Query 040150
Match_columns 85
No_of_seqs 83 out of 85
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 05:36:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040150.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040150hhsearch_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 3.5E-22 7.5E-27 118.1 2.7 46 4-50 1-46 (47)
2 KOG0204 Calcium transporting A 98.5 7.2E-08 1.6E-12 83.5 3.5 69 4-78 2-70 (1034)
3 PF04081 DNA_pol_delta_4: DNA 72.6 2.6 5.7E-05 29.3 1.7 32 7-39 69-103 (124)
4 PF10579 Rapsyn_N: Rapsyn N-te 36.8 58 0.0013 21.1 3.3 53 15-70 19-71 (80)
5 PF01286 XPA_N: XPA protein N- 29.4 27 0.00059 19.1 0.7 12 1-13 14-25 (34)
6 PHA00649 hypothetical protein 16.0 91 0.002 20.1 1.2 9 21-29 45-53 (83)
7 PF08499 PDEase_I_N: 3'5'-cycl 14.2 1.7E+02 0.0036 17.9 2.0 46 12-75 12-57 (59)
8 PF15265 FAM196: FAM196 family 11.1 1.7E+02 0.0037 24.8 1.8 27 44-70 392-419 (514)
9 PF13411 MerR_1: MerR HTH fami 10.7 2.1E+02 0.0046 16.1 1.7 20 16-37 11-30 (69)
10 PF06592 DUF1138: Protein of u 10.5 84 0.0018 20.1 -0.1 24 18-41 45-70 (73)
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=3.5e-22 Score=118.07 Aligned_cols=46 Identities=59% Similarity=1.018 Sum_probs=43.8
Q ss_pred cccccCCCCCCCCCcHHHHHHHHHHhchhcccCCCCCcchhchhhhH
Q 040150 4 YLNENFGSVKPKNSSEEALQRWRRLYGIVKNPKRSFPFTANLAKRSE 50 (85)
Q Consensus 4 ~~~~~F~~i~~k~~s~ealrRWR~A~~lviN~~RRFr~~adL~kr~~ 50 (85)
|+.++|+ |++||+|+|+++|||+|+|||+|++|||||++||+|+++
T Consensus 1 yl~~~Fd-i~~Kn~s~e~l~rWR~a~~lv~N~~RRFR~~~dL~k~~e 46 (47)
T PF12515_consen 1 YLDDNFD-IPAKNSSEEALRRWRQAVGLVKNARRRFRYTADLKKREE 46 (47)
T ss_pred CCccccC-CCCCCCCHHHHHHHHHHhHHhccccceeeecccHhhHhc
Confidence 6789999 999999999999999999999999999999999998875
No 2
>KOG0204 consensus Calcium transporting ATPase [Inorganic ion transport and metabolism]
Probab=98.51 E-value=7.2e-08 Score=83.46 Aligned_cols=69 Identities=38% Similarity=0.422 Sum_probs=63.7
Q ss_pred cccccCCCCCCCCCcHHHHHHHHHHhchhcccCCCCCcchhchhhhHHHHHHhhhhhhhhhhhHHHHHHHHhhhh
Q 040150 4 YLNENFGSVKPKNSSEEALQRWRRLYGIVKNPKRSFPFTANLAKRSEAEAIRRSNQVSFLLKGSLNLKFLITSTL 78 (85)
Q Consensus 4 ~~~~~F~~i~~k~~s~ealrRWR~A~~lviN~~RRFr~~adL~kr~~~~~~rr~~q~kir~~~~v~~a~~~~~~~ 78 (85)
++.++|. .+.+|++.+++++||.|+ +++|++|||+|.++|++..+...+|+ |+|+++.+++|+.+|.|-
T Consensus 2 ~~~~~~~-~~~~n~~~~~~~~~~~a~-~~~~~~~~~~~~~~l~~~~~~~~~r~----~~r~~~~~~~a~~~~~~~ 70 (1034)
T KOG0204|consen 2 LLDKDFV-VSMKNSSIEALQRWRLAY-IVLEASRRFRFGASLKKLRELMEPRR----KIRSAVLVSKAAALFIDA 70 (1034)
T ss_pred Ccccccc-cccccchhhhhhhhhhhh-hhcccchhhccccCHHHHHHHHHHHh----hhhhhhcccchhhhhhcc
Confidence 4567787 888999999999999888 99999999999999999999999998 999999999999999875
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=72.57 E-value=2.6 Score=29.34 Aligned_cols=32 Identities=22% Similarity=0.410 Sum_probs=23.8
Q ss_pred ccCCCCCCCC-CcH--HHHHHHHHHhchhcccCCCC
Q 040150 7 ENFGSVKPKN-SSE--EALQRWRRLYGIVKNPKRSF 39 (85)
Q Consensus 7 ~~F~~i~~k~-~s~--ealrRWR~A~~lviN~~RRF 39 (85)
..|| +.++. |-. ..++||.+|..+.+||.=-.
