Query psy13140
Match_columns 122
No_of_seqs 105 out of 532
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 20:35:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13140.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13140hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3355|consensus 100.0 5.6E-49 1.2E-53 288.7 11.6 114 9-122 63-176 (177)
2 COG5054 ERV1 Mitochondrial sul 100.0 2.5E-43 5.3E-48 258.4 10.4 110 9-118 72-181 (181)
3 PF04777 Evr1_Alr: Erv1 / Alr 100.0 3.1E-36 6.8E-41 203.4 8.5 94 21-114 1-95 (95)
4 KOG1731|consensus 99.8 3.5E-19 7.5E-24 150.8 7.1 93 16-108 405-504 (606)
5 PHA03005 sulfhydryl oxidase; P 99.2 3.7E-11 7.9E-16 80.9 6.5 77 15-94 2-79 (96)
6 PF04805 Pox_E10: E10-like pro 96.1 0.015 3.2E-07 37.3 4.6 49 45-93 4-53 (70)
7 PF05214 Baculo_p33: Baculovir 69.1 4.3 9.2E-05 32.1 2.4 47 22-68 107-163 (250)
8 KOG3354|consensus 67.7 3.3 7.1E-05 31.2 1.4 37 80-116 63-102 (191)
9 PF14424 Toxin-deaminase: The 58.5 4.5 9.6E-05 28.9 0.7 47 24-75 78-124 (133)
10 PF14149 YhfH: YhfH-like prote 56.4 10 0.00023 21.4 1.9 28 45-74 3-31 (37)
11 PF02228 Gag_p19: Major core p 42.4 92 0.002 20.7 4.9 49 13-61 13-63 (92)
12 PF11571 Med27: Mediator compl 41.2 50 0.0011 21.7 3.6 30 37-66 33-64 (90)
13 PF09779 Ima1_N: Ima1 N-termin 40.0 52 0.0011 23.2 3.8 41 23-63 83-128 (131)
14 KOG4167|consensus 39.1 16 0.00034 33.4 1.2 21 55-75 791-811 (907)
15 PF01265 Cyto_heme_lyase: Cyto 36.0 47 0.001 26.5 3.3 41 56-99 111-153 (259)
16 KOG4623|consensus 34.7 96 0.0021 27.3 5.2 57 27-87 115-174 (611)
17 PF05734 DUF832: Herpesvirus p 30.5 2.5E+02 0.0054 21.9 6.5 61 48-108 110-179 (228)
18 PF13913 zf-C2HC_2: zinc-finge 28.8 7.6 0.00017 19.7 -1.5 13 56-68 2-14 (25)
19 smart00139 MyTH4 Domain in Myo 28.2 1E+02 0.0022 22.0 3.7 14 22-35 84-97 (144)
20 TIGR01609 PF_unchar_267 Plasmo 26.8 67 0.0014 23.5 2.6 22 85-106 95-116 (146)
21 TIGR02701 shell_carb_anhy carb 26.5 44 0.00095 28.6 1.8 90 23-119 78-178 (450)
22 PHA00616 hypothetical protein 24.7 43 0.00094 19.5 1.1 14 57-70 2-15 (44)
23 PF10036 RLL: Putative carniti 24.6 2.2E+02 0.0047 22.2 5.3 58 31-88 8-84 (249)
24 KOG2923|consensus 23.1 12 0.00025 23.8 -1.7 12 55-67 21-32 (67)
25 PF10906 DUF2697: Protein of u 21.0 85 0.0018 20.0 1.9 18 81-98 12-29 (68)
26 TIGR02976 phageshock_pspB phag 20.7 2.5E+02 0.0053 18.1 4.1 30 21-50 18-48 (75)
27 smart00355 ZnF_C2H2 zinc finge 20.2 33 0.00072 15.7 -0.1 11 57-67 1-11 (26)
28 PF00784 MyTH4: MyTH4 domain; 20.1 65 0.0014 21.7 1.4 31 20-52 40-70 (114)
No 1
>KOG3355|consensus
Probab=100.00 E-value=5.6e-49 Score=288.70 Aligned_cols=114 Identities=56% Similarity=1.207 Sum_probs=112.7
Q ss_pred CCCCCCCccccchhhhHHHHHHhhhcCCCCChHHHHHHHHHHHHhhhhcCChhhHHHHHHHHHhCCCCCCCHHHHHHHHH
Q psy13140 9 REDCPLDKDQLGYQTWGLLHTIAAYYPEKPTADEEREMKTFFMLLGKFYPCESCARDFSSLLKLRPPATSSQRALAGWLC 88 (122)
Q Consensus 9 ~~~~p~~~~~~G~alW~llHtla~~~p~~ps~~~~~~~~~fi~~f~~~~PC~~C~~hf~~~~~~~p~~v~sr~~l~~Wl~ 88 (122)
...||++++++|||+|+|||||||+||+.||.+|++.|+.||.+|..+|||.+|++||+++++++|++|+||+++.+|+|
T Consensus 63 ~~~~~~~~eeLGRstWtllHT~aA~yP~~PT~eqk~~~~sFi~~~s~~yPC~eCa~dl~K~l~~nppq~~SRe~~~~W~C 142 (177)
T KOG3355|consen 63 RKGDPPDKEELGRSTWTLLHTLAANYPDRPTPEQKDDMRSFIHLFSKFYPCGECAKDLRKILRKNPPQTSSREAFTQWLC 142 (177)
T ss_pred hcCCCchHHHHhHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHhhhhcchHHHHHHHHHHHHhCCCCcchHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHHhhhCCCCCCccchHhhhcCCCCCCCCC
Q psy13140 89 WVHNHINQKLGKPQFDCSRLDERWRDGWDDGSCD 122 (122)
Q Consensus 89 ~~HN~VN~rLgKp~~~c~~~~~rw~~g~~~~~~~ 122 (122)
.+||.||++||||.|||..|.+||++||.||+||
T Consensus 143 ~vHN~VNekLgKp~fdC~~v~erw~~g~~~~~~d 176 (177)
T KOG3355|consen 143 HVHNKVNEKLGKPKFDCRTVDERWRDGWKDGSCD 176 (177)
T ss_pred HHHHHHHHHcCCCCCchhHHHHHHhchhhhcCCC
Confidence 9999999999999999999999999999999997
No 2
