Query 007938
Match_columns 584
No_of_seqs 171 out of 963
Neff 3.8
Searched_HMMs 46136
Date Thu Mar 28 17:20:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007938.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007938hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02365 NAM: No apical merist 100.0 2.4E-40 5.1E-45 296.3 5.0 127 6-134 1-129 (129)
2 PF15183 MRAP: Melanocortin-2 25.0 69 0.0015 28.9 2.8 28 477-504 28-59 (90)
3 PF07245 Phlebovirus_G2: Phleb 19.9 1.2E+02 0.0026 34.8 4.1 43 454-498 435-477 (507)
4 PHA00692 hypothetical protein 18.2 45 0.00097 28.3 0.3 10 4-13 35-44 (74)
5 COG4741 Predicted secreted end 18.2 49 0.0011 32.8 0.6 17 1-19 95-111 (175)
6 PF10107 Endonuc_Holl: Endonuc 17.6 45 0.00099 32.8 0.2 15 1-17 82-96 (156)
7 COG3790 Predicted membrane pro 13.9 1.3E+02 0.0028 27.6 2.0 20 557-576 16-35 (97)
8 PF12273 RCR: Chitin synthesis 12.5 1.4E+02 0.003 27.6 1.9 20 488-507 2-21 (130)
9 PF13019 Telomere_Sde2: Telome 10.8 1.2E+02 0.0027 30.0 1.0 20 542-562 81-100 (162)
10 PRK14390 hypothetical protein; 10.3 1.4E+02 0.0031 25.3 1.1 46 2-51 10-55 (63)
No 1
>PF02365 NAM: No apical meristem (NAM) protein; InterPro: IPR003441 The NAC domain (for Petunia hybrida (Petunia) NAM and for Arabidopsis ATAF1, ATAF2, and CUC2) is an N-terminal module of ~160 amino acids, which is found in proteins of the NAC family of plant-specific transcriptional regulators (no apical meristem (NAM) proteins) []. NAC proteins are involved in developmental processes, including formation of the shoot apical meristem, floral organs and lateral shoots, as well as in plant hormonal control and defence. The NAC domain is accompanied by diverse C-terminal transcriptional activation domains. The NAC domain has been shown to be a DNA-binding domain (DBD) and a dimerization domain [,]. The NAC domain can be subdivided into five subdomains (A-E). Each subdomain is distinguishable by blocks of heterogeneous amino acids or gaps. While the NAC domains were rich in basic amino acids (R, K and H) as a whole, the distribution of positive and negative amino acids in each subdomain were unequal. Subdomains C and D are rich in basic amino acids but poor in acidic amino acids, while subdomain B contains a high proportion of acidic amino acids. Putative nuclear localization signals (NLS) have been detected in subdomains C and D []. The DBD is contained within a 60 amino acid region located within subdomains D and E []. The overall structure of the NAC domain monomer consists of a very twisted antiparallel beta-sheet, which packs against an N-terminal alpha-helix on one side and one shorter helix on the other side surrounded by a few helical elements. The structure suggests that the NAC domain mediates dimerization through conserved interactions including a salt bridge, and DNA binding through the NAC dimer face rich in positive charges [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1UT4_A 3SWM_B 4DUL_B 3SWP_D 1UT7_B 3ULX_A.
Probab=100.00 E-value=2.4e-40 Score=296.29 Aligned_cols=127 Identities=56% Similarity=1.143 Sum_probs=96.6
Q ss_pred CCCCceECCChHHHHHHHHHHHHcCCCCCC-CceeccCCCCCCCCCCCCCCCCCCCCceEEEcccCCCCCCCCCCcceec
Q 007938 6 LPPGFRFHPTDEELVAYYLKRKINGREIEL-EIIPEVDLYKCEPWELPGKSLLPSKDLEWYFFSPRDRKYPNGSRTNRAT 84 (584)
Q Consensus 6 LPPGFRF~PTDEELV~~YLrpKI~G~plp~-~~I~EVDVY~~EPWELPg~~~~~g~D~EWYFFSpR~RKypnGsR~nRaT 84 (584)
|||||||+|||+|||.+||++|+.|.+++. .+|+++|||++|||+|++.. .+++.+||||+++++++.+|.|.+|++
T Consensus 1 LP~G~rF~PtD~ELi~~yL~~k~~g~~~~~~~~i~~~Diy~~~P~~L~~~~--~~~~~~~yFF~~~~~~~~~~~r~~R~~ 78 (129)
T PF02365_consen 1 LPPGFRFRPTDEELINHYLRPKILGEPLPCEDVIHDVDIYSAHPWELPAKF--KGGDEEWYFFSPRKKKYPNGGRPNRVT 78 (129)
T ss_dssp --TTEEE---HHHHHHCTHHHHHTT-HHCS-CHSEE--GGGS-GGGCHHHS--SS-SSEEEEEEE----------S-EEE
T ss_pred CCCceEecCChHHHHHHHHHHHhcCCCCCcccceeecccCccChHHhhhhc--cCCCceEEEEEecccccCCcccccccc
Confidence 899999999999999999999999999887 78999999999999999422 235669999999999999999999999
Q ss_pred cCceEeecCCceeecc-CcceeEEEEEEEeecCcCCCCCccCeEEEEEEeC
Q 007938 85 KAGYWKATGKDRKVNS-QTRSVGMKKTLVYYRGRAPHGIRTHWVMHEYRLD 134 (584)
Q Consensus 85 ggGyWKatGkdK~I~s-~g~iVG~KKTLvFY~GraP~G~KTgWVMhEYrL~ 134 (584)
++|+||++|+.++|.+ ++++||+|++|+||.++.+++.+|+|+||||+|.
