Query 032647
Match_columns 136
No_of_seqs 105 out of 154
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 04:08:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032647.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032647hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2491 Nuclear matrix protein 100.0 2.5E-45 5.5E-50 316.6 6.1 134 2-135 352-493 (674)
2 PF11957 efThoc1: THO complex 100.0 6.7E-36 1.5E-40 257.6 8.4 132 3-135 291-434 (491)
3 cd08786 CARD_RIP2_CARD3 Caspas 70.3 4.5 9.8E-05 27.6 2.4 29 8-36 46-74 (87)
4 PF12872 OST-HTH: OST-HTH/LOTU 65.1 6.2 0.00013 24.9 2.2 48 5-52 3-51 (74)
5 PF02697 DUF217: Uncharacteriz 41.8 21 0.00046 23.4 1.9 36 9-44 7-42 (71)
6 PF07007 DUF1311: Protein of u 40.8 43 0.00094 21.3 3.3 41 2-49 24-64 (95)
7 KOG1593 Asparaginase [Amino ac 32.7 22 0.00047 29.8 1.0 17 38-54 153-170 (349)
8 PF07742 BTG: BTG family; Int 31.2 91 0.002 22.3 3.9 35 1-35 1-39 (118)
9 PHA02844 putative transmembran 31.1 27 0.00058 23.4 1.0 21 17-37 14-34 (75)
10 PF06253 MTTB: Trimethylamine 29.8 22 0.00048 31.6 0.6 41 11-52 415-466 (505)
11 PF08785 Ku_PK_bind: Ku C term 29.5 1.2E+02 0.0026 21.4 4.3 35 2-38 21-56 (120)
12 PHA02650 hypothetical protein; 28.7 29 0.00064 23.5 0.9 21 17-37 14-34 (81)
13 PF09454 Vps23_core: Vps23 cor 28.1 1.7E+02 0.0036 18.7 5.3 39 5-44 24-62 (65)
14 PRK13696 hypothetical protein; 28.1 46 0.00099 21.5 1.7 25 9-34 9-33 (62)
15 PF13801 Metal_resist: Heavy-m 26.6 1.2E+02 0.0026 20.0 3.8 34 2-35 65-98 (125)
16 cd08806 CARD_CARD14_CARMA2 Cas 26.6 89 0.0019 21.5 3.0 20 12-31 55-75 (86)
17 COG3682 Predicted transcriptio 22.8 96 0.0021 22.6 2.8 46 4-49 3-62 (123)
18 PF11888 DUF3408: Protein of u 22.7 1.2E+02 0.0027 21.8 3.4 30 6-35 87-116 (136)
19 PF10557 Cullin_Nedd8: Cullin 22.6 1.7E+02 0.0037 18.4 3.7 32 6-37 26-58 (68)
20 PF15469 Sec5: Exocyst complex 22.5 1.8E+02 0.0039 21.6 4.4 33 3-35 135-167 (182)
21 PF11350 DUF3152: Protein of u 22.0 56 0.0012 25.9 1.5 18 24-41 50-67 (203)
22 PF15508 NAAA-beta: beta subun 21.7 2.5E+02 0.0055 18.8 4.6 32 2-34 26-57 (95)
23 smart00099 btg1 tob/btg1 famil 20.6 2.2E+02 0.0047 20.3 4.2 35 1-35 1-39 (108)
24 PF03965 Penicillinase_R: Peni 20.6 49 0.0011 22.9 0.8 17 5-21 1-17 (115)
25 PF13619 KTSC: KTSC domain 20.4 1.2E+02 0.0025 18.7 2.5 22 10-31 35-56 (60)
26 PF11547 E3_UbLigase_EDD: E3 u 20.2 2.3E+02 0.005 17.5 3.9 28 8-38 24-51 (53)
No 1
>KOG2491 consensus Nuclear matrix protein [Nuclear structure]
Probab=100.00 E-value=2.5e-45 Score=316.64 Aligned_cols=134 Identities=45% Similarity=0.753 Sum_probs=124.1
Q ss_pred hhHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhhhchHHhHhcCCCCcccccchhhhhccCCCCCC--------CCCC
Q 032647 2 KEEMKSCEERVKKLLEMTPPKGKDFLHSIEHILEREKNWVWWKRDGCPPFEKQSMEKKAVQDGPKKRR--------PRWR 73 (136)
Q Consensus 2 ~~~i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~RE~nWv~WK~egCp~fek~~~~~~~~~~~~~krr--------~~~~ 73 (136)
.+.|++|+++||+||..|||+|..|.++|+|||.||+||+.|||+|||+|+++|...+.+....+||| .++.