T Consensus 69 r~FD-l~~~yGPC~GitRl~RW~RA~~lgL~PP~ev 103 (124)
T PF04081_consen 69 RQFD-LSSQYGPCIGITRLERWERAKRLGLNPPIEV 103 (124)
T ss_pred HHhc-cccccCCccCchHHHHHHHHHHcCCCCCHHH
Confidence 4588 88775 433 48999999987999887544
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=36.80 E-value=58 Score=21.05 Aligned_cols=53 Identities=17% Similarity=0.236 Sum_probs=29.7
Q ss_pred CCCcHHHHHHHHHHhchhcccCCCCCcchhchhhhHHHHHHhhhhhhhhhhhHHHH
Q 040150 15 KNSSEEALQRWRRLYGIVKNPKRSFPFTANLAKRSEAEAIRRSNQVSFLLKGSLNL 70 (85)
Q Consensus 15 k~~s~ealrRWR~A~~lviN~~RRFr~~adL~kr~~~~~~rr~~q~kir~~~~v~~ 70 (85)
+|-..+++..|++|..-.-++.-||+...=| ..+...=.+.++.+..+..-+.
T Consensus 19 ~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l---~qA~~e~Gkyr~~L~fA~~Q~~ 71 (80)
T PF10579_consen 19 QNETQQALQKWRKALEKITDREDRFRVLGYL---IQAHMEWGKYREMLAFALQQLE 71 (80)
T ss_pred cchHHHHHHHHHHHHhhcCChHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 5667889999999985555555566533322 2233333334445554444443
No 5
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=29.36 E-value=27 Score=19.09 Aligned_cols=12 Identities=42% Similarity=0.825 Sum_probs=8.0
Q ss_pred CcccccccCCCCC
Q 040150 1 MENYLNENFGSVK 13 (85)
Q Consensus 1 ~~~~~~~~F~~i~ 13 (85)
|+|||..+|+ ++
T Consensus 14 ~dSyL~~~F~-~~ 25 (34)
T PF01286_consen 14 MDSYLLNNFD-LP 25 (34)
T ss_dssp S-SSCCCCTS--S
T ss_pred HHHHHHHhCC-cc
Confidence 5788888898 54
No 6
>PHA00649 hypothetical protein
Probab=16.02 E-value=91 Score=20.14 Aligned_cols=9 Identities=22% Similarity=0.095 Sum_probs=7.7
Q ss_pred HHHHHHHHh
Q 040150 21 ALQRWRRLY 29 (85)
Q Consensus 21 alrRWR~A~ 29 (85)
-+||||+|.
T Consensus 45 ~~Rr~RKA~ 53 (83)
T PHA00649 45 FGRRMRKAA 53 (83)
T ss_pred HHHHHHHHh
Confidence 389999997
No 7
>PF08499 PDEase_I_N: 3'5'-cyclic nucleotide phosphodiesterase N-terminal; InterPro: IPR013706 The cyclic nucleotide phosphodiesterases (PDE) comprise a group of enzymes that degrade the phosphodiester bond in the second messenger molecules cAMP and cGMP. They are divided into 11 families. They regulate the localisation, duration and amplitude of cyclic nucleotide signalling within subcellular domains. PDEs are therefore important for signal transduction. PDE enzymes are often targets for pharmacological inhibition due to their unique tissue distribution, structural properties, and functional properties. Inhibitors include: Roflumilast for chronic obstructive pulmonary disease and asthma [], Sildenafil for erectile dysfunction [] and Cilostazol for peripheral arterial occlusive disease [], amongst others. Retinal 3',5'-cGMP phosphodiesterase is located in photoreceptor outer segments: it is light activated, playing a pivotal role in signal transduction. In rod cells, PDE is oligomeric, comprising an alpha-, a beta- and 2 gamma-subunits, while in cones, PDE is a homodimer of alpha chains, which are associated with several smaller