T Consensus 79 ~~G~Wk~~g~~~~i~~~~g~~iG~k~~l~f~~~~~~~~~kt~W~M~EY~L~ 129 (129)
T PF02365_consen 79 GGGYWKSTGKEKPIKDPGGKVIGFKKTLVFYSGKSPNGKKTGWVMHEYSLE 129 (129)
T ss_dssp TTEEEEEECEEEEEEE-TTCEEEEEEEEEEEESSTTS-EEEEEEEEEEEE-
T ss_pred cceEEeecccccccccccceeeeeEEEEEEEeccCCCCCcCCeEEEEEEeC
Confidence 9999999999999987 8999999999999998888999999999999983
No 2
>PF15183 MRAP: Melanocortin-2 receptor accessory protein family
Probab=24.97 E-value=69 Score=28.88 Aligned_cols=28 Identities=21% Similarity=0.521 Sum_probs=22.6
Q ss_pred hhcccc----ccccchHHHHHHHHHHHHHHHH
Q 007938 477 AEKFTG----TFMKPWKEIASAVVCMLVLVIM 504 (584)
Q Consensus 477 ~~~~~~----~~~~~~~~~~~~~~~~~~~~~~ 504 (584)
++|+|| -++|=|--+|.-|+|+|.+|+.
T Consensus 28 ~~~Lka~kysIVI~FWv~LA~FV~~lF~iL~~ 59 (90)
T PF15183_consen 28 EEKLKANKYSIVIAFWVSLAAFVVFLFLILLY 59 (90)
T ss_pred HHHhcccceeeehhHHHHHHHHHHHHHHHHHH
Confidence 556666 6889999999999999877664
No 3
>PF07245 Phlebovirus_G2: Phlebovirus glycoprotein G2; InterPro: IPR009878 This domain is found in several Phlebovirus glycoprotein G2 sequences. Members of the Bunyaviridae family acquire an envelope by budding through the lipid bilayer of the Golgi complex. The budding compartment is thought to be determined by the accumulation of the two heterodimeric membrane glycoproteins G1 and G2 in the Golgi [].
Probab=19.93 E-value=1.2e+02 Score=34.79 Aligned_cols=43 Identities=12% Similarity=0.110 Sum_probs=31.8
Q ss_pred cCceEEEEeecccccccccHHHHhhccccccccchHHHHHHHHHH
Q 007938 454 PSQIVQVQLNRAEVANNLSINAKAEKFTGTFMKPWKEIASAVVCM 498 (584)
Q Consensus 454 p~~~~~~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 498 (584)
..+...+.+||- +...++.+-++.+-..+.|||+.|...++||
T Consensus 435 ~~~~~S~~vn~~--~~~~~~~~w~sgl~~~l~g~~~~~~~Il~~l 477 (507)
T PF07245_consen 435 YTGGSSIVVNPS--EGSWDFFNWLSGLISWLGGPWKTILIILGFL 477 (507)
T ss_pred ccCceeeEECCc--cCccChHHHHhHHHHHhhhHHHHHHHHHHHH
Confidence 345667788998 4556777788888888999999887655443
No 4
>PHA00692 hypothetical protein
Probab=18.24 E-value=45 Score=28.32 Aligned_cols=10 Identities=70% Similarity=1.421 Sum_probs=7.7
Q ss_pred CCCCCCceEC
Q 007938 4 VSLPPGFRFH 13 (584)
Q Consensus 4 v~LPPGFRF~ 13 (584)
+..||||||-
T Consensus 35 veyppgfrfg 44 (74)
T PHA00692 35 VEYPPGFRFG 44 (74)
T ss_pred EecCCCcccc
Confidence 3579999985
No 5
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=18.18 E-value=49 Score=32.77 Aligned_cols=17 Identities=35% Similarity=1.028 Sum_probs=12.9
Q ss_pred CCCCCCCCCceECCChHHH
Q 007938 1 MAPVSLPPGFRFHPTDEEL 19 (584)
Q Consensus 1 MAPv~LPPGFRF~PTDEEL 19 (584)
|||+ + |+|+|+|.|.-.
