Query 040305
Match_columns 80
No_of_seqs 83 out of 85
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 07:06:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040305.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040305hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12515 CaATP_NAI: Ca2+-ATPas 99.8 4.3E-22 9.4E-27 117.8 3.0 46 3-51 1-46 (47)
2 KOG0204 Calcium transporting A 97.9 1E-05 2.2E-10 70.4 3.0 60 2-69 1-60 (1034)
3 PF04081 DNA_pol_delta_4: DNA 82.5 1.1 2.4E-05 31.2 2.1 36 6-41 69-104 (124)
4 PF10579 Rapsyn_N: Rapsyn N-te 25.1 84 0.0018 20.3 2.6 47 18-67 21-67 (80)
5 PHA00649 hypothetical protein 19.8 60 0.0013 21.0 1.1 9 22-30 45-53 (83)
6 PF03234 CDC37_N: Cdc37 N term 18.0 2.2E+02 0.0049 20.5 3.8 16 18-34 24-39 (177)
7 COG5410 Uncharacterized protei 18.0 43 0.00094 26.4 0.1 57 8-72 64-123 (305)
8 PF07825 Exc: Excisionase-like 14.4 1.1E+02 0.0025 19.4 1.4 15 18-33 17-31 (77)
9 PF13411 MerR_1: MerR HTH fami 12.4 1.6E+02 0.0035 16.6 1.5 19 18-38 12-30 (69)
10 PF01698 FLO_LFY: Floricaula / 10.2 1.5E+02 0.0033 24.3 1.2 14 25-38 335-350 (386)
No 1
>PF12515 CaATP_NAI: Ca2+-ATPase N terminal autoinhibitory domain; InterPro: IPR024750 This entry represents the N-terminal autoinhibitory calmodulin-binding domain characteristic of certain calcium-transporting ATPases []. This domain binds calmodulin in a calcium-dependent fashion and has a conserved RRFR sequence motif. There are two completely conserved residues (F and W) that may be functionally important.; GO: 0005516 calmodulin binding
Probab=99.85 E-value=4.3e-22 Score=117.84 Aligned_cols=46 Identities=43% Similarity=0.779 Sum_probs=43.8
Q ss_pred CCCCCccCCCCCCCCCCHHHHHHHHHhhhhhhhccccccccccccchhh
Q 040305 3 FNSEDFDVQPWRSVHPSEEALKRWRSACAIVKNRRRRFCMVTNLANHAE 51 (80)
Q Consensus 3 ~~~~~Fdv~~k~~~~~s~ealrRWR~A~~lViN~~RRFr~~adL~k~~~ 51 (80)
|+.++|||++|| +|+|+|+|||+|++||+|++|||||++||+|+++
T Consensus 1 yl~~~Fdi~~Kn---~s~e~l~rWR~a~~lv~N~~RRFR~~~dL~k~~e 46 (47)
T PF12515_consen 1 YLDDNFDIPAKN---SSEEALRRWRQAVGLVKNARRRFRYTADLKKREE 46 (47)
T ss_pred CCccccCCCCCC---CCHHHHHHHHHHhHHhccccceeeecccHhhHhc
Confidence 688999999999 9999999999998899999999999999999875
No 2
>KOG0204 consensus Calcium transporting ATPase [Inorganic ion transport and metabolism]
Probab=97.85 E-value=1e-05 Score=70.40 Aligned_cols=60 Identities=32% Similarity=0.334 Sum_probs=51.0
Q ss_pred CCCCCCccCCCCCCCCCCHHHHHHHHHhhhhhhhccccccccccccchhhHHHhHHHHHHhhhhhhhh
Q 040305 2 FFNSEDFDVQPWRSVHPSEEALKRWRSACAIVKNRRRRFCMVTNLANHAEARDHKLKIQVLFYSLLSF 69 (80)