T Consensus 352 a~~l~e~e~~vYklL~~Tpp~G~~f~r~v~hIl~rE~nWn~WKn~GCp~feK~p~~Dk~p~~~~kkr~~~l~~~p~~r~~ 431 (674)
T KOG2491|consen 352 ALWLKECEKRVYKLLEETPPDGKRFSRTVEHILNREENWNSWKNEGCPSFEKEPTSDKKPTRIIKKRRAFLGKGPTKRFL 431 (674)
T ss_pred HHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHHHhhhhhhhcCCcccccCCccccccchhhhhccccccCCccccee
Confidence 46899999999999999999999999999999999999999999999999998886554433445555 3678
Q ss_pred CCChhHHhHHhhCCCCCccCCccccccCCCHHHhhhhhhhcCCCCCCccccccccCCcCccc
Q 032647 74 LGNKELSQLWKWADQNPNALTDPQRVRTPAITEYWKPLADDMDPSAGIEAEYHHKNSRVSFG 135 (136)
Q Consensus 74 ~G~~eLt~Lwn~~~dnl~~lk~~~r~~~Psl~~f~~~~~e~~DPe~~ieeeyk~~nd~~~~~ 135 (136)
|||++||+|||++||||+|||+..|+++|+|++|++..+++||||+|||+|||+.||.+|||
T Consensus 432 lGN~eLtrLW~~apdNl~acKseqR~~iP~le~fl~~~~ek~Dpe~~vedeyh~~n~s~~~W 493 (674)
T KOG2491|consen 432 LGNEELTRLWNLAPDNLEACKSEQRERIPTLEDFLEEPAEKMDPENMVEDEYHAQNNSAYGW 493 (674)
T ss_pred cCCHHHHHHHHhCCccHHHHhHHHhhcCCCHHHHhhchHhhcCHHHhhHHHHHHhhhhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999998
No 2
>PF11957 efThoc1: THO complex subunit 1 transcription elongation factor; InterPro: IPR021861 The THO complex is a nuclear complex that is required for transcription elongation through genes containing tandemly repeated DNA sequences. The THO complex is also part of the TREX (TRanscription EXport) complex that is involved in coupling transcription to export of mRNAs to the cytoplasm.
Probab=100.00 E-value=6.7e-36 Score=257.62 Aligned_cols=132 Identities=44% Similarity=0.809 Sum_probs=118.2
Q ss_pred hHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhhhchHHhHhcCCCCcccccchhhhhcc---CCCCC-----CCCCCC
Q 032647 3 EEMKSCEERVKKLLEMTPPKGKDFLHSIEHILEREKNWVWWKRDGCPPFEKQSMEKKAVQD---GPKKR-----RPRWRL 74 (136)
Q Consensus 3 ~~i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~RE~nWv~WK~egCp~fek~~~~~~~~~~---~~~kr-----r~~~~~ 74 (136)
.-|++++.+|+++|++|+|+|++|++||++||+||+||++||++|||+|+++ ++...... ..+|+ ..+++|
T Consensus 291 ~wi~~~~~~v~~~L~~~~p~G~~F~~~v~~iL~rE~nW~~WK~~gCp~fe~~-~~~~~~~~~~~~~~K~~~~~~~~~~~m 369 (491)
T PF11957_consen 291 KWIKETKKRVYKLLKETPPDGPQFARMVEHILEREKNWVRWKNEGCPPFEKP-VSPESVPEAKESFKKRGFPKRPRKIKM 369 (491)
T ss_pred HHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHcCCCCcccc-cCccccccccchhhhhccccccccCCC
Confidence 4589999999999999999999999999999999999999999999999999 54432211 12222 234899
Q ss_pred CChhHHhHHhhCCCC-CccCCccccccCCCHHHhhhhhhh---cCCCCCCccccccccCCcCccc
Q 032647 75 GNKELSQLWKWADQN-PNALTDPQRVRTPAITEYWKPLAD---DMDPSAGIEAEYHHKNSRVSFG 135 (136)
Q Consensus 75 G~~eLt~Lwn~~~dn-l~~lk~~~r~~~Psl~~f~~~~~e---~~DPe~~ieeeyk~~nd~~~~~ 135 (136)
||++|++|||.+++| |++|+++.|+++|++++|++++++ +|||++++|++|+++|+.+|+|
