Query psy10515
Match_columns 280
No_of_seqs 129 out of 469
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 20:12:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10515.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10515hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05648 PEX11: Peroxisomal bi 100.0 1E-44 2.2E-49 319.1 23.9 208 64-272 4-223 (223)
2 KOG4186|consensus 100.0 4.8E-41 1.1E-45 295.1 22.3 214 63-279 3-233 (233)
3 PF02197 RIIa: Regulatory subu 24.2 55 0.0012 20.7 1.6 14 13-26 7-20 (38)
4 PF15343 DEPP: Decidual protei 20.8 62 0.0013 28.0 1.6 22 11-32 11-33 (188)
5 PF03490 Varsurf_PPLC: Variant 19.0 50 0.0011 22.5 0.6 32 12-44 14-45 (51)
6 PF09905 DUF2132: Uncharacteri 19.0 60 0.0013 23.2 1.0 27 47-79 34-61 (64)
7 smart00394 RIIa RIIalpha, Regu 18.9 79 0.0017 19.7 1.5 14 13-26 7-20 (38)
8 cd00280 TRFH Telomeric Repeat 18.9 57 0.0012 28.6 1.0 28 63-90 42-69 (200)
9 KOG0064|consensus 18.9 45 0.00097 34.0 0.5 18 26-43 511-528 (728)
10 PF12991 DUF3875: Domain of un 18.3 56 0.0012 22.6 0.7 24 26-49 21-44 (54)
No 1
>PF05648 PEX11: Peroxisomal biogenesis factor 11 (PEX11)
Probab=100.00 E-value=1e-44 Score=319.05 Aligned_cols=208 Identities=30% Similarity=0.515 Sum_probs=188.5
Q ss_pred hhhhccCCcchHHHHHHHHHHHHHHHHHHhhccCCChhHHHHHHHHHHhHhHHHHHHHhhCCHHHHHHHhhccC--CCch
Q psy10515 64 AENQLNTLFGSCSLILLVQFASRMVWDITEKHSLMSKHSVEKIKLLEFHLAMFRRLLRLGRCFDALYSALPLLH--HPDK 141 (280)
Q Consensus 64 ~~~~lst~~GRDKllR~lQY~skll~~~l~~~~l~~~~~~~~l~~L~s~ls~aRk~fRL~k~l~~l~~~~~~~~--~~d~ 141 (280)
+.+|+++++||||++|++||++++++|++.+++ +++++.++++++++++|++||+||+||++++++++.+... .+|.
T Consensus 4 ~~~~l~~~~GrDK~~r~~qy~~~~~~~~~~~~~-~~~~~~~~~~~l~~~ls~aRk~~Rl~k~l~~l~~~~~~~~~~~~d~ 82 (223)
T PF05648_consen 4 FVRFLSSTDGRDKLLRLLQYSSKFLAWYLARRG-PSKELSKRLKALSSQLSDARKLFRLGKFLPMLQAARKYIKKKPSDQ 82 (223)
T ss_pred HHHHHccchhhHHHHHHHHHHHHHHHHHHHccC-CChHHHHHHHHHHHHhhhHHHHHHHHccHHHHHHHHHhhccCCccH
Confidence 333999999999999999999999999998877 6789999999999999999999999999999999998643 3478
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccCcc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc------c
Q psy10515 142 MIQMFTIMTKIAQGMYLLCDHIVWFGRVGLMEMDTV-HWTGTANRYFFYSLVLMLARDIYEILQLYDVTKRSY------R 214 (280)
Q Consensus 142 ~~~~l~~l~~~~~~lY~~~D~i~wL~~~Gil~~~~~-k~~~~s~~fW~~~lv~sli~~l~~L~~l~~~~~~~k------~ 214 (280)
+.+++++++++++++|+++||++|++++|+++.+.. ++.++|++||++++++++++++++++.+.+++++.+ +
T Consensus 83 ~~~~l~~l~~~~~~~y~~~D~~~wl~~~gl~~~~~~~~~~~~s~~~W~~~l~~~l~~~~~~l~~~~~~~~~~~~~~~~~~ 162 (223)
T PF05648_consen 83 VLRILEILSNLFMFLYYLLDNLVWLSKLGLLPNKSKKKWSRWSNRFWFASLVLSLVRDLRELRRLRQKERSLKKQLKEKD 162 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccc
Confidence 999999999999999999999999999999997754 999999999999999999999999988877665421 1
Q ss_pred c-c--cchhhhhhhhhHHHHHHHHhhhHHHhhhccCCcccCchhHhHHHHHHHHHHHHHhc
Q psy10515 215 K-V--PLGELVCSNKSLFLDLFKNVFDVLIPATGLGYVKFSPGAVGFFGVLSSAAALYTIV 272 (280)
Q Consensus 215 ~-~--~~~~~~~~~~~~~l~lv~~~~Dl~i~~~~lg~~~~~~g~VG~~G~iSSlig~y~~W 272 (280)
+ + ++.++++++++..+++++|+||+++|++++|+.+++|++||++|++||++|+|++|
T Consensus 163 ~~~~~~l~~~~~~~~~~~l~lv~~~~D~~~~~~~l~~~~~~~~~vg~~G~iSs~i~~~~~W 223 (223)
