Query 033401
Match_columns 120
No_of_seqs 113 out of 160
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 13:27:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033401.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033401hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04667 Endosulfine: cAMP-reg 99.9 9.8E-26 2.1E-30 158.3 6.5 81 23-103 2-85 (86)
2 KOG4076 Regulator of ATP-sensi 99.8 3.8E-20 8.2E-25 138.0 4.5 83 22-104 25-113 (121)
3 PF10802 DUF2540: Protein of u 24.1 44 0.00096 23.5 1.2 15 27-41 46-60 (75)
4 COG3733 TynA Cu2+-containing a 23.8 23 0.00051 33.3 -0.3 14 56-69 316-329 (654)
5 PF01179 Cu_amine_oxid: Copper 21.1 28 0.00061 30.4 -0.3 15 55-69 72-86 (413)
6 cd07756 CYTH-like_Pase_CHAD Un 19.3 48 0.001 25.8 0.6 15 55-69 36-50 (197)
7 PF04504 DUF573: Protein of un 16.5 39 0.00085 23.8 -0.4 33 28-60 54-90 (98)
8 cd07374 CYTH-like_Pase CYTH-li 14.7 62 0.0014 23.6 0.3 14 56-69 36-49 (174)
9 KOG3940 Uncharacterized conser 12.4 2E+02 0.0042 25.5 2.6 10 54-63 48-57 (351)
10 KOG1999 RNA polymerase II tran 12.3 61 0.0013 32.2 -0.5 24 46-69 446-470 (1024)
No 1
>PF04667 Endosulfine: cAMP-regulated phosphoprotein/endosulfine conserved region; InterPro: IPR006760 This endosulphine family includes cAMP-regulated phosphoprotein 19 (ARPP-19), alpha endosulphine and protein Igo1. No function has yet been assigned to ARPP-19 []. Endosulphine is the endogenous ligand for the ATP-dependent potassium channels which occupy a key position in the control of insulin release from the pancreatic beta cell by coupling cell polarity to metabolism []. Igo1 is required for initiation of G0 program. In the absence of stimulatory signals, cells may enter into a reversible quiescence (or G0) state that is typically characterised by low metabolic activity, including low rates of protein synthesis and transcription. Igo proteins associate with the mRNA decapping activator Dhh1, sheltering newly expressed mRNAs from degradation via the 5'-3' mRNA decay pathway, and thereby enabling their proper translation during initiation of the G0 program [].
Probab=99.92 E-value=9.8e-26 Score=158.30 Aligned_cols=81 Identities=37% Similarity=0.505 Sum_probs=70.9
Q ss_pred CCCCCCHHHHHHHHHHhCCCCCCCCcccccccccccccchhhHhhhhcCCCC-CCCCccccCCCCCCCc--ccCCCCCCC
Q 033401 23 KTMPSSEEEEAALKKKYGGIVPKKPPLISKDHERAYFDSADWALGKQQGVEK-PKGPLEALRPKLQPTQ--QQTRYRKSP 99 (120)
Q Consensus 23 ~~~~s~~~eE~kl~~KYG~L~pKk~~Li~K~~eRKYFDSgDyAL~Kq~g~~k-~~~~vE~L~pKlqpTp--q~lp~Rk~s 99 (120)
++++.+++||++|++|||+|++++.+|++|+++|||||||||||+||++.+. ...+++.+.|++.+|+ ++++.|++.
T Consensus 2 ~~~~~~~~eE~kl~~kYG~l~~~~~~L~kkl~~rKYFDSgDyam~Ka~~~~~~~~~~~~~~~~~~~~p~~v~~~~~~~~~ 81 (86)
T PF04667_consen 2 VDISSLSEEEAKLKAKYGKLPPKKKLLQKKLQKRKYFDSGDYAMAKAGKKSSQGPGPTGKLPPPLPNPPHVSQSIPRRPT 81 (86)
T ss_pred cccccccHHHHHHHHHcCCCCCCchhhhhhhccccccchHHHHHHHhhcccccCcCcCcCCCCCCCCCcccccccCCCCC
Confidence 5789999999999999999999988999999999999999999999955443 2347889999999998 699999999
Q ss_pred CcCC
Q 033401 100 YAPA 103 (120)
Q Consensus 100 ~~~s 103 (120)
|.+.
