+++..|++.++.+=.... .....=++...+.++|+. +.||+.++..+=... .+.......-++.+..+.+.+.
T Consensus 27 ~~~~~Lk~~v~~~l~~~~~d~~~~L~lID~lqRLGi~yhFe~EI~~~L~~i~~~~~~~~~~~~DL~~~AL~FRLLRqhGy 106 (184)
T PF01397_consen 27 ERLEELKEEVRNMLPSSYPDPLEKLELIDTLQRLGISYHFEDEIKEILDQIYSNWDDNGEGEDDLYTTALRFRLLRQHGY 106 (184)
T ss_dssp HHHHHHHHHHHHHHHC-SSSHHHHHHHHHHHHH---GGGGHHHHHHHHHHHHHCSTTTCCSTTSHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf 99999999999988704889999999999999868657789999999999997613357656768898999999998185
Q ss_pred -HHHHHHHHCCCCCCCCCCH---HHHHHHH
Q ss_conf -2344322103589961478---9999998
Q T0519 109 -FLKAAFNKIDKDEDGYISK---SDIVSLV 134 (180)
Q Consensus 109 -~l~~aF~~~D~d~~G~It~---~el~~~l 134 (180)
.-..+|..| +|.+|.... .+++.++
T Consensus 107 ~VS~dvF~~F-~d~~G~F~~~l~~D~~glL 135 (184)
T PF01397_consen 107 NVSSDVFNKF-KDENGKFKESLSKDVKGLL 135 (184)
T ss_dssp ---GGGGGGG-B-----B-GGGGG-----H
T ss_pred CCCHHHHHHH-HCCCCCCCHHHHHHHHHHH
T ss_conf 2468888541-1489971164788889999
No 21
>PF12174 RST: RST domain of plant C-terminal
Probab=23.89 E-value=16 Score=13.81 Aligned_cols=62 Identities=10% Similarity=0.034 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 00001234443321100000012344322103589961478999999851799989999999983
Q T0519 87 RGNITYTEFMAGCYRWKNIESTFLKAAFNKIDKDEDGYISKSDIVSLVHDKVLDNNDIDNFFLSV 151 (180)
Q Consensus 87 ~g~I~f~EFia~~~~~~~~~~e~l~~aF~~~D~d~~G~It~~el~~~l~~~~~~~~~~~~~~~~~ 151 (180)
..+|+|...+++....-... ........|+.=..+.|+.+|+.+.++...+ +..+-..+..+
T Consensus 6 sp~~~F~~L~~~l~~~l~~~--~~~ll~~~Y~~~r~~KIsr~~fvr~lR~IVG-D~lL~s~Ik~l 67 (70)
T PF12174_consen 6 SPWMPFPMLFPALSKHLPPD--KMMLLQKHYDDFRKNKISREQFVRKLRQIVG-DQLLISAIKSL 67 (70)
T ss_pred CCCCCHHHHHHHHHHHCCHH--HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHHHHHHHHHH
T ss_conf 99631999999998658888--9999999999999678789999999999998-99999999986
No 22
>PF10668 Phage_terminase: Phage terminase small subunit
Probab=21.85 E-value=15 Score=13.95 Aligned_cols=25 Identities=28% Similarity=0.369 Sum_probs=18.8
Q ss_pred HHHHHHHCCCCCCCCCCHHHHHHHHH
Q ss_conf 34432210358996147899999985
Q T0519 110 LKAAFNKIDKDEDGYISKSDIVSLVH 135 (180)
Q Consensus 110 l~~aF~~~D~d~~G~It~~el~~~l~ 135 (180)
-..||.+| +++.|.++..|+...+.
T Consensus 9 RdkA~e~y-~~~~g~~~~k~IAe~lg 33 (60)
T PF10668_consen 9 RDKAFEIY-KESNGKIKLKDIAEKLG 33 (60)
T ss_pred HHHHHHHH-HHCCCCCCHHHHHHHHC
T ss_conf 89999999-98189841999999979
No 23
>PF01023 S_100: S-100/ICaBP type calcium binding domain; InterPro: IPR013787 The calcium-binding domain found in S100 and CaBP-9k proteins is a subfamily of the EF-hand calcium-binding domain . S100s are small dimeric acidic calcium and zinc-binding proteins abundant in the brain, with S100B playing an important role in modulating the proliferation and differentiation of neurons and glia cells . S100 proteins have two different types of calcium-binding sites: a low affinity one with a special structure, and a 'normal' EF-hand type high-affinity site. Calbindin-D9k (CaBP-9k) also belong to this family of proteins, but it does not form dimers. CaBP-9k is a cytosolic protein expressed in a variety of tissues. Although its precise function is unknown, it appears to be under the control of the steroid hormones oestrogen and progesterone in the female reproductive system . In the intestine, CaBP-9k may be involved in calcium absorption by mediating intracellular diffusion . This entry represents a subdomain of the calcium-binding domain found in S100, CaBP-9k, and related proteins. ; PDB: 1zfs_B 2k2f_B 1k2h_B 2kbm_A 2jpt_B 1xyd_A 2k7o_A 1mwn_B 1sym_A 1b4c_A ....
Probab=21.16 E-value=18 Score=13.49 Aligned_cols=29 Identities=31% Similarity=0.466 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHC-CCCC-CEEEHHHHHHHHH
Q ss_conf 999999999838-7989-8061889998773
Q T0519 38 IKYINELFYKLD-TNHN-GSLSHREIYTVLA 66 (180)
Q Consensus 38 ~~~l~~~F~~~D-~~~d-G~Is~~El~~~l~ 66 (180)
+..+-++|+.+- .+|+ .++++.||+..|.
T Consensus 5 i~~iI~vFhkYa~~~G~~~tLsk~Elk~Ll~ 35 (44)
T PF01023_consen 5 IETIIEVFHKYAGKEGDKDTLSKKELKELLE 35 (44)
T ss_dssp HHHHHHHHHHHHTT---TTCEEHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCCCCCCCCHHHHHHHHH
T ss_conf 9999999999863279856577999999999
Done!