Query 030600
Match_columns 174
No_of_seqs 80 out of 82
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 16:11:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030600.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030600hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13259 DUF4050: Protein of u 100.0 3.1E-39 6.7E-44 248.3 7.5 113 44-174 1-122 (122)
2 PF09782 NDUF_B6: NADH:ubiquin 58.3 7.8 0.00017 32.1 2.2 45 96-146 28-75 (156)
3 PF04818 CTD_bind: RNA polymer 30.6 40 0.00087 22.5 1.9 19 156-174 46-64 (64)
4 PF07418 PCEMA1: Acidic phosph 29.7 20 0.00043 32.5 0.3 11 5-15 29-39 (282)
5 COG5208 HAP5 CCAAT-binding fac 28.5 30 0.00064 31.1 1.2 14 154-167 172-185 (286)
6 PLN00211 predicted protein; Pr 27.9 43 0.00092 24.2 1.7 13 156-168 29-41 (61)
7 PF09791 Oxidored-like: Oxidor 25.7 29 0.00063 23.5 0.5 8 3-10 19-26 (48)
8 COG1709 Predicted transcriptio 24.9 62 0.0013 28.9 2.5 26 138-163 93-127 (241)
9 PF09012 FeoC: FeoC like trans 24.2 65 0.0014 21.9 2.0 16 157-172 28-43 (69)
10 PF10813 DUF2733: Protein of u 23.9 42 0.00091 21.5 0.9 15 4-18 1-16 (32)
11 COG1533 SplB DNA repair photol 21.6 40 0.00087 29.9 0.7 15 2-16 38-52 (297)
12 PRK10610 chemotaxis regulatory 21.2 97 0.0021 19.9 2.3 28 145-172 102-129 (129)
13 PRK00809 hypothetical protein; 21.1 60 0.0013 26.0 1.6 18 147-164 96-113 (144)
14 TIGR03487 cas_csp2 CRISPR-asso 20.8 53 0.0012 31.1 1.4 13 152-164 180-192 (489)
15 PRK07738 flagellar protein Fla 20.6 81 0.0018 24.9 2.1 22 152-173 91-112 (117)
No 1
>PF13259 DUF4050: Protein of unknown function (DUF4050)
Probab=100.00 E-value=3.1e-39 Score=248.28 Aligned_cols=113 Identities=54% Similarity=0.943 Sum_probs=96.6
Q ss_pred cccccccccCcccccccccccCCCCCCCCCCCCCCCCCCCCCcchhHHHHHHHHHHHhhhcCCCCCc-------cccccC
Q 030600 44 WTTSTCDMDNSAVQSQGSISSLGTNNLIPDTNGGSGSASAPSEFVNHGFLLWNQTRQRWIGNKKAEN-------RTHQVR 116 (174)
Q Consensus 44 Wsts~~~mdns~~~Sq~siss~s~~n~~~~~~~~~~s~~~~~eFVNhGl~~W~q~R~qWvg~~~~~~-------~~~~~r 116 (174)
||||+++|||+++|+|+++++. ++..+.+........ ++||||||++|+++|++|||+++... +...+|
T Consensus 1 ~s~s~~~~d~~~~~~~~~~s~~---~~~~~~~~~~~~~~~-~~~~N~Gl~lW~~rR~~W~~~~~~~~~~~~~l~~~~~~r 76 (122)
T PF13259_consen 1 WSSSPFRFDNSDAQSQRSISST---NSSSDCSKRRKSSEE-EEFVNHGLILWEQRRQQWTGPKKSNKIIEPRLQQSNSIR 76 (122)
T ss_pred CCCCcccCcChhhhhhhccccc---cchhhhhhhhccccC-ccceeHHHHHHHHHHHHHcCCCCcccccccccccccccc
Confidence 9999999999999999999444 444444433333344 99999999999999999999988774 444577
Q ss_pred C--CcccchhhhhhhhhhccccchhhhhhcCCCCCCCCCCChHHHHHHHHHHHhhcCCCC
Q 030600 117 E--PKLNTHCLCLVKKFWLCSWNATYESLLGSNKPFPQPIPLSEMVDFLVDIWEQEGMYD 174 (174)
Q Consensus 117 e--P~l~~~~~~l~~~~w~~swnaTYe~LLgsnkpFpqPIPL~EMVDfLVDiWE~EGLyd 174 (174)
+ |.+ +|++||++||++++||++||||+|||+||||+|++||+||
T Consensus 77 ~~Ip~~--------------~y~~iY~~Lv~~~~pf~~PI~L~dmv~~Lv~gW~~eg~w~ 122 (122)
T PF13259_consen 77 ESIPPI--------------SYPAIYEKLVGSNKPFKQPIPLSDMVDFLVDGWEEEGLWP 122 (122)
T ss_pred cccchh--------------hHHHHHHHHhcCCCCCCCCcCHHHHHHHHHHHhhcCCccC
Confidence 7 776 9999999999999999999999999999999999999997
No 2
>PF09782 NDUF_B6: NADH:ubiquinone oxidoreductase, NDUFB6/B17 subunit; InterPro: IPR019174 The NADH dehydrogenase [ubiquinone] complex performs the first stage of electron transfer from NADH to the respiratory chain. This entry represents an accessory subunit that is not thought to be involved in catalysis [].