T Consensus 370 Gn~~Ls~LW~~~~~~gL~~lk~~~r~~~p~le~f~~~~~~~~~~~d~~~~~e~e~~~~~~~~~~W 434 (491)
T PF11957_consen 370 GNPELSRLWNLKPDNGLEALKDPERYFLPSLESFFEEIIEDKFEMDPENQIEKEYKPENKAVKQW 434 (491)
T ss_pred CChhHHHHhCCCCcchHHHHhcccccCCCCHHHHHHHHHHhHHhcCcccChhHHHHHhcchhhHH
Confidence 999999999999998 999999999999999999999999 9999999999999999999998
No 3
>cd08786 CARD_RIP2_CARD3 Caspase activation and recruitment domain of Receptor Interacting Protein 2. Caspase activation and recruitment domain (CARD) of Receptor Interacting Protein 2 (RIP2/RIPK2/RICK/CARDIAK/CARD3). RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP2 harbors a C-terminal CARD domain and functions as an effector kinase downstream of the pattern recognition receptors from the Nod-like (NLR)-family, NOD1 and NOD2, which recognizes bacterial peptidoglycans released upon infection. This cascade is implicated in inflammatory immune responses and the clearance of intracellular pathogens. RIP2 associates with NOD1 and NOD2 via CARD-CARD interactions. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein
Probab=70.29 E-value=4.5 Score=27.61 Aligned_cols=29 Identities=21% Similarity=0.422 Sum_probs=26.3
Q ss_pred HHHHHHHHHHhCCCChHHHHHHHHHHHHh
Q 032647 8 CEERVKKLLEMTPPKGKDFLHSIEHILER 36 (136)
Q Consensus 8 ~~~~v~~lL~~t~p~G~~F~~~V~~IL~R 36 (136)
.+++|.+||-.+-+.|..|++.|-+.|.-
T Consensus 46 ~t~K~R~LLDt~~~~ge~~~qivV~~l~~ 74 (87)
T cd08786 46 RTSKVRQLLDTCDCQGEEFARVVVQKLKD 74 (87)
T ss_pred hHHHHHHHHHHHHhcccHHHHHHHHHhhc
Confidence 57899999999999999999999998863
No 4
>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A.
Probab=65.07 E-value=6.2 Score=24.94 Aligned_cols=48 Identities=13% Similarity=0.101 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhhhchHHhHhcCCCCcc
Q 032647 5 MKSCEERVKKLLEMTPP-KGKDFLHSIEHILEREKNWVWWKRDGCPPFE 52 (136)
Q Consensus 5 i~~~~~~v~~lL~~t~p-~G~~F~~~V~~IL~RE~nWv~WK~egCp~fe 52 (136)
++.+...|.++|.+..+ +|......|...+.+.-..-..+.-||.++.
T Consensus 3 ~~~~~~~l~~ll~~~~~~~g~v~ls~l~~~~~~~~~~f~~~~yG~~~l~ 51 (74)
T PF12872_consen 3 LEELKKLLRELLESQKGEDGWVSLSQLGQEYKKKYPDFDPRDYGFSSLS 51 (74)
T ss_dssp -HHHHHHHHHHHHHTCTTTSSEEHHHHHHHHHHHHTT--TCCTTSSSHH
T ss_pred HHHHHHHHHHHHHhCcCCCceEEHHHHHHHHHHHCCCCCccccCCCcHH
Confidence 56788899999966665 6767777777777766688888999998874
No 5
>PF02697 DUF217: Uncharacterized ACR, COG1753; InterPro: IPR003847 This entry is represented by Natrialba phage PhiCh1, Orf96. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=41.80 E-value=21 Score=23.43 Aligned_cols=36 Identities=22% Similarity=0.268 Sum_probs=28.3
Q ss_pred HHHHHHHHHhCCCChHHHHHHHHHHHHhhhchHHhH
Q 032647 9 EERVKKLLEMTPPKGKDFLHSIEHILEREKNWVWWK 44 (136)
Q Consensus 9 ~~~v~~lL~~t~p~G~~F~~~V~~IL~RE~nWv~WK 44 (136)
.+.||.-|...--+|..|...|..+|.++.+=..+.
