Query 000245
Match_columns 1797
No_of_seqs 4 out of 6
Neff 1.3
Searched_HMMs 46136
Date Fri Mar 29 01:05:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000245.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000245hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00765 MANEC The MANEC dom 6.4 2.1E+02 0.0045 27.9 0.6 28 73-100 13-40 (93)
2 PF10023 DUF2265: Predicted am 5.6 3.5E+02 0.0076 31.5 1.8 30 1434-1463 113-142 (337)
3 PF03997 VPS28: VPS28 protein; 5.6 2.2E+02 0.0049 30.5 0.3 13 1778-1790 114-126 (188)
4 KOG3391 Transcriptional co-rep 5.2 2.8E+02 0.0061 29.5 0.7 20 1102-1122 35-54 (151)
5 COG5546 Small integral membran 4.8 2.9E+02 0.0064 27.0 0.5 21 903-923 60-80 (80)
6 KOG3373 Glycine cleavage syste 3.2 4.5E+02 0.0097 28.6 0.3 24 172-195 111-135 (172)
7 PF11249 DUF3047: Protein of u 3.1 1.1E+03 0.024 24.9 2.9 41 1631-1671 12-52 (183)
8 PF08142 AARP2CN: AARP2CN (NUC 2.9 6.4E+02 0.014 23.8 0.9 27 203-230 59-85 (85)
9 COG0509 GcvH Glycine cleavage 2.9 4.9E+02 0.011 27.2 0.2 20 176-195 75-94 (131)
10 TIGR02705 nudix_YtkD nucleosid 2.4 6.9E+02 0.015 25.9 0.6 48 1587-1644 95-142 (156)
No 1
>smart00765 MANEC The MANEC domain was formerly called MANSC. This domain, comprising 8 conserved cysteines, is found in the N terminus of higher multicellular animal membrane and extracellular proteins. It is postulated that this domain may play a role in the formation of protein complexes involving various protease activators and inhibitors. It is possible that some of the cysteine residues in the MANSC domain form structurally important disulfide bridges. All of the MANSC-containing proteins contain predicted transmembrane regions and signal peptides. It has been proposed that the MANSC domain in HAI-1 might function through binding with hepatocyte growth factor activator and matriptase.
Probab=6.40 E-value=2.1e+02 Score=27.91 Aligned_cols=28 Identities=32% Similarity=0.375 Sum_probs=21.3
Q ss_pred cccccccccccccccccccCCCCccccc
Q 000245 73 AMNTAIKFNVETAEGETFLGSPSAVQVS 100 (1797)
Q Consensus 73 a~sT~~k~NvgtsEGeSFL~SPSv~~v~ 100 (1797)
..+.+|..+....-|+.||.+|.++.-.
T Consensus 13 ~~n~ii~t~~S~~~Ga~fL~~p~~~~s~ 40 (93)
T smart00765 13 LENAIIRTEESLSAGARFLKSPIAVNTW 40 (93)
T ss_pred CCCeeeccchhhhccccccCCccccCCH
Confidence 3456677788888999999999776543
No 2
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=5.60 E-value=3.5e+02 Score=31.46 Aligned_cols=30 Identities=30% Similarity=0.415 Sum_probs=23.5
Q ss_pred cccccccchhhHHHHHhhcCCCeeeccccc
Q 000245 1434 EGIEQSSQEDDMAAEMSKQGNDTYISPVSI 1463 (1797)
Q Consensus 1434 egieqssqeddmaaemskqgndtyispvsi 1463 (1797)
.|.=....-...|+.|.+||-||||.||.-
T Consensus 113 rGyF~~~~A~~~a~~L~~~GlDv~v~gV~A 142 (337)
T PF10023_consen 113 RGYFDEADARAEAAELRAQGLDVYVGGVPA 142 (337)
T ss_pred cCcCCHHHHHHHHHHHHHcCCceeEecccc
Confidence 344444556678999999999999999964
No 3
>PF03997 VPS28: VPS28 protein; InterPro: IPR007143 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 [, ].; PDB: 2J9W_B 2J9U_C 2G3K_A 2F66_E 2F6M_D 2J9V_A 2CAZ_E 2P22_B.
