Query 032121
Match_columns 147
No_of_seqs 123 out of 184
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 09:52:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032121.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032121hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04755 PAP_fibrillin: PAP_fi 99.8 1.8E-19 3.9E-24 141.1 10.3 93 3-105 43-137 (198)
2 PF14869 DUF4488: Domain of un 64.6 59 0.0013 25.3 7.9 59 10-89 3-63 (133)
3 TIGR03067 Planc_TIGR03067 Plan 36.3 18 0.00038 26.4 0.9 18 6-23 3-20 (107)
4 PF05015 Plasmid_killer: Plasm 35.8 22 0.00048 25.1 1.3 13 10-22 69-81 (93)
5 PF14155 DUF4307: Domain of un 27.1 86 0.0019 23.1 3.3 18 80-97 38-55 (112)
6 PF02630 SCO1-SenC: SCO1/SenC; 27.0 30 0.00064 26.8 0.8 26 2-27 42-70 (174)
7 cd01493 APPBP1_RUB Ubiquitin a 21.3 1.1E+02 0.0023 27.7 3.3 47 100-146 261-315 (425)
8 COG1999 Uncharacterized protei 19.5 66 0.0014 25.9 1.5 23 2-24 57-82 (207)
9 cd04755 Commd7 COMM_Domain con 18.4 1.4E+02 0.0031 24.1 3.2 47 9-67 116-163 (180)
10 COG3041 Uncharacterized protei 17.1 85 0.0018 23.0 1.5 12 10-21 62-73 (91)
No 1
>PF04755 PAP_fibrillin: PAP_fibrillin; InterPro: IPR006843 This family identifies a conserved domain found in a number of plastid lipid-associated proteins (PAPs) that are thought to form together with other plastoglobulins a coat on the surface of the lipoprotein particle. The coat may contain receptors for attachment to the thylakoid membrane as well as regulatory proteins that may function in the transfer of lipids to and from the thylakoid membranes.). This entry also represents a number of putative fibrillin proteins.; GO: 0005198 structural molecule activity, 0009507 chloroplast
Probab=99.81 E-value=1.8e-19 Score=141.10 Aligned_cols=93 Identities=38% Similarity=0.673 Sum_probs=80.8
Q ss_pred CCCCc-cCCCceEEEEEecchhhHHHHHhhccCCceeeeeeeEEEeeecCCCCceEEEEEEecC-CccccccCceeEEEE
Q 032121 3 EPIDL-VKLDGTWRLQYTSAPDVLVLFEAAARLPFFKVGQIFQKFECRDKSDGGVICNVVRWSV-PPLLEKEEGATLVVS 80 (147)
Q Consensus 3 ~~l~~-~lL~G~WrLlYTTa~ell~ll~a~~~lP~v~vG~IyQ~ID~~~~~~~~~v~Nvv~~~~-P~~~~~~~G~~l~V~ 80 (147)
+|++. ++|+|+|+|+|||+.+..+.++. +++|++++|+|||+|| .+++++.|+++|.. |.. +| .+.|+
T Consensus 43 ~p~~s~~~L~G~W~Lvytt~~~~~~~l~~-~~~~~~~~~~v~Q~id----~~~~~~~N~v~~~~~~~~----~~-~~~v~ 112 (198)
T PF04755_consen 43 DPADSLPLLDGRWELVYTTSPEIRSLLQR-GRLPGVRVGRVFQTID----ADNGRVENVVELSGFPLL----EG-SVSVR 112 (198)
T ss_pred CCcCCchhcCcEEEEEeecCCCccccccc-cccccccccceEEEEE----CCCceEEEEEEEeccCce----EE-EEEEE
Confidence 45666 89999999999999999987764 6778899999999999 55889999999875 543 34 89999
Q ss_pred EEEEEcCCceEEEEEEEEEEecccc
Q 032121 81 AKFDVVSVRNIYLQFEEVTVQNIYI 105 (147)
Q Consensus 81 A~fev~s~~RV~v~Fe~~~v~~~~i 105 (147)
|++++.+++|+.++|+++.++...+
T Consensus 113 a~~~~~~~~rv~v~f~~~~l~~~~~ 137 (198)
T PF04755_consen 113 ASLEVRSPRRVEVTFERASLKPPSL 137 (198)
T ss_pred EEEEEccccEEEEEEEeeEEcccce
Confidence 9999999999999999999988776
No 2
>PF14869 DUF4488: Domain of unknown function (DUF4488)
Probab=64.57 E-value=59 Score=25.31 Aligned_cols=59 Identities=24% Similarity=0.463 Sum_probs=40.7
Q ss_pred CCceEEEE-EecchhhHHHHHhhccCCc-eeeeeeeEEEeeecCCCCceEEEEEEecCCccccccCceeEEEEEEEEEcC
Q 032121 10 LDGTWRLQ-YTSAPDVLVLFEAAARLPF-FKVGQIFQKFECRDKSDGGVICNVVRWSVPPLLEKEEGATLVVSAKFDVVS 87 (147)
Q Consensus 10 L~G~WrLl-YTTa~ell~ll~a~~~lP~-v~vG~IyQ~ID~~~~~~~~~v~Nvv~~~~P~~~~~~~G~~l~V~A~fev~s 87 (147)
|.|-|++. |-+.. ...|+ ++.+.++-.+. +++++.|+.-.. . .|+.++...+|+..|
T Consensus 3 l~GVWQ~c~~~~~~---------~~~~g~l~~~~~lKilS-----~Dgtf~Ni~~~~--~-----~~aiIt~~GtY~~~s 61 (133)
T PF14869_consen 3 LQGVWQLCHYVSES---------PEVPGKLKPSNVLKILS-----DDGTFVNITMIP--K-----SGAIITGYGTYEQPS 61 (133)
T ss_pred ceEEEEEEEEeecC---------cccCceEeecccEEEEc-----CCCcEEEEEEeC--C-----CCcEEEEeEEEEEcC
Confidence 78999999 44433 12333 56677777554 588999988743 2 346788888999988
Q ss_pred Cc
Q 032121 88 VR 89 (147)
Q Consensus 88 ~~ 89 (147)
+.