>COG5054 ERV1 Mitochondrial sulfhydryl oxidase involved in the biogenesis of cytosolic Fe/S proteins [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.5e-43 Score=258.40 Aligned_cols=110 Identities=42% Similarity=0.894 Sum_probs=107.9
Q ss_pred CCCCCCCccccchhhhHHHHHHhhhcCCCCChHHHHHHHHHHHHhhhhcCChhhHHHHHHHHHhCCCCCCCHHHHHHHHH
Q psy13140 9 REDCPLDKDQLGYQTWGLLHTIAAYYPEKPTADEEREMKTFFMLLGKFYPCESCARDFSSLLKLRPPATSSQRALAGWLC 88 (122)
Q Consensus 9 ~~~~p~~~~~~G~alW~llHtla~~~p~~ps~~~~~~~~~fi~~f~~~~PC~~C~~hf~~~~~~~p~~v~sr~~l~~Wl~ 88 (122)
++..|++++++|||+|+|||||+|+||..||.+||..|+.||.+|..+|||.+|+.||+++++.+||+|+||+++..|+|
T Consensus 72 ~k~d~~~~~elGRssWtllHtv~A~yP~~PT~~qr~~l~sFl~~~s~~yPCgeCs~~f~K~l~~~ppqv~SRea~~~W~C 151 (181)
T COG5054 72 TKHDNPDVEELGRSSWTLLHTVAANYPARPTPQQRDDLRSFLFLFSITYPCGECSKHFQKLLDVYPPQVSSREAATTWAC 151 (181)
T ss_pred cccCchHHHHHHHHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHhhheeecHHHHHHHHHHHhhCCCCcccHHHHHHHHH
Confidence 68889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHHHhhhCCCCCCccchHhhhcCCCCC
Q psy13140 89 WVHNHINQKLGKPQFDCSRLDERWRDGWDD 118 (122)
Q Consensus 89 ~~HN~VN~rLgKp~~~c~~~~~rw~~g~~~ 118 (122)
++||.||+|||||.|||..+.|||.+||++
T Consensus 152 evHN~VNekL~Kp~~dC~~~~e~~~~G~~~ 181 (181)
T COG5054 152 EVHNKVNEKLGKPKFDCDTWNERYDCGCDT 181 (181)
T ss_pred HHHHHHHHHhCCCCcccchhHHHhhccCCC
Confidence 999999999999999999999999999975
No 3
>PF04777 Evr1_Alr: Erv1 / Alr family; InterPro: IPR006863 Biogenesis of Fe/S clusters involves a number of essential mitochondrial proteins. Erv1p of Saccharomyces cerevisiae (Baker's yeast) mitochondria is required for the maturation of Fe/S proteins in the cytosol. The ALR (augmenter of liver regeneration) represents a mammalian ortholog of yeast Erv1p. Both Erv1p and full-length ALR are located in the mitochondrial intermembrane and it is thought to operate downstream of the mitochondrial ABC transporter [].; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process; PDB: 3MBG_C 3U2L_A 3U2M_A 3QD9_D 3QCP_A 3O55_A 2HJ3_B 3GWN_A 3T58_D 3T59_B ....
Probab=100.00 E-value=3.1e-36 Score=203.37 Aligned_cols=94 Identities=46% Similarity=0.945 Sum_probs=90.1
Q ss_pred hhhhHHHHHHhhhcCCCCChHHHHHHHHHHHHhhhhcCChhhHHHHHHHHHhCCCCCCCHHHHHHHHHHHhhHHHhhhCC
Q psy13140 21 YQTWGLLHTIAAYYPEKPTADEEREMKTFFMLLGKFYPCESCARDFSSLLKLRPPATSSQRALAGWLCWVHNHINQKLGK 100 (122)
Q Consensus 21 ~alW~llHtla~~~p~~ps~~~~~~~~~fi~~f~~~~PC~~C~~hf~~~~~~~p~~v~sr~~l~~Wl~~~HN~VN~rLgK 100 (122)
+|+|++||++|++||++|+..+++.+..|+.+|..+|||++||.||.++++++|++|+||+++++|||++||.||+||||
T Consensus 1 c~~W~llH~~a~~~p~~p~~~~~~~~~~~~~~~~~~~pC~~C~~hf~~~~~~~~~~v~sr~~l~~Wl~~~HN~VN~rL~k 80 (95)
T PF04777_consen 1 CGLWTLLHTLAAYYPENPTEEEKQVMEAFFRSFPHFFPCEECRNHFSKYIKKNPPQVSSREDLVLWLWRAHNKVNERLGK 80 (95)
T ss_dssp HHHHHHHHHHHHTSHSSHHHHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHSGGGGSSHHHHHHHHHHHHHHHHHHTTT
T ss_pred CchHHHHHHHHhcCccCCCHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHhCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCC-CccchHhhhcC
Q psy13140 101 PQF-DCSRLDERWRD 114 (122)
Q Consensus 101 p~~-~c~~~~~rw~~ 114 (122)
|++ ++.++.++|.+
T Consensus 81 ~~~~~~~~~~~~~~~ 95 (95)
T PF04777_consen 81 PIFCDDPKFKEQWPT 95 (95)
T ss_dssp STTTSGTTHHHHHT-
T ss_pred CCCCCcHHHHhHcCC
Confidence 996 88899999963
No 4
>KOG1731|consensus
Probab=99.78 E-value=3.5e-19 Score=150.79 Aligned_cols=93 Identities=17% Similarity=0.355 Sum_probs=71.0
Q ss_pred ccccchhhhHHHHHHhhhcCCCCChHHHHHHHHHHHHhh-hhcCChhhHHHHHHHHHhC-CCCCCCHHHHHHHHHHHhhH
Q psy13140 16 KDQLGYQTWGLLHTIAAYYPEKPTADEEREMKTFFMLLG-KFYPCESCARDFSSLLKLR-PPATSSQRALAGWLCWVHNH 93 (122)
Q Consensus 16 ~~~~G~alW~llHtla~~~p~~ps~~~~~~~~~fi~~f~-~~~PC~~C~~hf~~~~~~~-p~~v~sr~~l~~Wl~~~HN~ 93 (122)
-..+.++||+|||++||+.-..+...+-..+..-++.|. +||.|.+||.||.+|..+. ...|++++|.++|||++||.