Probab=5.57 E-value=2.2e+02 Score=30.52 Aligned_cols=13 Identities=46% Similarity=0.933 Sum_probs=9.4
Q ss_pred cCCcccchhhHHH
Q 000245 1778 GMQSKDQIHPLIR 1790 (1797)
Q Consensus 1778 gmqskdqihplir 1790 (1797)
+|..+||+|||++
T Consensus 114 n~~a~DqLhPlL~ 126 (188)
T PF03997_consen 114 NYRAKDQLHPLLS 126 (188)
T ss_dssp T--BHHHHHHHHH
T ss_pred cchhHhhHhhHHH
Confidence 6788999999875
No 4
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=5.20 E-value=2.8e+02 Score=29.49 Aligned_cols=20 Identities=45% Similarity=0.662 Sum_probs=16.1
Q ss_pred CCCCCcccccccCcCcCCCcc
Q 000245 1102 NNGHHDMEESNSRGLIPESES 1122 (1797)
Q Consensus 1102 nnghhdmeesnsrglipeses 1122 (1797)
|++||-|.+-+. |-+|.+|-
T Consensus 35 ~g~hH~~def~~-g~vPs~el 54 (151)
T KOG3391|consen 35 NGRHHVMDEFED-GNVPSSEL 54 (151)
T ss_pred CCCCcchhhhhc-CCCCchhe
Confidence 678888988766 99998764
No 5
>COG5546 Small integral membrane protein [Function unknown]
Probab=4.82 E-value=2.9e+02 Score=27.04 Aligned_cols=21 Identities=38% Similarity=0.460 Sum_probs=17.9
Q ss_pred cccccccccccccccCCCCCC
Q 000245 903 KTSKTVEDLTPILQKNEPGDE 923 (1797)
Q Consensus 903 ~tlKgeeD~e~Il~~NePgen 923 (1797)
-|-||-.|+++-|..|+|++.
T Consensus 60 PTT~gl~DSe~al~ynep~k~ 80 (80)
T COG5546 60 PTTKGLSDSEQALTYNEPKKE 80 (80)
T ss_pred CcccCcccHHHHHhccCcCCC
Confidence 367888999999999999864
No 6
>KOG3373 consensus Glycine cleavage system H protein (lipoate-binding) [Amino acid transport and metabolism]
Probab=3.23 E-value=4.5e+02 Score=28.61 Aligned_cols=24 Identities=33% Similarity=0.567 Sum_probs=19.7
Q ss_pred ccccc-CCccccccccCCcchhhhH
Q 000245 172 HNYEK-DGTMTDVNTDLGSNEQVVN 195 (1797)
Q Consensus 172 H~~e~-D~tmtdvnT~L~sNeqv~n 195 (1797)
--|-. +|++|.+|++|.-|.-++|
T Consensus 111 eIysp~sGeVtEiNe~l~EnPGlvN 135 (172)
T KOG3373|consen 111 EIYSPVSGEVTEINEKLEENPGLVN 135 (172)
T ss_pred hhhCcCCceEEEeccccccCCCccc
Confidence 33444 8999999999999998776
No 7
>PF11249 DUF3047: Protein of unknown function (DUF3047); InterPro: IPR021409 This bacterial family of proteins has no known function.