Probab=58.30 E-value=7.8 Score=32.07 Aligned_cols=45 Identities=18% Similarity=0.400 Sum_probs=28.7
Q ss_pred HHHHHhhhcCCCCCccccccCCCcccc---hhhhhhhhhhccccchhhhhhcCC
Q 030600 96 NQTRQRWIGNKKAENRTHQVREPKLNT---HCLCLVKKFWLCSWNATYESLLGS 146 (174)
Q Consensus 96 ~q~R~qWvg~~~~~~~~~~~reP~l~~---~~~~l~~~~w~~swnaTYe~LLgs 146 (174)
.+-|+||+.++.-+ ++||.+++ --.-.+..||+.-++.-+ .+|.+
T Consensus 28 Ra~Rr~WLkDQ~Ls-----p~EPv~~p~~~~~~nPirrfyr~pl~~l~-~~L~p 75 (156)
T PF09782_consen 28 RAWRRQWLKDQELS-----PREPVLPPEYWERMNPIRRFYRKPLDKLQ-NYLKP 75 (156)
T ss_pred HHHHHHHHHhhccC-----CCCCcCCchhhhhcCHHHHHHHHHHHHHH-HhccC
Confidence 56699999997655 67888866 222345566766555544 44443
No 3
>PF04818 CTD_bind: RNA polymerase II-binding domain.; InterPro: IPR006903 This entry represents a conserved region found in a number of uncharacterised eukaryotic proteins.; PDB: 2L0I_A 2KM4_A 3D9I_B 3D9N_B 3D9O_A 3D9P_B 3D9K_A 3D9M_A 3D9J_A 3D9L_A ....
Probab=30.64 E-value=40 Score=22.52 Aligned_cols=19 Identities=26% Similarity=0.753 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHhhcCCCC
Q 030600 156 LSEMVDFLVDIWEQEGMYD 174 (174)
Q Consensus 156 L~EMVDfLVDiWE~EGLyd 174 (174)
..+=|.=|++||++-+.|+
T Consensus 46 ~~~kv~rll~iW~~r~if~ 64 (64)
T PF04818_consen 46 VRKKVQRLLNIWEERNIFS 64 (64)
T ss_dssp HHHHHHHHHHHHHHCTSS-
T ss_pred HHHHHHHHHHHhhCCCCCC
Confidence 3444667899999999986
No 4
>PF07418 PCEMA1: Acidic phosphoprotein precursor PCEMA1; InterPro: IPR010882 This family consists of several acidic phosphoprotein precursor PCEMA1 sequences which appear to be found exclusively in Plasmodium chabaudi. PCEMA1 is an antigen that is associated with the membrane of the infected erythrocyte throughout the entire intraerythrocytic cycle []. The exact function of this family is unclear.