T Consensus 405 ~RGftCgLWTLFH~lTV~Aa~~~~~~~~~~~l~~l~~~vk~FFgC~dC~~HF~~Ma~~~~~~~V~~ped~vLWLW~aHN~ 484 (606)
T KOG1731|consen 405 LRGFTCGLWTLFHALTVEAAKQEVHFAFTPILDVLHGFVKNFFGCTDCREHFQKMATRRKLHRVRRPEDVVLWLWSAHNE 484 (606)
T ss_pred cCCcchHHHHHHHHhhhhhcccccccchhccchhhHHHHHHccCchHHHHHHHHHHHhhcccccCChhhhhhHHHHHhhH
Confidence 346778999999999999665544443333333333343 6899999999999999775 47899999999999999999
Q ss_pred HHhhhCC-----CCCCccch
Q psy13140 94 INQKLGK-----PQFDCSRL 108 (122)
Q Consensus 94 VN~rLgK-----p~~~c~~~ 108 (122)
||+||.+ |+|+--.+
T Consensus 485 VN~RLaGd~TeDPkFPK~QF 504 (606)
T KOG1731|consen 485 VNARLAGDSTEDPKFPKVQF 504 (606)
T ss_pred HHHHhccCCCCCCCCCcccC
Confidence 9999953 56665443
No 5
>PHA03005 sulfhydryl oxidase; Provisional
Probab=99.22 E-value=3.7e-11 Score=80.88 Aligned_cols=77 Identities=12% Similarity=0.223 Sum_probs=61.5
Q ss_pred CccccchhhhHHHHHHhhhcCCCCChHHHHHHHHHHHHhhhhcCChhhHHHHHHHHHhCCCCCCCHHHHHHHHH-HHhhH
Q psy13140 15 DKDQLGYQTWGLLHTIAAYYPEKPTADEEREMKTFFMLLGKFYPCESCARDFSSLLKLRPPATSSQRALAGWLC-WVHNH 93 (122)
Q Consensus 15 ~~~~~G~alW~llHtla~~~p~~ps~~~~~~~~~fi~~f~~~~PC~~C~~hf~~~~~~~p~~v~sr~~l~~Wl~-~~HN~ 93 (122)
+|+.||||.|+++|.++.+|..+++ .+..+..+.++...+||.+|+.|..+.+.++-...++.-..+.++. .++|.
T Consensus 2 dPk~WGra~W~vIFivi~k~~~~~~---iE~cK~~lytI~~tLPC~~Cr~HA~~ai~knnimSs~diNyi~~FfI~l~Nn 78 (96)
T PHA03005 2 NPKYWGRAIWTVIFIVISKAKLDGN---IEACKRKLYTICSTLPCPACRRHAKEAIEKNNIMSSNDLNYIYFFFISLFNN 78 (96)
T ss_pred CcchhhhhHHHHHHHHHHhccCCCc---HHHHHHHHHHhhhcCCCHHHHHHHHHHHhhcCccccCCccchhHHHHHHHHH
Confidence 6889999999999999999998884 4466777788889999999999999999987765444444454444 66665
Q ss_pred H
Q psy13140 94 I 94 (122)
Q Consensus 94 V 94 (122)
.
T Consensus 79 l 79 (96)
T PHA03005 79 L 79 (96)
T ss_pred h
Confidence 4
No 6
>PF04805 Pox_E10: E10-like protein conserved region; InterPro: IPR006890 This entry represents a family of probable FAD-linked sulphydryl oxidases found in poxviruses.; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process
Probab=96.12 E-value=0.015 Score=37.25 Aligned_cols=49 Identities=12% Similarity=0.194 Sum_probs=33.8
Q ss_pred HHHHHHHHhhhhcCChhhHHHHHHHHHhCCCCCCCHHHHHHHHH-HHhhH
Q psy13140 45 EMKTFFMLLGKFYPCESCARDFSSLLKLRPPATSSQRALAGWLC-WVHNH 93 (122)
Q Consensus 45 ~~~~fi~~f~~~~PC~~C~~hf~~~~~~~p~~v~sr~~l~~Wl~-~~HN~ 93 (122)
..+.-+..+...+||+.||.|..+.+.++....++--..+.++. .++|.
T Consensus 4 ~cKr~ly~I~~tLPC~~Cr~HA~~ai~kNNiMSs~DiNyIy~FFI~lfNn 53 (70)
T PF04805_consen 4 KCKRKLYTICSTLPCPECRIHAKEAIQKNNIMSSNDINYIYFFFISLFNN 53 (70)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHhcCccccCCccchHHHHHHHHHH
Confidence 34444566678999999999999999988765444334444444 66664
No 7
>PF05214 Baculo_p33: Baculovirus P33; InterPro: IPR007879 This family consists of a series of baculoviral 33 kDa early protein homologues.; PDB: 3QZY_B 3P0K_A.