T Consensus 7 sdevY~rL~~~K~~~eSFSdvI~rli~~~~~~~~l~ 42 (71)
T PF02697_consen 7 SDEVYERLKKLKREDESFSDVIERLIEKEKKRRDLM 42 (71)
T ss_pred cHHHHHHHHHHhcCCCCHHHHHHHHHhcccchhHHH
Confidence 467899999887899999999999999544444443
No 6
>PF07007 DUF1311: Protein of unknown function (DUF1311); InterPro: IPR009739 This family consists of several bacterial proteins of around 120 residues in length. Members of this family contain four highly conserved cysteine residues. The function of this family is unknown.; PDB: 3GI7_A.
Probab=40.84 E-value=43 Score=21.33 Aligned_cols=41 Identities=15% Similarity=0.390 Sum_probs=30.6
Q ss_pred hhHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhhhchHHhHhcCCC
Q 032647 2 KEEMKSCEERVKKLLEMTPPKGKDFLHSIEHILEREKNWVWWKRDGCP 49 (136)
Q Consensus 2 ~~~i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~RE~nWv~WK~egCp 49 (136)
+.+|..+...+.+.|.+... .+..+..=-+.|.+|.+..|-
T Consensus 24 d~~l~~~y~~~~~~l~~~~~-------~~~~l~~~Q~~W~~~r~~~C~ 64 (95)
T PF07007_consen 24 DKELNKAYKALLKRLKQEER-------ARKALKESQRAWLKYRDAECA 64 (95)
T ss_dssp HHHHHHHHHHHHHHHHS----------HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHHhhH-------HHHHHHHHHHHHHHHHHHHHh
Confidence 45777777788877774322 667777788999999999996
No 7
>KOG1593 consensus Asparaginase [Amino acid transport and metabolism]
Probab=32.68 E-value=22 Score=29.76 Aligned_cols=17 Identities=41% Similarity=0.964 Sum_probs=13.6
Q ss_pred hchHHhHhcCC-CCcccc
Q 032647 38 KNWVWWKRDGC-PPFEKQ 54 (136)
Q Consensus 38 ~nWv~WK~egC-p~fek~ 54 (136)
..|..||.++| |.|-|.
T Consensus 153 ~~~s~W~~~nCQPNfwkN 170 (349)
T KOG1593|consen 153 SWWSDWKAENCQPNFWKN 170 (349)
T ss_pred HHHHHHHHhcCCcchhcc
Confidence 46999999999 566554
No 8
>PF07742 BTG: BTG family; InterPro: IPR002087 Anti-proliferative proteins have been shown to include mammalian and avian protein BTG1 (which appears to be involved in negative regulation of cell proliferation) and rat/mouse NGF-inducible protein PC3/TIS21 (BTG2) [, , ]. These proteins have from 158 to 363 amino acid residues, that are highly similar and include 3 conserved cysteine residues. BTG2 seems to have a signal sequence; while the other proteins may lack such a domain. The sequence of the N-terminal half of these proteins is well conserved.; PDB: 3DJU_B 3E9V_A 2Z15_D 2D5R_B 3DJN_B.
Probab=31.18 E-value=91 Score=22.32 Aligned_cols=35 Identities=26% Similarity=0.380 Sum_probs=29.8
Q ss_pred ChhHHHHHHHHHHHHHHhC--CC--ChHHHHHHHHHHHH
Q 032647 1 MKEEMKSCEERVKKLLEMT--PP--KGKDFLHSIEHILE 35 (136)
Q Consensus 1 ~~~~i~~~~~~v~~lL~~t--~p--~G~~F~~~V~~IL~ 35 (136)
|+.||+.+..-+.++|... -| .-..|++.+..+|.
T Consensus 1 M~~EI~~av~Fl~~~l~~~~~l~~~~~~~F~~~L~~~L~ 39 (118)
T PF07742_consen 1 MKTEIAAAVNFLTRLLYNKGRLPRRQVDRFAEELENLLC 39 (118)
T ss_dssp CHHHHHHHHHHHHHHHHHHC-B-HHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH
Confidence 8999999999999999987 34 36789999999885
No 9
>PHA02844 putative transmembrane protein; Provisional
Probab=31.08 E-value=27 Score=23.42 Aligned_cols=21 Identities=10% Similarity=0.297 Sum_probs=16.8
Q ss_pred HhCCCChHHHHHHHHHHHHhh
Q 032647 17 EMTPPKGKDFLHSIEHILERE 37 (136)
Q Consensus 17 ~~t~p~G~~F~~~V~~IL~RE 37 (136)
.++..|=..|.+.|++||.-+
T Consensus 14 sS~DdDFnnFI~vVksVLtd~ 34 (75)
T PHA02844 14 SSENEDFNNFIDVVKSVLSDD 34 (75)
T ss_pred CCchHHHHHHHHHHHHHHcCC
Confidence 344456788999999999988
No 10
>PF06253 MTTB: Trimethylamine methyltransferase (MTTB); InterPro: IPR010426 This family consists of several trimethylamine methyltransferase (MTTB) proteins from numerous Rhizobium and Methanosarcina species.; GO: 0008168 methyltransferase activity, 0015948 methanogenesis; PDB: 2QNE_A.