Probab=29.66 E-value=20 Score=32.49 Aligned_cols=11 Identities=36% Similarity=1.026 Sum_probs=8.5
Q ss_pred CCcccCCCCCC
Q 030600 5 SGCLGCFIRPP 15 (174)
Q Consensus 5 ~gC~Gc~~kp~ 15 (174)
-||||||.|-+
T Consensus 29 tgcF~f~rkK~ 39 (282)
T PF07418_consen 29 TGCFGFCRKKP 39 (282)
T ss_pred cceehhhcccc
Confidence 49999997544
No 5
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=28.48 E-value=30 Score=31.05 Aligned_cols=14 Identities=57% Similarity=0.845 Sum_probs=11.6
Q ss_pred CChHHHHHHHHHHH
Q 030600 154 IPLSEMVDFLVDIW 167 (174)
Q Consensus 154 IPL~EMVDfLVDiW 167 (174)
|--+||.|||+||=
T Consensus 172 v~kSeMfDFLidiv 185 (286)
T COG5208 172 VKKSEMFDFLIDIV 185 (286)
T ss_pred HHHHHHHhHHhhhc
Confidence 44689999999984
No 6
>PLN00211 predicted protein; Provisional
Probab=27.93 E-value=43 Score=24.16 Aligned_cols=13 Identities=46% Similarity=1.071 Sum_probs=12.2
Q ss_pred hHHHHHHHHHHHh
Q 030600 156 LSEMVDFLVDIWE 168 (174)
Q Consensus 156 L~EMVDfLVDiWE 168 (174)
||-|.-||.|||-
T Consensus 29 lphMtsfLAeIwS 41 (61)
T PLN00211 29 LPHMTSFLAEIWS 41 (61)
T ss_pred cHHHHHHHHHHHH
Confidence 8999999999995
No 7
>PF09791 Oxidored-like: Oxidoreductase-like protein, N-terminal; InterPro: IPR019180 This entry represents the N-terminal domain of various oxidoreductase-like proteins whose exact function is, as yet, unknown.
Probab=25.66 E-value=29 Score=23.54 Aligned_cols=8 Identities=50% Similarity=1.140 Sum_probs=4.1
Q ss_pred CCCCcccC
Q 030600 3 GSSGCLGC 10 (174)
Q Consensus 3 ~~~gC~Gc 10 (174)
|++||..|
T Consensus 19 CgSGC~~C 26 (48)
T PF09791_consen 19 CGSGCAPC 26 (48)
T ss_pred cccCCccc
Confidence 45555554
No 8
>COG1709 Predicted transcriptional regulator [Transcription]
Probab=24.92 E-value=62 Score=28.85 Aligned_cols=26 Identities=35% Similarity=0.669 Sum_probs=21.4
Q ss_pred hhhhhhcCCCCC---------CCCCCChHHHHHHH
Q 030600 138 ATYESLLGSNKP---------FPQPIPLSEMVDFL 163 (174)
Q Consensus 138 aTYe~LLgsnkp---------FpqPIPL~EMVDfL 163 (174)
..|+.+|+++.+ |+.||+|.|.++..
T Consensus 93 k~l~~~l~~~~~~~aildirEf~~pv~l~~~~~ai 127 (241)
T COG1709 93 KALARVLGSEFPSKAILDIREFDIPVTLEELVEAI 127 (241)
T ss_pred HHHHHHhccCCchhheEehhhcCCCcCHHHHHHHh
Confidence 568888888755 99999999998753
No 9
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=24.19 E-value=65 Score=21.95 Aligned_cols=16 Identities=19% Similarity=0.381 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHhhcCC
Q 030600 157 SEMVDFLVDIWEQEGM 172 (174)
Q Consensus 157 ~EMVDfLVDiWE~EGL 172 (174)
+++|+.+.+.|++.|.
T Consensus 28 ~~~ve~mL~~l~~kG~ 43 (69)
T PF09012_consen 28 PEAVEAMLEQLIRKGY 43 (69)
T ss_dssp HHHHHHHHHHHHCCTS
T ss_pred HHHHHHHHHHHHHCCc
Confidence 6889999999999884
No 10
>PF10813 DUF2733: Protein of unknown function (DUF2733); InterPro: IPR024360 The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment []. UL11 is acylated, which is crucial for lipid raft association [].