T Consensus 82 ~~s~ 85 (86)
T PF04667_consen 82 TTSP 85 (86)
T ss_pred CCCC
Confidence 8764
No 2
>KOG4076 consensus Regulator of ATP-sensitive K+ channels Alpha-endosulfine/ARPP-19 and related cAMP-regulated phosphoproteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.80 E-value=3.8e-20 Score=137.98 Aligned_cols=83 Identities=22% Similarity=0.254 Sum_probs=66.2
Q ss_pred CCCCCCCHHHHHHHHHHhCCCCCCCCccccccc-ccccccchhhHhhhhcCCCCC--CCCcc--cc-CCCCCCCcccCCC
Q 033401 22 QKTMPSSEEEEAALKKKYGGIVPKKPPLISKDH-ERAYFDSADWALGKQQGVEKP--KGPLE--AL-RPKLQPTQQQTRY 95 (120)
Q Consensus 22 ~~~~~s~~~eE~kl~~KYG~L~pKk~~Li~K~~-eRKYFDSgDyAL~Kq~g~~k~--~~~vE--~L-~pKlqpTpq~lp~ 95 (120)
..+...+.++|.++++.||+|+-++.+|.+|++ +|||||||||||.||+++++. ++... .+ +..++|||+.+|.
T Consensus 25 ~~~ek~~epkl~~ky~~~GklP~~sd~l~krlQkgrKyFDSGDYam~KAk~~~~~~~~~~~~k~~~~t~~~~~~~e~~p~ 104 (121)
T KOG4076|consen 25 TSPEKKEEPKLKKKYPSYGKLPGGSDFLRKRLQKGRKYFDSGDYAMAKAKMKNKQLPTANPDKNNLPTGDHIPTPEDLPA 104 (121)
T ss_pred cChhhhhCHHHHHHHHHhCCCCcccHHHHHHHHhcccccccchHHHHHhhcccccCCccccccCCCCCCCCCcCcccccc
Confidence 444556667788888899999999889999986 699999999999999766543 22211 33 7899999999999
Q ss_pred CCCCCcCCC
Q 033401 96 RKSPYAPAG 104 (120)
Q Consensus 96 Rk~s~~~s~ 104 (120)
||+++++..
T Consensus 105 rk~S~~s~~ 113 (121)
T KOG4076|consen 105 RKPSLVSPS 113 (121)
T ss_pred ccccccCCC
Confidence 999998853
No 3
>PF10802 DUF2540: Protein of unknown function (DUF2540); InterPro: IPR024254 This family of proteins with unknown function appears to be restricted to Methanococcus.; PDB: 2EFV_A.
Probab=24.12 E-value=44 Score=23.52 Aligned_cols=15 Identities=33% Similarity=0.612 Sum_probs=11.8
Q ss_pred CCHHHHHHHHHHhCC
Q 033401 27 SSEEEEAALKKKYGG 41 (120)
Q Consensus 27 s~~~eE~kl~~KYG~ 41 (120)
.++++|.++..|||+
T Consensus 46 tLs~~E~~IieKyGK 60 (75)
T PF10802_consen 46 TLSDEEEKIIEKYGK 60 (75)
T ss_dssp E--HHHHHHHHHHGG
T ss_pred EecHHHHHHHHHHhH
Confidence 568899999999996
No 4
>COG3733 TynA Cu2+-containing amine oxidase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=23.82 E-value=23 Score=33.26 Aligned_cols=14 Identities=36% Similarity=0.738 Sum_probs=11.6
Q ss_pred cccccchhhHhhhh
Q 033401 56 RAYFDSADWALGKQ 69 (120)
Q Consensus 56 RKYFDSgDyAL~Kq 69 (120)
+.+||+|||.|+.-
T Consensus 316 K~~fD~GeYglG~l 329 (654)
T COG3733 316 KNAFDSGEYGLGTL 329 (654)
T ss_pred hhcccccccCcccc
Confidence 46999999988764
No 5
>PF01179 Cu_amine_oxid: Copper amine oxidase, enzyme domain; InterPro: IPR015798 Amine oxidases (AO) are enzymes that catalyse the oxidation of a wide range of biogenic amines including many neurotransmitters, histamine and xenobiotic amines. There are two classes of amine oxidases: flavin-containing (1.4.3.4 from EC) and copper-containing (1.4.3.6 from EC). Copper-containing AO act as a disulphide-linked homodimer. They catalyse the oxidation of primary amines to aldehydes, with the subsequent release of ammonia and hydrogen peroxide, which requires one copper ion per subunit and topaquinone as cofactor []: RCH2NH2 + H2O + O2 = RCHO + NH3 + H2O2 Copper-containing amine oxidases are found in bacteria, fungi, plants