Probab=69.06 E-value=4.3 Score=32.12 Aligned_cols=47 Identities=17% Similarity=0.341 Sum_probs=28.2
Q ss_pred hhhHHHHHHhhhcCC------CCCh----HHHHHHHHHHHHhhhhcCChhhHHHHHH
Q psy13140 22 QTWGLLHTIAAYYPE------KPTA----DEEREMKTFFMLLGKFYPCESCARDFSS 68 (122)
Q Consensus 22 alW~llHtla~~~p~------~ps~----~~~~~~~~fi~~f~~~~PC~~C~~hf~~ 68 (122)
-.|=.+|.++.-..| +-+- ...+.++..+.++-..+-|+-||+|+..
T Consensus 107 tIWD~IH~l~li~DdmV~nR~~~~~d~v~~~l~n~K~lfYNiF~~L~C~mC~~HYl~ 163 (250)
T PF05214_consen 107 TIWDSIHFLCLIIDDMVDNRHKLSYDFVSNQLKNMKWLFYNIFFKLFCPMCRDHYLT 163 (250)
T ss_dssp HHHHHHHHHHHHHHHHHHTTTGGGHHHHHHHHHHHHHHHHT---SSS-HHHHHHHHH
T ss_pred eHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHHHhHhheeCChHHhHHHee
Confidence 579999999964321 1111 1335666666666566789999999754
No 8
>KOG3354|consensus
Probab=67.68 E-value=3.3 Score=31.23 Aligned_cols=37 Identities=22% Similarity=0.384 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhhHHHhhhCCC---CCCccchHhhhcCCC
Q psy13140 80 QRALAGWLCWVHNHINQKLGKP---QFDCSRLDERWRDGW 116 (122)
Q Consensus 80 r~~l~~Wl~~~HN~VN~rLgKp---~~~c~~~~~rw~~g~ 116 (122)
-+|-.-||+++|+...++|.+- ...|+.+.++||+-.
T Consensus 63 D~DR~pWL~~i~~~~~~~l~~~q~vVlACSaLKk~YRdIL 102 (191)
T KOG3354|consen 63 DDDRWPWLKKIAVELRKALASGQGVVLACSALKKKYRDIL 102 (191)
T ss_pred cccccHHHHHHHHHHHHHhhcCCeEEEEhHHHHHHHHHHH
Confidence 3455689999999999999764 489999999999643
No 9
>PF14424 Toxin-deaminase: The BURPS668_1122 family of deaminases
Probab=58.47 E-value=4.5 Score=28.86 Aligned_cols=47 Identities=26% Similarity=0.442 Sum_probs=32.8
Q ss_pred hHHHHHHhhhcCCCCChHHHHHHHHHHHHhhhhcCChhhHHHHHHHHHhCCC
Q psy13140 24 WGLLHTIAAYYPEKPTADEEREMKTFFMLLGKFYPCESCARDFSSLLKLRPP 75 (122)
Q Consensus 24 W~llHtla~~~p~~ps~~~~~~~~~fi~~f~~~~PC~~C~~hf~~~~~~~p~ 75 (122)
=++|..+|.++..++.... .=|..|.+.-||..|..=+.++.+++|.
T Consensus 78 ~KiL~~ia~~l~~~~~~~~-----G~i~l~te~~pC~SC~~vi~qF~~~~pn 124 (133)
T PF14424_consen 78 YKILEDIAKKLGDNPDPSG-----GTIDLFTELPPCESCSNVIEQFKKDFPN 124 (133)
T ss_pred HHHHHHHHHHhccccccCC-----ceEEEEecCCcChhHHHHHHHHHHHCCC
Confidence 4566666666655544321 2255667889999999999999999883
No 10
>PF14149 YhfH: YhfH-like protein
Probab=56.43 E-value=10 Score=21.42 Aligned_cols=28 Identities=21% Similarity=0.443 Sum_probs=21.1
Q ss_pred HHHHHHHHhh-hhcCChhhHHHHHHHHHhCC
Q psy13140 45 EMKTFFMLLG-KFYPCESCARDFSSLLKLRP 74 (122)
Q Consensus 45 ~~~~fi~~f~-~~~PC~~C~~hf~~~~~~~p 74 (122)
.+.+|+++++ .. |.+|+++..+....+.
T Consensus 3 ~~~eFfrnLp~K~--C~~CG~~i~EQ~E~Y~ 31 (37)
T PF14149_consen 3 NIVEFFRNLPPKK--CTECGKEIEEQAECYG 31 (37)
T ss_pred cHHHHHHhCCCcc--cHHHHHHHHHHHHHHh
Confidence 3567888875 45 9999999988876654
No 11
>PF02228 Gag_p19: Major core protein p19; InterPro: IPR003139 Retroviral matrix proteins (or major core proteins) are components of envelope-associated capsids, which line the inner surface of virus envelopes and are associated with viral membranes []. Matrix proteins are produced as part of Gag precursor polyproteins. During viral maturation, the Gag polyprotein is cleaved into major structural proteins by the viral protease, yielding the matrix (MA), capsid (CA), nucleocapsid (NC), and some smaller peptides. Gag-derived proteins govern the entire assembly and release of the virus particles, with matrix proteins playing key roles in Gag stability, capsid assembly, transport and budding. Although matrix proteins from different retroviruses appear to perform similar functions and can have similar structural folds, their primary sequences can be very different. This entry represents matrix proteins from delta-retroviruses such as Human T-lymphotropic virus 1 and Human T-cell leukemia virus 2 (HTLV-2), both members of the human oncovirus subclass of retroviruses [, ].; GO: 0005198 structural molecule activity, 0019013 viral nucleocapsid; PDB: 1JVR_A.