Q Consensus 2 ~~~~~~Fdv~~k~~~~~s~ealrRWR~A~~lViN~~RRFr~~adL~k~~~~~~~rr~i~~kir~~~~~ 69 (80)
+++.++|..+.+| ++.+++++||.| ++++|++|||+|.++|++..+...+|+ |+|++.++
T Consensus 1 s~~~~~~~~~~~n---~~~~~~~~~~~a-~~~~~~~~~~~~~~~l~~~~~~~~~r~----~~r~~~~~ 60 (1034)
T KOG0204|consen 1 SLLDKDFVVSMKN---SSIEALQRWRLA-YIVLEASRRFRFGASLKKLRELMEPRR----KIRSAVLV 60 (1034)
T ss_pred CCccccccccccc---chhhhhhhhhhh-hhhcccchhhccccCHHHHHHHHHHHh----hhhhhhcc
Confidence 4567888777888 999999999977 799999999999999999999888888 55555444
No 3
>PF04081 DNA_pol_delta_4: DNA polymerase delta, subunit 4 ; InterPro: IPR007218 DNA polymerase is responsible for effective DNA replication. The function of the delta subunit 4 of DNA polymerase is not yet known.; GO: 0006260 DNA replication, 0005634 nucleus
Probab=82.45 E-value=1.1 Score=31.21 Aligned_cols=36 Identities=19% Similarity=0.205 Sum_probs=25.9
Q ss_pred CCccCCCCCCCCCCHHHHHHHHHhhhhhhhcccccc
Q 040305 6 EDFDVQPWRSVHPSEEALKRWRSACAIVKNRRRRFC 41 (80)
Q Consensus 6 ~~Fdv~~k~~~~~s~ealrRWR~A~~lViN~~RRFr 41 (80)
..||+.++.+.-.-..+++||.+|..+.+||.=-.+
T Consensus 69 r~FDl~~~yGPC~GitRl~RW~RA~~lgL~PP~ev~ 104 (124)
T PF04081_consen 69 RQFDLSSQYGPCIGITRLERWERAKRLGLNPPIEVL 104 (124)
T ss_pred HHhccccccCCccCchHHHHHHHHHHcCCCCCHHHH
Confidence 349998876422234589999999879998876554
No 4
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=25.12 E-value=84 Score=20.31 Aligned_cols=47 Identities=26% Similarity=0.395 Sum_probs=26.7
Q ss_pred CCHHHHHHHHHhhhhhhhccccccccccccchhhHHHhHHHHHHhhhhhh
Q 040305 18 PSEEALKRWRSACAIVKNRRRRFCMVTNLANHAEARDHKLKIQVLFYSLL 67 (80)
Q Consensus 18 ~s~ealrRWR~A~~lViN~~RRFr~~adL~k~~~~~~~rr~i~~kir~~~ 67 (80)
-..+++.+|++|.--.-++.-||+-..=| ..+...=.+.++.+..+.
T Consensus 21 ~~~~Al~~W~~aL~k~~~~~~rf~~lG~l---~qA~~e~Gkyr~~L~fA~ 67 (80)
T PF10579_consen 21 ETQQALQKWRKALEKITDREDRFRVLGYL---IQAHMEWGKYREMLAFAL 67 (80)
T ss_pred hHHHHHHHHHHHHhhcCChHHHHHHHHHH---HHHHHHHHHHHHHHHHHH
Confidence 56779999999954444555566633322 233444444555554443
No 5
>PHA00649 hypothetical protein
Probab=19.79 E-value=60 Score=21.05 Aligned_cols=9 Identities=33% Similarity=0.276 Sum_probs=7.6
Q ss_pred HHHHHHHhh
Q 040305 22 ALKRWRSAC 30 (80)
Q Consensus 22 alrRWR~A~ 30 (80)
-+||||+|+
T Consensus 45 ~~Rr~RKA~ 53 (83)
T PHA00649 45 FGRRMRKAA 53 (83)
T ss_pred HHHHHHHHh
Confidence 489999995
No 6
>PF03234 CDC37_N: Cdc37 N terminal kinase binding; InterPro: IPR013855 In Saccharomyces cerevisiae (Baker's yeast), cell division control protein Cdc37 is required for the productive formation of Cdc28-cyclin complexes. Cdc37 may be a kinase targeting subunit of Hsp90 [].