T Consensus 62 D~ 63 (133)
T PF14869_consen 62 DN 63 (133)
T ss_pred Cc
Confidence 76
No 3
>TIGR03067 Planc_TIGR03067 Planctomycetes uncharacterized domain TIGR03067. This domain occurs in several species, mostly from the Planctomycetes division of the bacteria. It is expanded into a paralogous family of at least twenty-five members in Gemmata obscuriglobus UQM 2246. This family appears related to TIGR03066, which also is expanded into a large paralogous family in Gemmata obscuriglobus.
Probab=36.25 E-value=18 Score=26.44 Aligned_cols=18 Identities=39% Similarity=0.702 Sum_probs=15.2
Q ss_pred CccCCCceEEEEEecchh
Q 032121 6 DLVKLDGTWRLQYTSAPD 23 (147)
Q Consensus 6 ~~~lL~G~WrLlYTTa~e 23 (147)
|++.|+|+|+++......
T Consensus 3 dl~~LqG~W~~v~~e~~G 20 (107)
T TIGR03067 3 DLEKLQGTWKVVAAEKGG 20 (107)
T ss_pred hHHhhCcEEEEEEEEeCC
Confidence 678999999999877753
No 4
>PF05015 Plasmid_killer: Plasmid maintenance system killer protein; InterPro: IPR007711 Several plasmids with proteic killer gene systems have been reported. All of them encode a stable toxin and an unstable antidote. Upon loss of the plasmid, the less stable inhibitor is inactivated more rapidly than the toxin, allowing the toxin to be activated. The activation of those systems result in cell filamentation and cessation of viable cell production. It has been verified that both the stable killer and the unstable inhibitor of the systems are short polypeptides. This family corresponds to the toxin.
Probab=35.83 E-value=22 Score=25.09 Aligned_cols=13 Identities=31% Similarity=0.884 Sum_probs=10.1
Q ss_pred CCceEEEEEecch
Q 032121 10 LDGTWRLQYTSAP 22 (147)
Q Consensus 10 L~G~WrLlYTTa~ 22 (147)
++|+|||+|.-..
T Consensus 69 i~~~~RliF~~~~ 81 (93)
T PF05015_consen 69 INGNWRLIFRFED 81 (93)
T ss_pred eCCCEEEEEEEeC
Confidence 6789999987543
No 5
>PF14155 DUF4307: Domain of unknown function (DUF4307)
Probab=27.08 E-value=86 Score=23.05 Aligned_cols=18 Identities=22% Similarity=0.399 Sum_probs=14.0
Q ss_pred EEEEEEcCCceEEEEEEE
Q 032121 80 SAKFDVVSVRNIYLQFEE 97 (147)
Q Consensus 80 ~A~fev~s~~RV~v~Fe~ 97 (147)
...|++.++.+++|+|+=
T Consensus 38 ~~gf~vv~d~~v~v~f~V 55 (112)
T PF14155_consen 38 VIGFEVVDDSTVEVTFDV 55 (112)
T ss_pred EEEEEECCCCEEEEEEEE
Confidence 467888888888888863
No 6
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=26.98 E-value=30 Score=26.79 Aligned_cols=26 Identities=42% Similarity=0.772 Sum_probs=19.4
Q ss_pred CCCCCccCCCceEEEE---EecchhhHHH
Q 032121 2 GEPIDLVKLDGTWRLQ---YTSAPDVLVL 27 (147)
Q Consensus 2 ~~~l~~~lL~G~WrLl---YTTa~ell~l 27 (147)
|.+.+++.+.|+|.|+ ||+=+++=+.