Probab=42.44 E-value=92 Score=20.69 Aligned_cols=49 Identities=14% Similarity=0.172 Sum_probs=34.2
Q ss_pred CCCccccchhhhHHHHHHhhhcCCCCChHHHHHHHHHHHHhh--hhcCChh
Q psy13140 13 PLDKDQLGYQTWGLLHTIAAYYPEKPTADEEREMKTFFMLLG--KFYPCES 61 (122)
Q Consensus 13 p~~~~~~G~alW~llHtla~~~p~~ps~~~~~~~~~fi~~f~--~~~PC~~ 61 (122)
|-.+..+..+-|.-|--.|-+..-.|+..+-..++.|++.+. ...-|+.
T Consensus 13 p~~PrGls~hhWLNflQaAyRL~PgPS~~DF~qLr~flk~alkTpvwl~pi 63 (92)
T PF02228_consen 13 PKPPRGLSTHHWLNFLQAAYRLQPGPSSFDFHQLRNFLKLALKTPVWLNPI 63 (92)
T ss_dssp --SS-SSTHHHHHHHHHHHHHSS---STTTHHHHHHHHHHHHT-TTSTTTT
T ss_pred CCCCCCcCHHHHHHHHHHHHhcCCCCCcccHHHHHHHHHHHHcCCeeeccc
Confidence 445568888999999888888888899999999999999885 3444543
No 12
>PF11571 Med27: Mediator complex subunit 27; InterPro: IPR021627 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Mediator exists in two major forms in human cells: a smaller form that interacts strongly with pol II and activates transcription, and a large form that does not interact strongly with pol II and does not directly activate transcription. The ubiquitous expression of Med27 mRNA suggests a universal requirement for Med27 in transcriptional initiation. Loss of Crsp34/Med27 decreases amacrine cell number, but increases the number of rod photoreceptor cells [].
Probab=41.21 E-value=50 Score=21.68 Aligned_cols=30 Identities=17% Similarity=0.457 Sum_probs=22.9
Q ss_pred CCChHHHHHHHHHHHHhhh--hcCChhhHHHH
Q psy13140 37 KPTADEEREMKTFFMLLGK--FYPCESCARDF 66 (122)
Q Consensus 37 ~ps~~~~~~~~~fi~~f~~--~~PC~~C~~hf 66 (122)
.+.+.....+..+|.++.. .=||..|.++.
T Consensus 33 ~~~~~~l~~ll~~l~sY~~lfs~pC~~C~klL 64 (90)
T PF11571_consen 33 RPPEWDLRSLLDWLSSYRNLFSTPCKKCGKLL 64 (90)
T ss_pred CCCccHHHHHHHHHHHHhhhccchhhHHHhHh
Confidence 3444567778888999875 45899999998
No 13
>PF09779 Ima1_N: Ima1 N-terminal domain; InterPro: IPR018617 Members of this family of uncharacterised novel proteins have no known function.
Probab=39.98 E-value=52 Score=23.16 Aligned_cols=41 Identities=24% Similarity=0.527 Sum_probs=26.6
Q ss_pred hhHHHHHHhhhcCCCCC--h-HHHHHHHHHHHHhhhhcC--ChhhH
Q psy13140 23 TWGLLHTIAAYYPEKPT--A-DEEREMKTFFMLLGKFYP--CESCA 63 (122)
Q Consensus 23 lW~llHtla~~~p~~ps--~-~~~~~~~~fi~~f~~~~P--C~~C~ 63 (122)
+=.+++.||.+.|+... - .--+++..|-+.+-.-|| |+.|.
T Consensus 83 Q~L~~~~LA~f~P~~e~p~y~~~~~e~~~Yr~~LE~rYP~lC~~C~ 128 (131)
T PF09779_consen 83 QHLKINQLASFLPDPEDPEYANYEEELPEYRRSLEQRYPQLCSSCE 128 (131)
T ss_pred HHHHHHHHHhcCCCCCCccHHHHHHHHHHHHHHHHHHhhHhhhhhh
Confidence 44677888888775432 2 223577777777777775 66664
No 14
>KOG4167|consensus
Probab=39.05 E-value=16 Score=33.44 Aligned_cols=21 Identities=19% Similarity=0.618 Sum_probs=17.6
Q ss_pred hhcCChhhHHHHHHHHHhCCC
Q psy13140 55 KFYPCESCARDFSSLLKLRPP 75 (122)
Q Consensus 55 ~~~PC~~C~~hf~~~~~~~p~ 75 (122)
-+|||.+|.+.|.++-..|.+
T Consensus 791 giFpCreC~kvF~KiKSrNAH 811 (907)
T KOG4167|consen 791 GIFPCRECGKVFFKIKSRNAH 811 (907)
T ss_pred ceeehHHHHHHHHHHhhhhHH
Confidence 479999999999998876653
No 15
>PF01265 Cyto_heme_lyase: Cytochrome c/c1 heme lyase; InterPro: IPR000511 Cytochrome c haem-lyase (CCHL) (4.4.1.17 from EC) and cytochrome Cc1 haem-lyase (CC1HL) [] are mitochondrial enzymes that catalyse the covalent attachment of a haem group on two cysteine residues of cytochrome c and c1. These two enzymes are functionally and evolutionary related. There are two conserved regions, the first is located in the central section and the second in the C-terminal section. Both patterns contain conserved histidine, tryptophan and acidic residues which could be important for the interaction of the enzymes with the apoproteins and/or the haem group.; GO: 0004408 holocytochrome-c synthase activity, 0005739 mitochondrion