Probab=29.76 E-value=22 Score=31.56 Aligned_cols=41 Identities=17% Similarity=0.443 Sum_probs=20.9
Q ss_pred HHHHHHHhCCCChHHHH--HHHHH---------HHHhhhchHHhHhcCCCCcc
Q 032647 11 RVKKLLEMTPPKGKDFL--HSIEH---------ILEREKNWVWWKRDGCPPFE 52 (136)
Q Consensus 11 ~v~~lL~~t~p~G~~F~--~~V~~---------IL~RE~nWv~WK~egCp~fe 52 (136)
....++++.+|.|.++. .|.++ |..| .++..|..+|+++..
T Consensus 415 la~D~I~evGpgG~fL~~~hT~k~~r~e~~~P~l~dr-~~~~~W~~~G~~~~~ 466 (505)
T PF06253_consen 415 LALDAIKEVGPGGHFLGHEHTMKNFRKEFYYPKLFDR-ENYEQWEEAGSKDMR 466 (505)
T ss_dssp H-HHHHHHH-TT--STTSHHHHHHHHHHS---SS------HHHHTTT----HH
T ss_pred hHHHHHHHhCCCCCcCCChHHHHHHHhcccCCccccc-cCHHHHHHhccccHH
Confidence 45678899999998874 55554 2233 388999999999774
No 11
>PF08785 Ku_PK_bind: Ku C terminal domain like; InterPro: IPR014893 The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C-terminal of Ku which binds to DNA-PKcs []. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 1RW2_A 1Q2Z_A 3ISM_C.
Probab=29.53 E-value=1.2e+02 Score=21.41 Aligned_cols=35 Identities=11% Similarity=0.355 Sum_probs=27.6
Q ss_pred hhHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH-hhh
Q 032647 2 KEEMKSCEERVKKLLEMTPPKGKDFLHSIEHILE-REK 38 (136)
Q Consensus 2 ~~~i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~-RE~ 38 (136)
++=++....+|.+||... .+..|.++++.|.. |+.
T Consensus 21 ~~A~~qM~~vI~~Lv~~s--~~~~y~kalecl~~lR~~ 56 (120)
T PF08785_consen 21 QKAIQQMKNVIEQLVSDS--GDQNYDKALECLRALREE 56 (120)
T ss_dssp CHHHHHHHHHHHHHHHCS--HCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHHH
Confidence 345778899999999965 77888888888766 654
No 12
>PHA02650 hypothetical protein; Provisional
Probab=28.65 E-value=29 Score=23.52 Aligned_cols=21 Identities=19% Similarity=0.352 Sum_probs=16.8
Q ss_pred HhCCCChHHHHHHHHHHHHhh
Q 032647 17 EMTPPKGKDFLHSIEHILERE 37 (136)
Q Consensus 17 ~~t~p~G~~F~~~V~~IL~RE 37 (136)
.++..|=..|.+.|++||.-+
T Consensus 14 sS~DdDFnnFI~VVkSVLtD~ 34 (81)
T PHA02650 14 SSTDDDFNNFIDVVKSVLSDE 34 (81)
T ss_pred CCcHHHHHHHHHHHHHHHcCC
Confidence 344456788999999999988
No 13
>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.