T Consensus 42 G~~~~~~~~~Gk~~lv~F~yT~CpdvCp~ 70 (174)
T PF02630_consen 42 GKTVTLDDLKGKWVLVFFGYTRCPDVCPT 70 (174)
T ss_dssp SSEEEGGGGTTSEEEEEEE-TTSSSHHHH
T ss_pred CCEecHHHhCCCeEEEEEEEcCCCccCHH
Confidence 6778889999999987 4566665444
No 7
>cd01493 APPBP1_RUB Ubiquitin activating enzyme (E1) subunit APPBP1. APPBP1 is part of the heterodimeric activating enzyme (E1), specific for the Rub family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin(-like) by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by Rub family of ubiquitin-like proteins (Ublps) activates SCF ubiquitin ligases and is involved in cell cycle control, signaling and embryogenesis. ABPP1 contains part of the adenylation domain.
Probab=21.29 E-value=1.1e+02 Score=27.71 Aligned_cols=47 Identities=13% Similarity=0.289 Sum_probs=30.1
Q ss_pred EecccccHHHHHhhcc----ccCCcchhhHHHHHHHhhc----cccceecCCCCC
Q 032121 100 VQNIYISEELQALIAP----AILPRSFLSLQILQFIRAF----KAQIPVTNTTPG 146 (147)
Q Consensus 100 v~~~~is~~le~l~a~----~~lpr~~l~~q~l~~~~~~----~~~~p~~~~~~~ 146 (147)
+.+..|++++++++-- -+.+.+.-=.-++.|||+| ....||.|.+|-
T Consensus 261 ~~~~~i~~~v~~~~~~~~~~~~~~~~~~fwi~~~alk~F~~~~~g~lPl~G~lPD 315 (425)
T cd01493 261 LNRTKIPSSVEEIFNDDRCENLTSQSSSFWIMARALKEFVAEENGLLPLPGTLPD 315 (425)
T ss_pred hCCCCCcHHHHHHHhchhcccCCCCCchHHHHHHHHHHHHHhcCCCCCCCCCCCC
Confidence 5566788888887621 1222222222378899999 345999999983
No 8
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=19.48 E-value=66 Score=25.88 Aligned_cols=23 Identities=43% Similarity=0.743 Sum_probs=19.1
Q ss_pred CCCCCccCCCceEEEEE---ecchhh
Q 032121 2 GEPIDLVKLDGTWRLQY---TSAPDV 24 (147)
Q Consensus 2 ~~~l~~~lL~G~WrLlY---TTa~el 24 (147)
|++.++..|.|+|.|+| |+=+++
T Consensus 57 G~~~~~~~l~Gk~~lv~FgyT~CpdV 82 (207)
T COG1999 57 GKPFTLKDLKGKPSLVFFGYTHCPDV 82 (207)
T ss_pred CCEeeccccCCCEEEEEeecCCCCcc
Confidence 78889999999999985 666664
No 9
>cd04755 Commd7 COMM_Domain containing protein 7. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=18.38 E-value=1.4e+02 Score=24.08 Aligned_cols=47 Identities=19% Similarity=0.358 Sum_probs=30.0
Q ss_pred CCCceEEEEEecchhhHHHHHhhccCCceeeeeeeEEEeeecCCCCceEEEE-EEecCCc
Q 032121 9 KLDGTWRLQYTSAPDVLVLFEAAARLPFFKVGQIFQKFECRDKSDGGVICNV-VRWSVPP 67 (147)
Q Consensus 9 lL~G~WrLlYTTa~ell~ll~a~~~lP~v~vG~IyQ~ID~~~~~~~~~v~Nv-v~~~~P~ 67 (147)
+.|=.||+=||.+++...=+ +-|+++++=.. | +++..+++ .+++.|-
T Consensus 116 L~d~~Wr~~~~~sSS~~~~~----~~p~vqLkl~~---~-----~~~~~e~v~~E~t~~q 163 (180)
T cd04755 116 LVDMEWKFGVTAGSSELQKV----GSIFLQLKLVV---R-----KGNQTENVYMELTLPQ 163 (180)
T ss_pred cccccceeeeEecchhhhhc----CCcEEEEEEEe---c-----CCCCceeEEEEEcHHH
Confidence 44557999999999765443 33888866533 2 24445676 5676553
No 10
>COG3041 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=17.11 E-value=85 Score=23.00 Aligned_cols=12 Identities=25% Similarity=0.274 Sum_probs=9.9
Q ss_pred CCceEEEEEecc
Q 032121 10 LDGTWRLQYTSA 21 (147)
Q Consensus 10 L~G~WrLlYTTa 21 (147)
+.+.|.|+||=.
T Consensus 62 i~pD~lLIY~v~ 73 (91)
T COG3041 62 IKPDLLLIYTVK 73 (91)
T ss_pred cCCCEEEEEEEe
Confidence 467899999977
Done!