T PF05648_consen 163 ENEEEKLKKLRKERRALLLDLVKNLCDLIIAVHWLGWLKVSDGVVGLLGLISSLIGLYQLW 223 (223)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCeeCChhhHHHHHHHHHHHHHHHhC
Confidence 1 1 23467789999999999999999999999999999999999999999999999999
No 2
>KOG4186|consensus
Probab=100.00 E-value=4.8e-41 Score=295.14 Aligned_cols=214 Identities=27% Similarity=0.459 Sum_probs=185.7
Q ss_pred chhhhccCCcchHHHHHHHHHHHHHHHHHHhhccCCChhHHHHHHHHHHhHhHHHHHHHhhCCHHHHHHHhhc--cC-CC
Q psy10515 63 HAENQLNTLFGSCSLILLVQFASRMVWDITEKHSLMSKHSVEKIKLLEFHLAMFRRLLRLGRCFDALYSALPL--LH-HP 139 (280)
Q Consensus 63 ~~~~~lst~~GRDKllR~lQY~skll~~~l~~~~l~~~~~~~~l~~L~s~ls~aRk~fRL~k~l~~l~~~~~~--~~-~~ 139 (280)
|+-+|+++++||||++|.+||++++++|.+. + .+|+++++++++++++|.+||+||+||++++++.+.+. .+ .+
T Consensus 3 ~lv~~ln~~~gRDKl~RalQY~akll~~~l~--~-~~p~~a~~~~kles~~S~~RK~~Rl~k~l~~~~~~~~~~~~~~~~ 79 (233)
T KOG4186|consen 3 HLVRFLNSAAGRDKLCRALQYVAKLLSWHLE--A-GSPELAKRLKKLESQLSLARKVLRLGKDLNMFQAALQYGLVPLGT 79 (233)
T ss_pred HHHHHhhhhhHHHHHHHHHHHHHHHHhhhhc--c-CChHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhcccCCCCC
Confidence 3334999999999999999999999999998 4 67999999999999999999999999999999999996 33 45
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc------
Q psy10515 140 DKMIQMFTIMTKIAQGMYLLCDHIVWFGRVGLMEMDTVHWTGTANRYFFYSLVLMLARDIYEILQLYDVTKRSY------ 213 (280)
Q Consensus 140 d~~~~~l~~l~~~~~~lY~~~D~i~wL~~~Gil~~~~~k~~~~s~~fW~~~lv~sli~~l~~L~~l~~~~~~~k------ 213 (280)
|.+++.+.+++|+.+.+|+++|||.|+++.|+++.+.++|...+...|.+++.++++++++++..+.+...+.|
T Consensus 80 ~~~lr~~~~l~n~~~~~Y~~~D~v~Wl~~~gi~~~~~~~~~~~~~~~w~~sl~l~~~r~~~~~~~~~r~~~~~k~~~~~~ 159 (233)
T KOG4186|consen 80 DNVLRLLGVLKNLAFALYLFLDHVLWLARTGIIPVKSERWKISRISLWLLSLGLNLCRDMYEVFELQRLSSSIKKKTKSI 159 (233)
T ss_pred cchhhHHHHHhHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccCC
Confidence 66799999999999999999999999999999997779999999999999999999999999655432221111
Q ss_pred ---cc---ccchhh--hhhhhhHHHHHHHHhhhHHHhhhccCCcccCchhHhHHHHHHHHHHHHHhcccccCCC
Q psy10515 214 ---RK---VPLGEL--VCSNKSLFLDLFKNVFDVLIPATGLGYVKFSPGAVGFFGVLSSAAALYTIVNPMYKMI 279 (280)
Q Consensus 214 ---~~---~~~~~~--~~~~~~~~l~lv~~~~Dl~i~~~~lg~~~~~~g~VG~~G~iSSlig~y~~W~~~~k~~ 279 (280)
++ +.+++. .+.++.+.++...+.||.++|...+|..+++|++||++|++||++|+|++|.+++|+|
T Consensus 160 ~~~~e~~~~~l~~~~~~~~~~~l~l~~~~~~~~~~ipl~~L~~~k~~p~~vGl~G~vSSilg~y~~~~~~~~~k 233 (233)
T KOG4186|consen 160 SSGDEEDREKLQAQQLDQNHRLLLLSADFNAADSALPLGQLGPGKLNPRQVGLFGLVSSILGMYQLWPPRPKLK 233 (233)
T ss_pred CCccHHHHHHHHHHHHHccchHHHHHHHHHHHHHhhhhhccCcCcCChhHhhHHHHHHHHHHHHHHccccccCC
Confidence 11 111222 2347789999999999999999999999999999999999999999999999999986
No 3
>PF02197 RIIa: Regulatory subunit of type II PKA R-subunit; InterPro: IPR003117 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. In the absence of cAMP, Protein Kinase A (PKA) exists as an equimolar tetramer of regulatory (R) and catalytic (C) subunits []. In addition to its role as an inhibitor of the C subunit, the R subunit anchors the holoenzyme to specific intracellular locations and prevents the C subunit from entering the nucleus. All R subunits have a conserved domain structure consisting of the N-terminal dimerization domain, inhibitory region, cAMP-binding domain A and