Probab=28.11 E-value=1.7e+02 Score=18.73 Aligned_cols=39 Identities=15% Similarity=0.106 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhhhchHHhH
Q 032647 5 MKSCEERVKKLLEMTPPKGKDFLHSIEHILEREKNWVWWK 44 (136)
Q Consensus 5 i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~RE~nWv~WK 44 (136)
|.+|---+-+.|++-.-+-..|.+.|+ -|.||+-|.++-
T Consensus 24 ieDtiy~L~~al~~g~I~~d~~lK~vR-~LaReQF~~Ral 62 (65)
T PF09454_consen 24 IEDTIYYLDRALQRGSIDLDTFLKQVR-SLAREQFLKRAL 62 (65)
T ss_dssp HHHHHHHHHHHHHTTSS-HHHHHHHHH-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHH-HHHHHHHHHHHH
Confidence 455555666777766667788888876 489999998874
No 14
>PRK13696 hypothetical protein; Provisional
Probab=28.06 E-value=46 Score=21.50 Aligned_cols=25 Identities=20% Similarity=0.246 Sum_probs=21.0
Q ss_pred HHHHHHHHHhCCCChHHHHHHHHHHH
Q 032647 9 EERVKKLLEMTPPKGKDFLHSIEHIL 34 (136)
Q Consensus 9 ~~~v~~lL~~t~p~G~~F~~~V~~IL 34 (136)
.+.+|+.|. .--.|..|++.|..++
T Consensus 9 ~dd~Y~~L~-~kk~~~SFSevi~~L~ 33 (62)
T PRK13696 9 SDDVYEKLL-EIKGDKSFSEVIRELI 33 (62)
T ss_pred CHHHHHHHH-HHhCCCCHHHHHHHHH
Confidence 467888888 4568999999999999
No 15
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=26.64 E-value=1.2e+02 Score=19.98 Aligned_cols=34 Identities=24% Similarity=0.499 Sum_probs=28.2
Q ss_pred hhHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 032647 2 KEEMKSCEERVKKLLEMTPPKGKDFLHSIEHILE 35 (136)
Q Consensus 2 ~~~i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~ 35 (136)
+.++...+..+..+|.+.+||-..+...++.|-.
T Consensus 65 r~~~~~~r~~l~~ll~~~~~D~~~i~a~~~~~~~ 98 (125)
T PF13801_consen 65 RQELRAARQELRALLAAPPPDEAAIEALLEEIRE 98 (125)
T ss_dssp HHHHHHHHHHHHHHHCCSSS-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence 4678889999999999999999988888887754
No 16
>cd08806 CARD_CARD14_CARMA2 Caspase activation and recruitment domain of CARD14-like proteins. Caspase activation and recruitment domain (CARD) similar to that found in CARD14, also known as BIMP2 or CARMA2 (caspase recruitment domain-containing membrane-associated guanylate kinase protein 2). CARD14 has been identified as a novel member of the MAGUK (membrane-associated guanylate kinase) family that functions as upstream activators of BCL10 (B-cell lymphoma 10) and NF-kB signaling. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways
Probab=26.57 E-value=89 Score=21.47 Aligned_cols=20 Identities=30% Similarity=0.512 Sum_probs=14.0
Q ss_pred HHHHHHhCCCChH-HHHHHHH
Q 032647 12 VKKLLEMTPPKGK-DFLHSIE 31 (136)
Q Consensus 12 v~~lL~~t~p~G~-~F~~~V~ 31 (136)
...+|+.+||+|- +|.++++
T Consensus 55 LLDIL~trG~~g~~aFLeSLe 75 (86)
T cd08806 55 LLDLLKTRGKNGAIAFLESLK 75 (86)
T ss_pred HHHHHHhcCchHHHHHHHHHH
Confidence 4458899999983 5666554
No 17
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=22.84 E-value=96 Score=22.62 Aligned_cols=46 Identities=22% Similarity=0.300 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhCCCC--hHH----------HHHHHHHHHHh--hhchHHhHhcCCC
Q 032647 4 EMKSCEERVKKLLEMTPPK--GKD----------FLHSIEHILER--EKNWVWWKRDGCP 49 (136)
Q Consensus 4 ~i~~~~~~v~~lL~~t~p~--G~~----------F~~~V~~IL~R--E~nWv~WK~egCp 49 (136)
.|..++..||+.|++.+|- +.. -..||.|+|.| .|+|+.=+.+|=.
T Consensus 3 ~Is~aE~eVM~ilW~~~~~t~~eI~~~l~~~~ews~sTV~TLl~RL~KKg~l~~~kdgr~ 62 (123)
T COG3682 3 SISAAEWEVMEILWSRGPATVREIIEELPADREWSYSTVKTLLNRLVKKGLLTRKKDGRA 62 (123)
T ss_pred cccHHHHHHHHHHHHcCCccHHHHHHHHhhcccccHHHHHHHHHHHHhccchhhhhcCCe
Confidence 4678889999999988864 111 23466777776 5666665555544
No 18
>PF11888 DUF3408: Protein of unknown function (DUF3408); InterPro: IPR021823 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 128 to 160 amino acids in length.