Probab=18.05 E-value=2.2e+02 Score=20.54 Aligned_cols=16 Identities=19% Similarity=0.414 Sum_probs=11.3
Q ss_pred CCHHHHHHHHHhhhhhh
Q 040305 18 PSEEALKRWRSACAIVK 34 (80)
Q Consensus 18 ~s~ealrRWR~A~~lVi 34 (80)
-...++.|||+.+ .+=
T Consensus 24 iD~~S~~rwk~~~-~~e 39 (177)
T PF03234_consen 24 IDKRSLFRWKHQA-RHE 39 (177)
T ss_pred CChHHHHhHHHHH-HHH
Confidence 3445899999995 443
No 7
>COG5410 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=17.96 E-value=43 Score=26.35 Aligned_cols=57 Identities=23% Similarity=0.156 Sum_probs=35.3
Q ss_pred ccCCCCCCCCCCHHHHHHHHHhhhhhhhccccccccc---cccchhhHHHhHHHHHHhhhhhhhhHhh
Q 040305 8 FDVQPWRSVHPSEEALKRWRSACAIVKNRRRRFCMVT---NLANHAEARDHKLKIQVLFYSLLSFLLF 72 (80)
Q Consensus 8 Fdv~~k~~~~~s~ealrRWR~A~~lViN~~RRFr~~a---dL~k~~~~~~~rr~i~~kir~~~~~~~~ 72 (80)
|.+||..+ .|..--.-|..- .|++||..||--++ +|++.. -++.|+++...-+-.||
T Consensus 64 in~PP~~s--kS~~Vs~~~PaY-~L~~NP~KR~~~~SYSd~La~~~-----s~~~r~ii~sd~y~~LF 123 (305)
T COG5410 64 INVPPGSS--KSELVAINVPAY-GLALNPYKRFLHISYSDDLALLN-----SETAREIVQSDEYRALF 123 (305)
T ss_pred EecCCccc--cceEEEeechhh-hhhcCccceEEEeeHhHHHHHHh-----chHHHHHHhccchhhcC
Confidence 55776431 344445669988 59999999996444 553332 34456677766655544
No 8
>PF07825 Exc: Excisionase-like protein; InterPro: IPR012884 The phage-encoded excisionase protein (Xis, P03699 from SWISSPROT) is involved in excisive recombination by regulating the assembly of the excisive intasome and by inhibiting viral integration. It adopts an unusual winged-helix structure in which two alpha helices are packed against two extended strands. Also present in the structure is a two-stranded anti-parallel beta-sheet, whose strands are connected by a four-residue wing. During interaction with DNA, helix alpha2 is thought to insert into the major groove, while the wing contacts the adjacent minor groove or phosphodiester backbone. The C-terminal region of Xis is involved in interaction with phage-encoded integrase (Int), and a putative C-terminal alpha helix may fold upon interaction with Int and/or DNA []. ; GO: 0003677 DNA binding, 0006310 DNA recombination; PDB: 1RH6_B 2IEF_B 2OG0_B 1LX8_A 1PM6_A.
Probab=14.41 E-value=1.1e+02 Score=19.39 Aligned_cols=15 Identities=33% Similarity=0.744 Sum_probs=10.5
Q ss_pred CCHHHHHHHHHhhhhh
Q 040305 18 PSEEALKRWRSACAIV 33 (80)
Q Consensus 18 ~s~ealrRWR~A~~lV 33 (80)
||.++|+||.+. +..
T Consensus 17 ps~~TLrrwar~-G~I 31 (77)
T PF07825_consen 17 PSIATLRRWARQ-GRI 31 (77)
T ss_dssp --HHHHHHHHHC-T-E
T ss_pred CCHHHHHHHHHC-CCc
Confidence 788999999999 444
No 9
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=12.38 E-value=1.6e+02 Score=16.57 Aligned_cols=19 Identities=16% Similarity=0.232 Sum_probs=15.0
Q ss_pred CCHHHHHHHHHhhhhhhhccc
Q 040305 18 PSEEALKRWRSACAIVKNRRR 38 (80)
Q Consensus 18 ~s~ealrRWR~A~~lViN~~R 38 (80)
-|..+++.|.+. ++ +.+.|
T Consensus 12 vs~~tlr~y~~~-gl-l~~~~ 30 (69)
T PF13411_consen 12 VSPSTLRYYERE-GL-LPPPR 30 (69)
T ss_dssp TTHHHHHHHHHT-TS-STTBE
T ss_pred cCHHHHHHHHHh-cC-ccccc
Confidence 688899999999 67 55554
No 10
>PF01698 FLO_LFY: Floricaula / Leafy protein; InterPro: IPR002910 This family consists of various plant development proteins which are homologues of Floricaula (FLO) and leafy (LFY) proteins which are floral meristem identity proteins. Mutations in the sequences of these proteins affect flower and leaf development.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2VY1_A 2VY2_A.
Probab=10.18 E-value=1.5e+02 Score=24.27 Aligned_cols=14 Identities=43% Similarity=0.873 Sum_probs=9.6
Q ss_pred HHHHhhh--hhhhccc
Q 040305 25 RWRSACA--IVKNRRR 38 (80)
Q Consensus 25 RWR~A~~--lViN~~R 38 (80)
-|||||+ ||-.+.|
T Consensus 335 awrqacy~plv~~a~~ 350 (386)
T PF01698_consen 335 AWRQACYKPLVAIAAR 350 (386)
T ss_dssp HHHHHCHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3999998 5554444
Done!