subunits. Both rod and cone PDEs catalyse the hydrolysis of cAMP or cGMP to the corresponding nucleoside 5' monophosphates, both enzymes also binding cGMP with high affinity. The cGMP-binding sites are located in the N-terminal half of the protein sequence, while the catalytic core resides in the C-terminal portion. This domain is found to the N terminus of the calcium/calmodulin-dependent 3'5'-cyclic nucleotide phosphodiesterase domain (IPR002073 from INTERPRO).; GO: 0004114 3',5'-cyclic-nucleotide phosphodiesterase activity
Probab=14.24 E-value=1.7e+02 Score=17.91 Aligned_cols=46 Identities=11% Similarity=0.205 Sum_probs=28.5
Q ss_pred CCCCCCcHHHHHHHHHHhchhcccCCCCCcchhchhhhHHHHHHhhhhhhhhhhhHHHHHHHHh
Q 040150 12 VKPKNSSEEALQRWRRLYGIVKNPKRSFPFTANLAKRSEAEAIRRSNQVSFLLKGSLNLKFLIT 75 (85)
Q Consensus 12 i~~k~~s~ealrRWR~A~~lviN~~RRFr~~adL~kr~~~~~~rr~~q~kir~~~~v~~a~~~~ 75 (85)
|.+...|.| .+.|=.++ ++. ....+. .+++ -++|..++++++-+.|
T Consensus 12 i~~dsvp~e-Vr~WLasT-Ftr----------q~~~~~-~~ek-----~~frsV~~AvqagIfv 57 (59)
T PF08499_consen 12 IQSDSVPDE-VRDWLAST-FTR----------QVTRRR-SEEK-----PKFRSVVHAVQAGIFV 57 (59)
T ss_pred cccccCCHH-HHHHHHHH-HHh----------hhhccc-cccc-----hhHHHHHHHHHhccee
Confidence 666666666 89999988 433 331111 1222 2688889998887654
No 8
>PF15265 FAM196: FAM196 family
Probab=11.06 E-value=1.7e+02 Score=24.81 Aligned_cols=27 Identities=19% Similarity=0.079 Sum_probs=20.6
Q ss_pred hchhhhH-HHHHHhhhhhhhhhhhHHHH
Q 040150 44 NLAKRSE-AEAIRRSNQVSFLLKGSLNL 70 (85)
Q Consensus 44 dL~kr~~-~~~~rr~~q~kir~~~~v~~ 70 (85)
||.-+.. -|+....+||||.|.+.||.
T Consensus 392 dLqaqLQsmEe~L~SnQEtIKVLLnVIQ 419 (514)
T PF15265_consen 392 DLQAQLQSMEESLSSNQETIKVLLNVIQ 419 (514)
T ss_pred hHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 4444333 57778889999999999995
No 9
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=10.66 E-value=2.1e+02 Score=16.10 Aligned_cols=20 Identities=25% Similarity=0.326 Sum_probs=15.3
Q ss_pred CCcHHHHHHHHHHhchhcccCC
Q 040150 16 NSSEEALQRWRRLYGIVKNPKR 37 (85)
Q Consensus 16 ~~s~ealrRWR~A~~lviN~~R 37 (85)
+.|..+++.|.+.. + +.|.|
T Consensus 11 gvs~~tlr~y~~~g-l-l~~~~ 30 (69)
T PF13411_consen 11 GVSPSTLRYYEREG-L-LPPPR 30 (69)
T ss_dssp TTTHHHHHHHHHTT-S-STTBE
T ss_pred CcCHHHHHHHHHhc-C-ccccc
Confidence 46788999999998 7 44544
No 10
>PF06592 DUF1138: Protein of unknown function (DUF1138); InterPro: IPR009515 This family consists of several hypothetical short plant proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown.
Probab=10.52 E-value=84 Score=20.11 Aligned_cols=24 Identities=33% Similarity=0.642 Sum_probs=0.0
Q ss_pred cHHHHHHHHHHhc--hhcccCCCCCc
Q 040150 18 SEEALQRWRRLYG--IVKNPKRSFPF 41 (85)
Q Consensus 18 s~ealrRWR~A~~--lviN~~RRFr~ 41 (85)
..+.++-|.+-+| ||+||.+|=.|
T Consensus 45 T~~K~qaWPR~agpPVvmNPisrqnf 70 (73)
T PF06592_consen 45 TDKKFQAWPREAGPPVVMNPISRQNF 70 (73)
T ss_pred HHHHHhhCcccCCCCeeeccccccce
Done!