T Consensus 95 laPf-f-p~f~ynPkD~Rf 111 (175)
T COG4741 95 LAPF-F-PEFKYNPKDARF 111 (175)
T ss_pred hccc-c-cCCCcCCcccee
Confidence 6777 4 499999998643
No 6
>PF10107 Endonuc_Holl: Endonuclease related to archaeal Holliday junction resolvase; InterPro: IPR019287 This domain is found in various predicted bacterial endonucleases which are distantly related to archaeal Holliday junction resolvases.
Probab=17.62 E-value=45 Score=32.78 Aligned_cols=15 Identities=40% Similarity=0.937 Sum_probs=12.5
Q ss_pred CCCCCCCCCceECCChH
Q 007938 1 MAPVSLPPGFRFHPTDE 17 (584)
Q Consensus 1 MAPv~LPPGFRF~PTDE 17 (584)
|||+ -|+|.|+|+|.
T Consensus 82 laP~--lp~F~ynP~D~ 96 (156)
T PF10107_consen 82 LAPF--LPEFPYNPKDA 96 (156)
T ss_pred hhhc--cCCCCCChhhh
Confidence 5777 49999999985
No 7
>COG3790 Predicted membrane protein [Function unknown]
Probab=13.88 E-value=1.3e+02 Score=27.57 Aligned_cols=20 Identities=30% Similarity=0.683 Sum_probs=17.9
Q ss_pred hhhhhhhHHHHHHHHHHhhh
Q 007938 557 CLKKIGLFLTISLALCTMWA 576 (584)
Q Consensus 557 ~~~~~~~~~~~~~~~~~~~~ 576 (584)
-||.|-+.|+|.+|+|-+|-
T Consensus 16 ~LraLSfvla~~la~~~fwd 35 (97)
T COG3790 16 PLRALSFVLAFLLAGCVFWD 35 (97)
T ss_pred cHHHHHHHHHHHHHHHHhcC
Confidence 48889999999999999994
No 8
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=12.51 E-value=1.4e+02 Score=27.56 Aligned_cols=20 Identities=20% Similarity=0.476 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHHHHHHhh
Q 007938 488 WKEIASAVVCMLVLVIMHGF 507 (584)
Q Consensus 488 ~~~~~~~~~~~~~~~~~~~~ 507 (584)
|--+|=.|++||++|++.|.
T Consensus 2 W~l~~iii~~i~l~~~~~~~ 21 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYC 21 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHH
Confidence 33455556665555554444
No 9
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=10.83 E-value=1.2e+02 Score=29.98 Aligned_cols=20 Identities=40% Similarity=0.760 Sum_probs=17.0
Q ss_pred eEEEEecCCCccceehhhhhh
Q 007938 542 LLVNIRGGRGDNFIVCLKKIG 562 (584)
Q Consensus 542 ~~~~~~~~~~~~~~~~~~~~~ 562 (584)
+.+.++|||| ||+-.||..|
T Consensus 81 l~~rl~GGKG-GFGs~Lr~~g 100 (162)
T PF13019_consen 81 LSLRLRGGKG-GFGSQLRAAG 100 (162)
T ss_pred EEEeccCCCc-cHHHHHHHHH
Confidence 6678899996 8999999876
No 10
>PRK14390 hypothetical protein; Provisional
Probab=10.29 E-value=1.4e+02 Score=25.34 Aligned_cols=46 Identities=22% Similarity=0.335 Sum_probs=24.8
Q ss_pred CCCCCCCCceECCChHHHHHHHHHHHHcCCCCCCCceeccCCCCCCCCCC
Q 007938 2 APVSLPPGFRFHPTDEELVAYYLKRKINGREIELEIIPEVDLYKCEPWEL 51 (584)
Q Consensus 2 APv~LPPGFRF~PTDEELV~~YLrpKI~G~plp~~~I~EVDVY~~EPWEL 51 (584)
+|+ +|+-.||.||=-|=-..-+++. | .+........-|..|+||--
T Consensus 10 Sp~-~~~~CRf~PTCS~Ya~~Ai~~~--G-~~kG~~l~~~RilRC~P~~~ 55 (63)
T PRK14390 10 SPF-FGPRCRFIPSCSSYGYEAITRH--G-PWKGGWLTLRRLSRCHPLTP 55 (63)
T ss_pred CCC-CCCCCCcCccHHHHHHHHHHHh--C-cHHHHHHHHHHHhcCCCCCC
Confidence 577 8999999999655333222211 1 01111233345667777743
Done!