Probab=35.97 E-value=47 Score=26.46 Aligned_cols=41 Identities=20% Similarity=0.265 Sum_probs=25.2
Q ss_pred hcCChhhHHHHHHHHHh-CC-CCCCCHHHHHHHHHHHhhHHHhhhC
Q psy13140 56 FYPCESCARDFSSLLKL-RP-PATSSQRALAGWLCWVHNHINQKLG 99 (122)
Q Consensus 56 ~~PC~~C~~hf~~~~~~-~p-~~v~sr~~l~~Wl~~~HN~VN~rLg 99 (122)
.||=+. -|.+.+++ .- +.-....+-+.=+..+||.||++.=
T Consensus 111 ~YPS~q---qFynAm~RKg~~p~~d~~~~dm~~vV~IHN~vNE~aW 153 (259)
T PF01265_consen 111 VYPSPQ---QFYNAMKRKGWNPSDDIPEEDMETVVPIHNAVNERAW 153 (259)
T ss_pred ecCCHH---HHHHHHHccccCcCCCCCHHHHHHHHHHhhhhhHHHH
Confidence 355543 45555543 21 2233456677778899999999863
No 16
>KOG4623|consensus
Probab=34.75 E-value=96 Score=27.34 Aligned_cols=57 Identities=19% Similarity=0.495 Sum_probs=39.7
Q ss_pred HHHHhhhcCCCCChHHH--HHHHHHHHHhhhhcC-ChhhHHHHHHHHHhCCCCCCCHHHHHHHH
Q psy13140 27 LHTIAAYYPEKPTADEE--REMKTFFMLLGKFYP-CESCARDFSSLLKLRPPATSSQRALAGWL 87 (122)
Q Consensus 27 lHtla~~~p~~ps~~~~--~~~~~fi~~f~~~~P-C~~C~~hf~~~~~~~p~~v~sr~~l~~Wl 87 (122)
.--+|...|.+ +++ +++..+-+.+-+.|| |.+|-.+-.+.+..+...+.+ .-+..||
T Consensus 115 ~~kLA~FeP~d---e~rydeeLevYR~~LE~mf~LCs~C~~~V~~~L~e~k~~~~~-k~l~Y~l 174 (611)
T KOG4623|consen 115 NRKLADFEPPD---EQRYDEELEVYRKSLEEMFPLCSECYDSVQDQLDENKYEAKN-KVLGYWL 174 (611)
T ss_pred HHHHhhcCCCc---hhhHHHHHHHHHHHHHHHcccchHHHHHHHHhhhhhHHHHHH-HHHHHHH
Confidence 33455555522 233 467777777777777 999999999999887777777 6677787
No 17
>PF05734 DUF832: Herpesvirus protein of unknown function (DUF832); InterPro: IPR008550 This entry contains BRRF2 from Epstein-Barr virus. This protein family is restricted to the gammaherpesvirus's; it's function is not known. The protein is phosphorylated and is associated with the viral tegument [].
Probab=30.51 E-value=2.5e+02 Score=21.90 Aligned_cols=61 Identities=25% Similarity=0.463 Sum_probs=38.3
Q ss_pred HHHHHhhhhcCChhhHHHHHHHHHh----CCCCCCCHHH--H-HHHHHHHhhHH--HhhhCCCCCCccch
Q psy13140 48 TFFMLLGKFYPCESCARDFSSLLKL----RPPATSSQRA--L-AGWLCWVHNHI--NQKLGKPQFDCSRL 108 (122)
Q Consensus 48 ~fi~~f~~~~PC~~C~~hf~~~~~~----~p~~v~sr~~--l-~~Wl~~~HN~V--N~rLgKp~~~c~~~ 108 (122)
.+...+-+-..|.+|-.--....+. -||......+ . ..||..+||.+ ......+.|+-..+
T Consensus 110 rL~llle~~CGC~~C~~~~~~L~~~~~~~rpPkl~PHt~~c~a~~~L~~l~n~avl~~~~~vs~~~l~~L 179 (228)
T PF05734_consen 110 RLALLLEDSCGCPECMRTVKGLTKIKGLFRPPKLNPHTKHCYAENFLTSLYNQAVLCNSVSVSEFDLRDL 179 (228)
T ss_pred HHHHHHHHcCCcHHHHHHHHHHHhhhcccCCCCCCCcHhHhHHHHHHHHHHHHHHhcCCCCcchhhHHHH
Confidence 4444445789999998765554432 3555444333 3 47999999987 55556666766654
No 18
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=28.80 E-value=7.6 Score=19.66 Aligned_cols=13 Identities=38% Similarity=1.106 Sum_probs=10.2
Q ss_pred hcCChhhHHHHHH
Q psy13140 56 FYPCESCARDFSS 68 (122)
Q Consensus 56 ~~PC~~C~~hf~~ 68 (122)
+.||+.|.+.|..
T Consensus 2 l~~C~~CgR~F~~ 14 (25)
T PF13913_consen 2 LVPCPICGRKFNP 14 (25)
T ss_pred CCcCCCCCCEECH
Confidence 4689999988854
No 19
>smart00139 MyTH4 Domain in Myosin and Kinesin Tails. Domain present twice in myosin-VIIa, and also present in 3 other myosins.
Probab=28.19 E-value=1e+02 Score=21.98 Aligned_cols=14 Identities=29% Similarity=0.752 Sum_probs=8.1
Q ss_pred hhhHHHHHHhhhcC
Q psy13140 22 QTWGLLHTIAAYYP 35 (122)
Q Consensus 22 alW~llHtla~~~p 35 (122)
-.|.||+.++..+|
T Consensus 84 rgW~Ll~l~~~~Fp 97 (144)
T smart00139 84 RGWELLYLCTSLFP 97 (144)
T ss_pred HHHHHHHHHHhHcC
Confidence 35666666666554
No 20
>TIGR01609 PF_unchar_267 Plasmodium falciparum uncharacterized protein TIGR01609. This model represents a family of at least four proteins in Plasmodium falciparum. An interesting feature is five perfectly conserved Trp residues.