Probab=22.68 E-value=1.2e+02 Score=21.85 Aligned_cols=30 Identities=17% Similarity=0.359 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 032647 6 KSCEERVKKLLEMTPPKGKDFLHSIEHILE 35 (136)
Q Consensus 6 ~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~ 35 (136)
.++.+++.++|+-.+.++-.-+..|+.||.
T Consensus 87 ~e~h~~l~~Iv~~ig~~~~si~~yidNIL~ 116 (136)
T PF11888_consen 87 RETHERLSRIVRVIGERKMSISGYIDNILR 116 (136)
T ss_pred HHHHHHHHHHHHHHCCCCCcHHHHHHHHHH
Confidence 367788888888888887788888888886
No 19
>PF10557 Cullin_Nedd8: Cullin protein neddylation domain; InterPro: IPR019559 This is the neddylation site of cullin proteins, which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cullins function in Ubiquitin-dependent proteolysis, a process in which the 26S proteasome recognises and subsequently degrades a target protein tagged with K48-linked poly-ubiquitin chains. Cullins are molecular scaffolds responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like protein, which was originally found to be conjugated to Cdc53, a cullin component of the SCF (Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in Saccharomyces cerevisiae (Baker's yeast), and Nedd8 modification has now emerged as a regulatory pathway of fundamental importance for cell cycle control and for embryogenesis in metazoans. The only identified Nedd8 substrates are cullins. Neddylation results in covalent conjugation of a Nedd8 moiety onto a conserved cullin lysine residue []. ; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_B 1U6G_A 3O6B_J 3O2P_E 4A0K_A 2HYE_C ....
Probab=22.60 E-value=1.7e+02 Score=18.39 Aligned_cols=32 Identities=28% Similarity=0.395 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHH-hCCCChHHHHHHHHHHHHhh
Q 032647 6 KSCEERVKKLLE-MTPPKGKDFLHSIEHILERE 37 (136)
Q Consensus 6 ~~~~~~v~~lL~-~t~p~G~~F~~~V~~IL~RE 37 (136)
.++...|.+.|+ .-+|.-..|-..|+.+++||
T Consensus 26 ~~L~~~v~~~l~~~f~~~~~~ik~~Ie~LIeke 58 (68)
T PF10557_consen 26 DELINEVIEELKKRFPPSVSDIKKRIESLIEKE 58 (68)
T ss_dssp HHHHHHHHHHTTTTS---HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhcCCcCCCHHHHHHHHHHHHHhh
Confidence 466777788887 55688888999999998876
No 20
>PF15469 Sec5: Exocyst complex component Sec5
Probab=22.48 E-value=1.8e+02 Score=21.57 Aligned_cols=33 Identities=24% Similarity=0.420 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Q 032647 3 EEMKSCEERVKKLLEMTPPKGKDFLHSIEHILE 35 (136)
Q Consensus 3 ~~i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL~ 35 (136)
.-|.+.+..+++-|.+.+-....|.++|..+|+
T Consensus 135 ~ii~~~r~~l~~~L~~~~~s~~~~~~~i~~Ll~ 167 (182)
T PF15469_consen 135 KIIEEFREKLWEKLLSPPSSQEEFLKLIRKLLE 167 (182)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHh
Confidence 446677788888888776688888888888876
No 21
>PF11350 DUF3152: Protein of unknown function (DUF3152); InterPro: IPR022603 This entry represents Actinobacteria proteins of unknown function. Some are annotated as membrane proteins, however this cannot be confirmed.
Probab=21.98 E-value=56 Score=25.85 Aligned_cols=18 Identities=17% Similarity=0.532 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHhhhchH
Q 032647 24 KDFLHSIEHILEREKNWV 41 (136)
Q Consensus 24 ~~F~~~V~~IL~RE~nWv 41 (136)
..|+++|..+|.-.+.|.