cAMP-binding domain B. R subunits interact with C subunits primarily through the inhibitory site. The cAMP-binding domains show extensive sequence similarity and bind cAMP cooperatively. Two types of regulatory (R) subunits exist - types I and I - which differ in molecular weight, sequence, autophosphorylation cabaility, cellular location and tissue distribution. Types I and II were further sub-divided into alpha and beta subtypes, based mainly on sequence similarity. This entry represents types I-alpha, I-beta, II-alpha and II-beta regulatory subunits of PKA proteins. These subunits contain the dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).; GO: 0008603 cAMP-dependent protein kinase regulator activity, 0007165 signal transduction; PDB: 2IZY_E 1R2A_A 1L6E_A 2IZX_B 2KYG_A 2EZW_B 3IM4_B 3IM3_A 4F9K_C 2HWN_B ....
Probab=24.20 E-value=55 Score=20.70 Aligned_cols=14 Identities=43% Similarity=0.643 Sum_probs=9.7
Q ss_pred hHHHHHHHhhhhhc
Q psy10515 13 LRDFVREVCIAQSA 26 (280)
Q Consensus 13 ~~~~~~~~~~~~~~ 26 (280)
|.||.+|||..|-.
T Consensus 7 L~~~~~~vl~~qP~ 20 (38)
T PF02197_consen 7 LKEFTREVLREQPD 20 (38)
T ss_dssp HHHHHHHHHHH--S
T ss_pred HHHHHHHHHHHCCC
Confidence 57899999988754
No 4
>PF15343 DEPP: Decidual protein induced by progesterone family
Probab=20.77 E-value=62 Score=28.02 Aligned_cols=22 Identities=50% Similarity=0.847 Sum_probs=18.8
Q ss_pred cchHHHHHHHh-hhhhceeeccC
Q psy10515 11 LSLRDFVREVC-IAQSAIVLNKN 32 (280)
Q Consensus 11 ~~~~~~~~~~~-~~~~~~~~~~~ 32 (280)
-||.|||+-+| .||-.-|+.++
T Consensus 11 pSLdDYvrSIcqLAQPTsVld~~ 33 (188)
T PF15343_consen 11 PSLDDYVRSICQLAQPTSVLDKA 33 (188)
T ss_pred CCHHHHHHHHHHHcCCCcccccc
Confidence 58999999999 58888888865
No 5
>PF03490 Varsurf_PPLC: Variant-surface-glycoprotein phospholipase C; InterPro: IPR003633 Variant-surface-glycoprotein phospholipase C, by hydrolysis of the attached glycolipid, releases soluble variant surface glycoprotein containing phosphoinositol from the cell wall after lysis. It catalyses the conversion of variant-surface-glycoprotein 1,2 didecanoyl-SN-phosphatidylinositol and water to 1,2-didecanoylglycerol and the soluble variant-surface-glycoprotein. It also cleaves similar membrane anchors on some mammalian proteins.; GO: 0047396 glycosylphosphatidylinositol diacylglycerol-lyase activity, 0006650 glycerophospholipid metabolic process
Probab=19.05 E-value=50 Score=22.48 Aligned_cols=32 Identities=41% Similarity=0.472 Sum_probs=25.0
Q ss_pred chHHHHHHHhhhhhceeeccCCCcccccccccC
Q psy10515 12 SLRDFVREVCIAQSAIVLNKNGCGTQGIKKRLP 44 (280)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 44 (280)
.||.+++|.||.|-+|+-.-|. ||.||-+-=|
T Consensus 14 DLrS~I~~~~I~ql~ipGsHns-~tygI~~~Sp 45 (51)
T PF03490_consen 14 DLRSSIGEMAITQLFIPGSHNS-GTYGIHKFSP 45 (51)
T ss_pred HHHHHHhcceeeeEEecccccc-cccccccCCC
Confidence 4889999999999999977664 6777765433
No 6
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=19.01 E-value=60 Score=23.19 Aligned_cols=27 Identities=30% Similarity=0.151 Sum_probs=19.8
Q ss_pred CccccCchhHhhhhhhchhhhccCCc-chHHHHH
Q psy10515 47 NKIIAQPDIKSSLYNFHAENQLNTLF-GSCSLIL 79 (280)
Q Consensus 47 ~~~~~~p~~~~~v~~~~~~~~lst~~-GRDKllR 79 (280)
++--++|++++.++ ||-+|. .|+|+=.