Probab=26.76 E-value=67 Score=23.50 Aligned_cols=22 Identities=36% Similarity=0.602 Sum_probs=19.2
Q ss_pred HHHHHHhhHHHhhhCCCCCCcc
Q psy13140 85 GWLCWVHNHINQKLGKPQFDCS 106 (122)
Q Consensus 85 ~Wl~~~HN~VN~rLgKp~~~c~ 106 (122)
.+|-.+|+.+|+.|.-|.++..
T Consensus 95 KYLe~Vh~~IN~~Lnd~~~sl~ 116 (146)
T TIGR01609 95 KYLRRVHGHINSDLNDPSLTLV 116 (146)
T ss_pred HHHHHHHHHHHHHhcCCCCCHH
Confidence 5678999999999999988774
No 21
>TIGR02701 shell_carb_anhy carboxysome shell carbonic anhydrase. This model describes a carboxysome shell protein that proves to be a novel class, designated epsilon, of carbonic anhydrase. It tends to be encoded near genes for RuBisCo and for other carboxysome shell proteins.
Probab=26.50 E-value=44 Score=28.55 Aligned_cols=90 Identities=18% Similarity=0.348 Sum_probs=59.7
Q ss_pred hhHHHHHHhh---hc-CCCCChHH-HHHHHHHHHHhh----hhcCChhhH-HHHHHHHHhCCC-CCCCHHHHHHHHHHHh
Q psy13140 23 TWGLLHTIAA---YY-PEKPTADE-EREMKTFFMLLG----KFYPCESCA-RDFSSLLKLRPP-ATSSQRALAGWLCWVH 91 (122)
Q Consensus 23 lW~llHtla~---~~-p~~ps~~~-~~~~~~fi~~f~----~~~PC~~C~-~hf~~~~~~~p~-~v~sr~~l~~Wl~~~H 91 (122)
.|.+|.++-. ++ .+.|.... .+.+..|+..-. ..-||..-| .|...|+-+.|. .|..|++-..-|..+.
T Consensus 78 a~cvf~~~~~~s~~f~~~dpl~g~~~~~~~~fl~~CGfH~vdIsPCaDGRL~~~i~yvLRlP~~~Vr~rrs~AGAmFDve 157 (450)
T TIGR02701 78 GYCVFQSFTAMSEQFSRKDPLEGQRSAEAISFLLDCGFHAVDISPCADGRLKGLLPYILRLPLDAVRYRKAYAGAMFDVE 157 (450)
T ss_pred HHHHHHHHHHHHHHhhccCcccchhHHHHHHHHHhcCcceeccccCCCccccccchhheecCchhhcchhhccceeechh
Confidence 5666665543 43 34453322 335566665432 456888777 467777777774 5777999999999999
Q ss_pred hHHHhhhCCCCCCccchHhhhcCCCCCC
Q psy13140 92 NHINQKLGKPQFDCSRLDERWRDGWDDG 119 (122)
Q Consensus 92 N~VN~rLgKp~~~c~~~~~rw~~g~~~~ 119 (122)
|.||.+..-+ .+||+.|.+..
T Consensus 158 ~~V~~W~~~E-------~~R~Reg~Pn~ 178 (450)
T TIGR02701 158 ADVARWIKTE-------LRRYREGVPNS 178 (450)
T ss_pred hhhhhhhHHH-------HHHhhcCCCCC
Confidence 9999987432 46888887754
No 22
>PHA00616 hypothetical protein
Probab=24.74 E-value=43 Score=19.52 Aligned_cols=14 Identities=29% Similarity=0.619 Sum_probs=11.1
Q ss_pred cCChhhHHHHHHHH
Q psy13140 57 YPCESCARDFSSLL 70 (122)
Q Consensus 57 ~PC~~C~~hf~~~~ 70 (122)
|.|..|+.-|.+.-
T Consensus 2 YqC~~CG~~F~~~s 15 (44)
T PHA00616 2 YQCLRCGGIFRKKK 15 (44)
T ss_pred CccchhhHHHhhHH
Confidence 67999999986544
No 23
>PF10036 RLL: Putative carnitine deficiency-associated protein; InterPro: IPR019265 This family of proteins conserved from nematodes to humans is of approximately 250 amino acids. It is purported to be carnitine deficiency-associated protein but this could not be confirmed. It carries a characteristic RLL sequence-motif. The function is unknown.
Probab=24.58 E-value=2.2e+02 Score=22.24 Aligned_cols=58 Identities=28% Similarity=0.472 Sum_probs=36.9
Q ss_pred hhhcC--CCCChHHHHHHHHHHHHh----hhhcCChhh-----------HHHHHHHHHhC--CCCCCCHHHHHHHHH
Q psy13140 31 AAYYP--EKPTADEEREMKTFFMLL----GKFYPCESC-----------ARDFSSLLKLR--PPATSSQRALAGWLC 88 (122)
Q Consensus 31 a~~~p--~~ps~~~~~~~~~fi~~f----~~~~PC~~C-----------~~hf~~~~~~~--p~~v~sr~~l~~Wl~ 88 (122)
|..|| +..+..+...++.+|-.+ +++||=++- ..+|.+|++.. |....++.+.+.||-
T Consensus 8 aL~Yp~~~~~n~~d~~~fr~lVvWLEDqKIR~Y~iedR~~LR~i~s~~W~~~~~kYl~dl~cP~~~~~~~~~ldWLL 84 (249)
T PF10036_consen 8 ALGYPKPDSFNIDDEEEFRSLVVWLEDQKIRHYKIEDREKLRNIDSSDWPKAFEKYLKDLGCPFSSESRQEQLDWLL 84 (249)
T ss_pred HcCCCCCCCCCCCCHHHHHHHHHHHhhhhhccCCHhhHHHHhcCCcchHHHHHHHHHHhcCCCCcchhHHHHHHHHH
Confidence 45677 223333444444443333 467877664 35799999764 457899999999997
No 24
>KOG2923|consensus
Probab=23.06 E-value=12 Score=23.84 Aligned_cols=12 Identities=42% Similarity=1.331 Sum_probs=9.4
Q ss_pred hhcCChhhHHHHH
Q psy13140 55 KFYPCESCARDFS 67 (122)
Q Consensus 55 ~~~PC~~C~~hf~ 67 (122)
.+|||+ |++.|+
T Consensus 21 y~yPCp-CGDrf~ 32 (67)
T KOG2923|consen 21 YYYPCP-CGDRFQ 32 (67)
T ss_pred EEcCCC-CCCeee
Confidence 579996 888875
No 25
>PF10906 DUF2697: Protein of unknown function (DUF2697); InterPro: IPR020301 This entry contains proteins with no known function.