Probab=3.05 E-value=1.1e+03 Score=24.88 Aligned_cols=41 Identities=29% Similarity=0.433 Sum_probs=36.9
Q ss_pred CccceeeEeecccccccccCCCCCCCceeEeccCCCCcCCC
Q 000245 1631 GKHERFSFVMSDENEAFSTNADQSPSLMEVEASGDLNEAPR 1671 (1797)
Q Consensus 1631 gkherfsfvmsdeneafstnadqspslmeveasgdlneapr 1671 (1797)
..|.+|+++..+...+....++.|-|.+--...-||+..|+
T Consensus 12 ~~~t~y~~~~~~g~~~L~a~s~~saS~L~~~~~idl~~~p~ 52 (183)
T PF11249_consen 12 KAHTRYRLVSDDGETVLRAESDGSASGLYREVDIDLKKTPR 52 (183)
T ss_pred CCCcEEEEeccCCceEEEEEeCCccceeEEecCCCCCcCcE
Confidence 57999999998888899999999999999899999998886
No 8
>PF08142 AARP2CN: AARP2CN (NUC121) domain; InterPro: IPR012948 This domain is the central domain of AARP2 (asparagine and aspartate rich protein 2). It is weakly similar to the GTP-binding domain of elongation factor TU []. PfAARP2 is an antigen from Plasmodium falciparum of 150 kDa, which is encoded by a unique gene on chromosome 1 []. The central region of Pfaarp2 contains blocks of repetitions encoding asparagine and aspartate residues. ; GO: 0042254 ribosome biogenesis, 0005634 nucleus
Probab=2.91 E-value=6.4e+02 Score=23.84 Aligned_cols=27 Identities=30% Similarity=0.690 Sum_probs=19.7
Q ss_pred cCccccccCCCCcccccccccceecccc
Q 000245 203 RNKEDLIHIPDPTVISLNKSVETVVEPC 230 (1797)
Q Consensus 203 ~nkedliHipdpT~~~Ln~~VET~~~PC 230 (1797)
++...|||||.---.-+.+ ++....||
T Consensus 59 l~~n~lVHIpG~GDFqi~~-I~~~~DPc 85 (85)
T PF08142_consen 59 LSVNQLVHIPGVGDFQISK-IESLPDPC 85 (85)
T ss_pred ccCCCEEEeCCcCCeEeeE-eeecCCCC
Confidence 5567899999876666654 46677888
No 9
>COG0509 GcvH Glycine cleavage system H protein (lipoate-binding) [Amino acid transport and metabolism]
Probab=2.90 E-value=4.9e+02 Score=27.15 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=18.2
Q ss_pred cCCccccccccCCcchhhhH
Q 000245 176 KDGTMTDVNTDLGSNEQVVN 195 (1797)
Q Consensus 176 ~D~tmtdvnT~L~sNeqv~n 195 (1797)
-+|++++||+.|..+++++|
T Consensus 75 vsGeVvevN~~l~~~PeliN 94 (131)
T COG0509 75 VSGEVVEVNEALVDSPELIN 94 (131)
T ss_pred CceeEEEechhhhcChhhhc
Confidence 48999999999999999776
No 10
>TIGR02705 nudix_YtkD nucleoside triphosphatase YtkD. The functional assignment to the proteins of this family is contentious. Reference challenges the findings of reference, both in interpretation and in enzyme assay results. This protein belongs to the nudix family and shares some sequence identity with E. coli MutT but appears not to be functionally interchangeable with it.
Probab=2.44 E-value=6.9e+02 Score=25.86 Aligned_cols=48 Identities=29% Similarity=0.407 Sum_probs=25.5
Q ss_pred cceEEEeccCCCCCCCCCccccccccccCChhhhhhhhhhcCCCCccceeeEeecccc
Q 000245 1587 RGLVILAEGNSNDNEPIGAEDNIEKKSSIGKEDLQHIQQENEPEGKHERFSFVMSDEN 1644 (1797)
Q Consensus 1587 rglvilaegnsndnepigaedniekkssigkedlqhiqqenepegkherfsfvmsden 1644 (1797)
...+.+|.+..- +|. .+.++-...+--+++..+-. ...||||+|-|.-
T Consensus 95 ~~~vf~A~~~~~--~~~--~e~~E~~~~~~~~~~~~~~~------~g~~~s~~~~d~~ 142 (156)
T TIGR02705 95 VKDVYFAEVSAL--ESK--DDYLETKGPVLLQEIPDIIK------ADPRFSFIMKDDV 142 (156)
T ss_pred EEEEEEEEEecc--ccC--CCceeeEeEEEHHHHHHHHh------cCCcccEEEchHH
Confidence 456777777632 344 33344443333333333221 2349999999974
Done!