T Consensus 34 ~CF~~~PsikSSLk------FLRkTpWAR~KVE~ 61 (64)
T PF09905_consen 34 NCFKNNPSIKSSLK------FLRKTPWAREKVEN 61 (64)
T ss_dssp SSTTSS--HHHHHH------HHHHSHHHHHHHHH
T ss_pred ccCCCCCchHHHHH------HHhcCHhHHHHHHH
Confidence 56778999999999 998776 7777643
No 7
>smart00394 RIIa RIIalpha, Regulatory subunit portion of type II PKA R-subunit. RIIalpha, Regulatory subunit portion of type II PKA R-subunit. Contains dimerisation interface and binding site for A-kinase-anchoring proteins (AKAPs).
Probab=18.89 E-value=79 Score=19.71 Aligned_cols=14 Identities=43% Similarity=0.449 Sum_probs=10.7
Q ss_pred hHHHHHHHhhhhhc
Q psy10515 13 LRDFVREVCIAQSA 26 (280)
Q Consensus 13 ~~~~~~~~~~~~~~ 26 (280)
|.||++|||..|..
T Consensus 7 L~~~~~~vl~~qP~ 20 (38)
T smart00394 7 LEDLTVEVLRAQPS 20 (38)
T ss_pred HHHHHHHHHHHCCC
Confidence 56889998887743
No 8
>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH. Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.
Probab=18.87 E-value=57 Score=28.56 Aligned_cols=28 Identities=18% Similarity=0.125 Sum_probs=23.2
Q ss_pred chhhhccCCcchHHHHHHHHHHHHHHHH
Q psy10515 63 HAENQLNTLFGSCSLILLVQFASRMVWD 90 (280)
Q Consensus 63 ~~~~~lst~~GRDKllR~lQY~skll~~ 90 (280)
++.+.++.++-++|.+|+.|+.+|+-.+
T Consensus 42 ll~~~~~~~a~~~k~l~i~QfLsRI~eG 69 (200)
T cd00280 42 LLVGPLKLTATQLKTLRIMQFLSRIAEG 69 (200)
T ss_pred HHhccccccccchhHhHHHHHHHHHHcC
Confidence 3445778888999999999999999754
No 9
>KOG0064|consensus
Probab=18.86 E-value=45 Score=34.01 Aligned_cols=18 Identities=28% Similarity=0.671 Sum_probs=14.2
Q ss_pred ceeeccCCCccccccccc
Q psy10515 26 AIVLNKNGCGTQGIKKRL 43 (280)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~ 43 (280)
-.+...||||-||+|.=|
T Consensus 511 LLItGPNGCGKSSLfRIL 528 (728)
T KOG0064|consen 511 LLITGPNGCGKSSLFRIL 528 (728)
T ss_pred EEEECCCCccHHHHHHHH
Confidence 345678999999998654
No 10
>PF12991 DUF3875: Domain of unknown function, B. Theta Gene description (DUF3875); InterPro: IPR024451 This domain of unknown function is found in proteins from Bacteroidetes, including the conjugation system ATPase, TraG.
Probab=18.31 E-value=56 Score=22.61 Aligned_cols=24 Identities=29% Similarity=0.387 Sum_probs=19.6
Q ss_pred ceeeccCCCcccccccccCCCCcc
Q psy10515 26 AIVLNKNGCGTQGIKKRLPEHNKI 49 (280)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~ 49 (280)
..+++|||==|-+|.+.|||==++
T Consensus 21 ~civSk~gDiTv~f~v~LPEiFtl 44 (54)
T PF12991_consen 21 GCIVSKNGDITVAFRVELPEIFTL 44 (54)
T ss_pred CcEEecCCCEEEEEEecCCeeEEe
Confidence 456789999999999999995433
Done!