Probab=21.03 E-value=85 Score=20.03 Aligned_cols=18 Identities=11% Similarity=0.233 Sum_probs=14.7
Q ss_pred HHHHHHHHHHhhHHHhhh
Q psy13140 81 RALAGWLCWVHNHINQKL 98 (122)
Q Consensus 81 ~~l~~Wl~~~HN~VN~rL 98 (122)
..+-.|.-++|+.||.--
T Consensus 12 pgFhrfVR~Ih~kVN~I~ 29 (68)
T PF10906_consen 12 PGFHRFVRRIHAKVNGIK 29 (68)
T ss_pred hhHHHHHHHHHHHHhCCC
Confidence 356689999999999864
No 26
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=20.72 E-value=2.5e+02 Score=18.07 Aligned_cols=30 Identities=13% Similarity=0.319 Sum_probs=19.7
Q ss_pred hhhhHHHHHHhhhc-CCCCChHHHHHHHHHH
Q psy13140 21 YQTWGLLHTIAAYY-PEKPTADEEREMKTFF 50 (122)
Q Consensus 21 ~alW~llHtla~~~-p~~ps~~~~~~~~~fi 50 (122)
-..|.+||+.+-.- ...-+.++.+.+.+..
T Consensus 18 ap~wl~lHY~~k~~~~~~ls~~d~~~L~~L~ 48 (75)
T TIGR02976 18 APLWLILHYRSKRKTAASLSTDDQALLQELY 48 (75)
T ss_pred HHHHHHHHHHhhhccCCCCCHHHHHHHHHHH
Confidence 36899999998753 3345666665555543
No 27
>smart00355 ZnF_C2H2 zinc finger.
Probab=20.20 E-value=33 Score=15.73 Aligned_cols=11 Identities=36% Similarity=1.120 Sum_probs=7.4
Q ss_pred cCChhhHHHHH
Q psy13140 57 YPCESCARDFS 67 (122)
Q Consensus 57 ~PC~~C~~hf~ 67 (122)
|.|..|...|.
T Consensus 1 ~~C~~C~~~f~ 11 (26)
T smart00355 1 YRCPECGKVFK 11 (26)
T ss_pred CCCCCCcchhC
Confidence 45777777664
No 28
>PF00784 MyTH4: MyTH4 domain; InterPro: IPR000857 The microtubule-based kinesin motors and actin-based myosin motors generate movements required for intracellular trafficking, cell division, and muscle contraction. In general, these proteins consist of a motor domain that generates movement and a tail region that varies widely from class to class and is thought to mediate many of the regulatory or cargo binding functions specific to each class of motor []. The Myosin Tail Homology 4 (MyTH4) domain has been identified as a conserved domain in the tail domains of several different unconventional myosins [] and a plant kinesin-like protein [], but has more recently been found in several non-motor proteins []. Although the function is not yet fully understood, there is an evidence that the MyTH4 domain of Myosin-X (Myo10) binds to microtubules and thus could provide a link between an actin-based motor protein and the microtubule cytoskeleton []. The MyTH4 domain is found in one or two copies associated with other domains, such as myosin head, kinesin motor, FERM, PH, SH3 and IQ. The domain is predicted to be largely alpha-helical, interrupted by three or four turns. The MyTH4 domain contains four highly conserved regions designated MGD (consensus sequence L(K/R)(F/Y)MGDhP, LRDE (consensus LRDEhYCQhhKQHxxxN), RGW (consensus RGWxLh), and ELEA (RxxPPSxhELEA), where h indicates a hydrophobic residue and x is any residue [].; GO: 0005856 cytoskeleton; PDB: 3AU5_A 3AU4_A 3PZD_A 3PVL_A.
Probab=20.07 E-value=65 Score=21.68 Aligned_cols=31 Identities=19% Similarity=0.373 Sum_probs=17.4
Q ss_pred chhhhHHHHHHhhhcCCCCChHHHHHHHHHHHH
Q psy13140 20 GYQTWGLLHTIAAYYPEKPTADEEREMKTFFML 52 (122)
Q Consensus 20 G~alW~llHtla~~~p~~ps~~~~~~~~~fi~~ 52 (122)
-.-.|.||+.++..+|-.. .-..-+..|+..
T Consensus 40 ~~r~W~Ll~~~~~~f~PS~--~l~~yL~~fl~~ 70 (114)
T PF00784_consen 40 CIRGWQLLALCCSCFPPSK--DLLPYLRNFLNR 70 (114)
T ss_dssp HHHHHHHHHHHCCC----C--CCHHHHHHHHHC
T ss_pred HHHHHHHHHHHHhhcCCcH--HHHHHHHHHHHH
Confidence 3458999999999887433 333444555543
Done!