and animals. In prokaryotes, the enzyme enables various amine substrates to be used as sources of carbon and nitrogen [, ]. In eukaryotes they have a broader range of functions, including cell differentiation and growth, wound healing, detoxification and cell signalling []. The copper amine oxidases occur as mushroom-shaped homodimers of 70-95 kDa, each monomer containing a copper ion and a covalently bound redox cofactor, topaquinone (TPQ). TPQ is formed by post-translational modification of a conserved tyrosine residue. The copper ion is coordinated with three histidine residues and two water molecules in a distorted square pyramidal geometry, and has a dual function in catalysis and TPQ biogenesis. The catalytic domain is the largest of the 3-4 domains found in copper amine oxidases, and consists of a beta sandwich of 18 strands in two sheets. The active site is buried and requires a conformational change to allow the substrate access. The two N-terminal domains share a common structural fold, its core consisting of a five-stranded antiparallel beta sheet twisted around an alpha helix. The D1 domains from the two subunits comprise the stalk, of the mushroom-shaped dimer, and interact with each other but do not pack tightly against each other [, ]. This entry represents the C-terminal catalytic domain of copper amine oxidases, and has a super-sandwich fold consisting of 18 beta-strands in 2 sheets []. A domain with a similar structural fold can be found as the third domain in lysyl oxidase PplO [].; GO: 0005507 copper ion binding, 0008131 primary amine oxidase activity, 0048038 quinone binding, 0009308 amine metabolic process, 0055114 oxidation-reduction process; PDB: 1US1_A 2C11_B 3ALA_E 2Y73_B 2C10_B 1PU4_B 2Y74_B 1W2Z_D 1KSI_B 1RKY_A ....
Probab=21.13 E-value=28 Score=30.45 Aligned_cols=15 Identities=33% Similarity=0.711 Sum_probs=12.1
Q ss_pred ccccccchhhHhhhh
Q 033401 55 ERAYFDSADWALGKQ 69 (120)
Q Consensus 55 eRKYFDSgDyAL~Kq 69 (120)
-+.|||+|||-|+..
T Consensus 72 ~~~~~D~geyG~G~~ 86 (413)
T PF01179_consen 72 RKNAFDSGEYGLGSM 86 (413)
T ss_dssp H-EEEHHHHTTTTTT
T ss_pred ccccccccccccCcc
Confidence 357999999988876
No 6
>cd07756 CYTH-like_Pase_CHAD Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain. This subgroup belongs to the CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) superfamily. Members of this superfamily hydrolyze triphosphate-containing substrates, require metal cations as cofactors, and have a unique active site located at the center of an eight-stranded antiparallel beta barrel tunnel (the triphosphate tunnel). A number of proteins in this subgroup also contain a C-terminal CHAD (Conserved Histidine Alpha-helical Domain) domain which may participate in metal chelation or act as a phosphor-acceptor. The name CYTH originated from the gene designation for bacterial class IV adenylyl cyclases (CyaB) and from thiamine triphosphatase. Class IV adenylate cyclases catalyze the conversion of ATP to 3',5'-cyclic AMP (cAMP) and PPi. Thiamine triphosphatase is a soluble cytosolic enzyme which converts thiamine triphosphate to thiamine diphosp