Probab=23.91 E-value=42 Score=21.45 Aligned_cols=15 Identities=13% Similarity=-0.075 Sum_probs=9.5
Q ss_pred CCCcccCCCCCC-ccc
Q 030600 4 SSGCLGCFIRPP-VNT 18 (174)
Q Consensus 4 ~~gC~Gc~~kp~-~~~ 18 (174)
||.=++||.|+. |++
T Consensus 1 MG~~~s~Ckrr~n~l~ 16 (32)
T PF10813_consen 1 MGSLLSMCKRRHNPLK 16 (32)
T ss_pred CcceeeeeeccCCccc
Confidence 466677887655 544
No 11
>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]
Probab=21.61 E-value=40 Score=29.91 Aligned_cols=15 Identities=40% Similarity=0.870 Sum_probs=12.7
Q ss_pred CCCCCcccCCCCCCc
Q 030600 2 HGSSGCLGCFIRPPV 16 (174)
Q Consensus 2 ~~~~gC~Gc~~kp~~ 16 (174)
-|+.||.-||+++..
T Consensus 38 GC~h~C~YCYa~~~~ 52 (297)
T COG1533 38 GCSHGCIYCYARPMH 52 (297)
T ss_pred CCCCCCceeeccccc
Confidence 489999999998773
No 12
>PRK10610 chemotaxis regulatory protein CheY; Provisional
Probab=21.16 E-value=97 Score=19.90 Aligned_cols=28 Identities=25% Similarity=0.431 Sum_probs=22.8
Q ss_pred CCCCCCCCCCChHHHHHHHHHHHhhcCC
Q 030600 145 GSNKPFPQPIPLSEMVDFLVDIWEQEGM 172 (174)
Q Consensus 145 gsnkpFpqPIPL~EMVDfLVDiWE~EGL 172 (174)
|-..-+.+|+...++.+.|..+|+..|+
T Consensus 102 g~~~~i~~p~~~~~l~~~l~~~~~~~~~ 129 (129)
T PRK10610 102 GASGYVVKPFTAATLEEKLNKIFEKLGM 129 (129)
T ss_pred CCCeEEECCCCHHHHHHHHHHHHHHccC
Confidence 3334567899999999999999998875
No 13
>PRK00809 hypothetical protein; Provisional
Probab=21.12 E-value=60 Score=25.97 Aligned_cols=18 Identities=28% Similarity=0.432 Sum_probs=14.8
Q ss_pred CCCCCCCCChHHHHHHHH
Q 030600 147 NKPFPQPIPLSEMVDFLV 164 (174)
Q Consensus 147 nkpFpqPIPL~EMVDfLV 164 (174)
.+.|..||||.+|++-|.
T Consensus 96 ~~~~~~~v~l~~L~~~L~ 113 (144)
T PRK00809 96 VKIFEEPIDFKPLIPKLK 113 (144)
T ss_pred eeecCCcccHHHHHhhhh
Confidence 356889999999988773
No 14
>TIGR03487 cas_csp2 CRISPR-associated protein, Csp2 family. Members of this protein family are cas, or CRISPR-associated, proteins. The two sequences in the alignment seed are found within cas gene clusters that are adjacent to CRISPR DNA repeats in two members of the order Bacteroidales, Porphyromonas gingivalis W83 and Bacteroides forsythus ATCC 43037. This cas protein family is unique to the Pging (Porphyromonas gingivalis) subtype.
Probab=20.79 E-value=53 Score=31.11 Aligned_cols=13 Identities=54% Similarity=1.032 Sum_probs=11.1
Q ss_pred CCCChHHHHHHHH
Q 030600 152 QPIPLSEMVDFLV 164 (174)
Q Consensus 152 qPIPL~EMVDfLV 164 (174)
.-||+.|||||+.
T Consensus 180 pdipi~emvdfi~ 192 (489)
T TIGR03487 180 PDIPINEMVDFIA 192 (489)
T ss_pred cCCcHHHHHHHHH
Confidence 5699999999974
No 15
>PRK07738 flagellar protein FlaG; Provisional
Probab=20.56 E-value=81 Score=24.93 Aligned_cols=22 Identities=23% Similarity=0.490 Sum_probs=20.0
Q ss_pred CCCChHHHHHHHHHHHhhcCCC
Q 030600 152 QPIPLSEMVDFLVDIWEQEGMY 173 (174)
Q Consensus 152 qPIPL~EMVDfLVDiWE~EGLy 173 (174)
+=||=.+|+|++..+||--||+
T Consensus 91 RQIPpEe~L~l~~~m~e~~GlL 112 (117)
T PRK07738 91 REIPPKKLLDMYAAMMEFVGLL 112 (117)
T ss_pred eeCCCHHHHHHHHHHHHHhcce
Confidence 4599999999999999999985
Done!