T Consensus 50 ~~fA~~V~~tL~DpRgW~ 67 (203)
T PF11350_consen 50 DAFAAMVDATLADPRGWT 67 (203)
T ss_pred HHHHHHHHHHhcCCCCCC
Confidence 889999999999999998
No 22
>PF15508 NAAA-beta: beta subunit of N-acylethanolamine-hydrolyzing acid amidase
Probab=21.70 E-value=2.5e+02 Score=18.77 Aligned_cols=32 Identities=34% Similarity=0.537 Sum_probs=23.9
Q ss_pred hhHHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Q 032647 2 KEEMKSCEERVKKLLEMTPPKGKDFLHSIEHIL 34 (136)
Q Consensus 2 ~~~i~~~~~~v~~lL~~t~p~G~~F~~~V~~IL 34 (136)
+.+|+.+...+.+++....|.|.. ..+|+.++
T Consensus 26 k~~i~~l~~~~~~~~~~~~~~~~~-~~~v~~~~ 57 (95)
T PF15508_consen 26 KDEIRELIEVLKDLLQSFVPSGKV-LDFVDKLL 57 (95)
T ss_pred HHHHHHHHHHHHHHHHHhCCchHH-HHHHHHHH
Confidence 578888999999999987777544 55666655
No 23
>smart00099 btg1 tob/btg1 family. The tob/btg1 is a family of proteins that inhibit cell proliferation.
Probab=20.61 E-value=2.2e+02 Score=20.26 Aligned_cols=35 Identities=23% Similarity=0.308 Sum_probs=28.7
Q ss_pred ChhHHHHHHHHHHHHHHhCC--CC--hHHHHHHHHHHHH
Q 032647 1 MKEEMKSCEERVKKLLEMTP--PK--GKDFLHSIEHILE 35 (136)
Q Consensus 1 ~~~~i~~~~~~v~~lL~~t~--p~--G~~F~~~V~~IL~ 35 (136)
|+.||+.+..=|.++|+..+ |. =..|++.+..+|.
T Consensus 1 M~~EI~~av~Fl~~~l~~~~~l~~~~v~~F~~~L~~~L~ 39 (108)
T smart00099 1 MKLEIAAAVNFITSLLRKHNKLSKRRVEIFAEKLTRLLK 39 (108)
T ss_pred ChHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 78999999999999996543 43 4579999988886
No 24
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=20.59 E-value=49 Score=22.89 Aligned_cols=17 Identities=12% Similarity=0.118 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHhCCC
Q 032647 5 MKSCEERVKKLLEMTPP 21 (136)
Q Consensus 5 i~~~~~~v~~lL~~t~p 21 (136)
|.+++..|+++|++.++
T Consensus 1 Ls~~E~~IM~~lW~~~~ 17 (115)
T PF03965_consen 1 LSDLELEIMEILWESGE 17 (115)
T ss_dssp --HHHHHHHHHHHHHSS
T ss_pred CCHHHHHHHHHHHhCCC
Confidence 45677788888887765
No 25
>PF13619 KTSC: KTSC domain
Probab=20.38 E-value=1.2e+02 Score=18.71 Aligned_cols=22 Identities=32% Similarity=0.418 Sum_probs=18.5
Q ss_pred HHHHHHHHhCCCChHHHHHHHH
Q 032647 10 ERVKKLLEMTPPKGKDFLHSIE 31 (136)
Q Consensus 10 ~~v~~lL~~t~p~G~~F~~~V~ 31 (136)
..|++-|-..+..|.+|.+.|+
T Consensus 35 ~~~~~~l~~A~S~g~f~~~~Ik 56 (60)
T PF13619_consen 35 PEVYEALLNAPSKGRFFNRNIK 56 (60)
T ss_pred HHHHHHHHcCCCHHHHHHHhhh
Confidence 4677888888999999999886
No 26
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=20.16 E-value=2.3e+02 Score=17.53 Aligned_cols=28 Identities=14% Similarity=0.205 Sum_probs=20.3
Q ss_pred HHHHHHHHHHhCCCChHHHHHHHHHHHHhhh
Q 032647 8 CEERVKKLLEMTPPKGKDFLHSIEHILEREK 38 (136)
Q Consensus 8 ~~~~v~~lL~~t~p~G~~F~~~V~~IL~RE~ 38 (136)
.++.|.+.|+.|.-|- -.+|..+|+|+.
T Consensus 24 sR~vIirELqrTnLdV---N~AvNNlLsRDd 51 (53)
T PF11547_consen 24 SRNVIIRELQRTNLDV---NLAVNNLLSRDD 51 (53)
T ss_dssp -HHHHHHHHHHTTT-H---HHHHHHHHHHH-
T ss_pred cHHHHHHHHHHhcccH---HHHHHHHhcccc
Confidence 4677889999997664 457899999974
Done!