Probab=19.25 E-value=48 Score=25.77 Aligned_cols=15 Identities=40% Similarity=0.767 Sum_probs=13.2
Q ss_pred ccccccchhhHhhhh
Q 033401 55 ERAYFDSADWALGKQ 69 (120)
Q Consensus 55 eRKYFDSgDyAL~Kq 69 (120)
.--|||..|+.|.++
T Consensus 36 ~~~YfDTpd~~L~~~ 50 (197)
T cd07756 36 HNTYFDTPDLALRRA 50 (197)
T ss_pred eeeeeeCcChHHHhC
Confidence 346999999999998
No 7
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=16.50 E-value=39 Score=23.81 Aligned_cols=33 Identities=39% Similarity=0.556 Sum_probs=21.2
Q ss_pred CHHHHHHHHHHhCCCCCC--C--Cccccccccccccc
Q 033401 28 SEEEEAALKKKYGGIVPK--K--PPLISKDHERAYFD 60 (120)
Q Consensus 28 ~~~eE~kl~~KYG~L~pK--k--~~Li~K~~eRKYFD 60 (120)
..+.=.+|++||.....+ . .+-..+.|+|+-|+
T Consensus 54 l~~KirrLK~Ky~~~~~k~~~g~~~~~~~~hd~~~f~ 90 (98)
T PF04504_consen 54 LYDKIRRLKKKYRNAVKKSKNGKDPSFSKPHDRRLFE 90 (98)
T ss_pred HHHHHHHHHHHHHHHhhhcccCcCCCCCCHhHHHHHH
Confidence 334447899999987766 1 13456667776664
No 8
>cd07374 CYTH-like_Pase CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases. CYTH-like superfamily enzymes hydrolyze triphosphate-containing substrates and require metal cations as cofactors. They have a unique active site located at the center of an eight-stranded antiparallel beta barrel tunnel (the triphosphate tunnel). The name CYTH originated from the gene designation for bacterial class IV adenylyl cyclases (CyaB), and from thiamine triphosphatase. Class IV adenylate cyclases catalyze the conversion of ATP to 3',5'-cyclic AMP (cAMP) and PPi. Thiamine triphosphatase is a soluble cytosolic enzyme which converts thiamine triphosphate to thiamine diphosphate. This domain superfamily also contains RNA triphosphatases, membrane-associated polyphosphate polymerases, tripolyphosphatases, nucleoside triphosphatases, nucleoside tetraphosphatases and other proteins with unknown functions.
Probab=14.70 E-value=62 Score=23.56 Aligned_cols=14 Identities=36% Similarity=0.722 Sum_probs=12.0
Q ss_pred cccccchhhHhhhh
Q 033401 56 RAYFDSADWALGKQ 69 (120)
Q Consensus 56 RKYFDSgDyAL~Kq 69 (120)
--|||..|++|.+.
T Consensus 36 ~~YfDT~d~~l~~~ 49 (174)
T cd07374 36 AIYFDTPDLRLARA 49 (174)
T ss_pred eeEecCccchhhhC
Confidence 36999999988876
No 9
>KOG3940 consensus Uncharacterized conserved protein [Function unknown]
Probab=12.37 E-value=2e+02 Score=25.53 Aligned_cols=10 Identities=40% Similarity=0.527 Sum_probs=7.7
Q ss_pred cccccccchh
Q 033401 54 HERAYFDSAD 63 (120)
Q Consensus 54 ~eRKYFDSgD 63 (120)
.-|++|||+-
T Consensus 48 k~Rk~FDsrr 57 (351)
T KOG3940|consen 48 KVRKMFDSRR 57 (351)
T ss_pred hhhhcccccc
Confidence 3489999974
No 10
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=12.27 E-value=61 Score=32.21 Aligned_cols=24 Identities=33% Similarity=0.432 Sum_probs=18.1
Q ss_pred CCcccccccc-cccccchhhHhhhh
Q 033401 46 KPPLISKDHE-RAYFDSADWALGKQ 69 (120)
Q Consensus 46 k~~Li~K~~e-RKYFDSgDyAL~Kq 69 (120)
+.+|.-+-++ ||||.-|||+--=+
T Consensus 446 ~~pl~~~~~eLrKyF~~GDhVKVi~ 470 (1024)
T KOG1999|consen 446 KGPLEVPASELRKYFEPGDHVKVIA 470 (1024)
T ss_pred CCccccchHhhhhhccCCCeEEEEe
Confidence 4567766666 99999999975544
Done!