Query 012018
Match_columns 473
No_of_seqs 164 out of 206
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 07:45:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012018.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012018hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04782 DUF632: Protein of un 100.0 1.4E-32 3.1E-37 277.8 7.0 109 328-472 1-109 (312)
2 PF04783 DUF630: Protein of un 100.0 1.4E-29 3E-34 199.1 8.0 60 1-60 1-60 (60)
3 PF06404 PSK: Phytosulfokine p 41.0 14 0.0003 31.3 1.2 12 30-42 63-74 (81)
4 PF06600 DUF1140: Protein of u 39.0 20 0.00044 31.7 1.8 16 448-463 73-88 (107)
5 PF06989 BAALC_N: BAALC N-term 30.6 20 0.00044 27.8 0.5 10 1-10 1-10 (53)
6 PF12408 DUF3666: Ribose-5-pho 26.3 52 0.0011 25.5 2.0 24 326-349 4-27 (48)
7 KOG2675 Adenylate cyclase-asso 20.9 63 0.0014 35.5 2.1 20 157-176 230-249 (480)
8 COG4817 DNA-binding ferritin-l 18.7 1.3E+02 0.0029 27.0 3.3 30 325-354 44-75 (111)
9 PF09225 Endonuc-PvuII: Restri 16.9 96 0.0021 29.0 2.1 25 435-463 107-132 (155)
10 PF07716 bZIP_2: Basic region 16.3 4.3E+02 0.0094 20.1 5.3 34 10-43 12-45 (54)
No 1
>PF04782 DUF632: Protein of unknown function (DUF632); InterPro: IPR006867 This conserved region contains a leucine zipper-like domain. The proteins are found only in plants and their functions are unknown.
Probab=99.97 E-value=1.4e-32 Score=277.82 Aligned_cols=109 Identities=42% Similarity=0.686 Sum_probs=90.9
Q ss_pred chHHHHHHHHHHHHHHHhcCCchhhhhhcccCCCCcccccccccchhhHHHHhhhccCCCCCCCCCcccccccceeeeee
Q 012018 328 DFFSSMKDIELLFIKASDSGKEVPRMLEANKLHFRPIFEEKDSDSMASTILKACFSCGEDPPQVQEEPVQTDVKYLTWHR 407 (473)
Q Consensus 328 d~~ev~keIe~~F~rA~~sg~eVs~mLE~~k~~y~~~~~~~~~~~~~s~~~~~~~~c~~~~s~~~~~~~~~~~k~~~w~r 407 (473)
||++||||||++|+|||+||+|||+||||||++|++.+..... ...+..++++.|+|+|
T Consensus 1 dl~ev~kei~~~F~kAs~sg~eVs~lLE~~k~~~~~~~~~~~~---------------------~~~~s~~~~~~~~w~~ 59 (312)
T PF04782_consen 1 DLLEVVKEIDDYFLKASESGKEVSRLLEAGKIHYHSNFSDLKG---------------------KVDHSSRVLSPISWSR 59 (312)
T ss_pred CHHHHHHHHHHHHHHHHHhHHHHHHHhcCCCCCCCcccccccc---------------------cccchhhhccccccCC
Confidence 7899999999999999999999999999999999998876211 1122345678899998
Q ss_pred ccccCCCCCCCCCCCCCCcccccccCCccccccccccchhhHHHHHHHHHHHHHhhhcCcCcccc
Q 012018 408 TTSSRSSSSRNPLGANSKDDVEDLTGDIFDSIHMISSSHASTLDRLYAWERKLYDEVKVPNFLLW 472 (473)
Q Consensus 408 s~Ss~sssSr~pl~~~~~~d~~~~~~d~~ee~~m~sgShsSTLdRLyaWEkKLYdEVKa~E~~~~ 472 (473)
+.+|+ ..+...++.+++||++|||+||||||||||||||+|||++|.||.
T Consensus 60 s~~s~---------------~~~~~~~~~~~~~~~~gshssTLdkLyaWEKKLY~EVKa~E~~r~ 109 (312)
T PF04782_consen 60 SSSSR---------------ISNSDSDFDEEECMGSGSHSSTLDKLYAWEKKLYDEVKAEEKLRI 109 (312)
T ss_pred CCCCc---------------ccccccCcCcccCcccchHHHHHHHHHHHHHHHHHHHHccHHHHH
Confidence 86664 122345677889999999999999999999999999999999974
No 2
>PF04783 DUF630: Protein of unknown function (DUF630); InterPro: IPR006868 This region is sometimes found at the N terminus of putative plant bZIP proteins IPR006867 from INTERPRO. The function of this conserved region is not known.
Probab=99.96 E-value=1.4e-29 Score=199.11 Aligned_cols=60 Identities=55% Similarity=0.927 Sum_probs=59.0
Q ss_pred CCCCcccccchHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhhccCC
Q 012018 1 MGVSSSKLEEDKALQLCRERKKFVRQALDGRCSLAATHVMYVQSLRNTGTALRKFVEPEG 60 (473)
Q Consensus 1 MGc~~Sk~d~~~av~~CkeRk~~~k~Av~~R~~lAaaH~~Y~~SL~~~g~aL~~f~~~e~ 60 (473)
|||++||+|++|+|++|||||+|||+||++||+||+||++|++|||+||.||++|+++|+
T Consensus 1 MGC~~SK~d~eeaV~~CkeRkr~~k~Av~~R~~lAaaH~aY~~SLr~~g~aL~~F~~~et 60 (60)
T PF04783_consen 1 MGCSQSKLDDEEAVSLCKERKRLMKQAVDARYALAAAHAAYIQSLRNVGAALRQFAEGET 60 (60)
T ss_pred CCCCcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 999999999999999999999999999999999999999999999999999999999984
No 3
>PF06404 PSK: Phytosulfokine precursor protein (PSK); InterPro: IPR009438 This family consists of several plant specific phytosulfokine precursor proteins. Phytosulfokines, are active as either a pentapeptide or a C-terminally truncated tetrapeptide. These compounds were first isolated because of their ability to stimulate cell division in somatic embryo cultures of Asparagus officinalis [].; GO: 0008083 growth factor activity, 0008283 cell proliferation, 0005576 extracellular region
Probab=40.99 E-value=14 Score=31.30 Aligned_cols=12 Identities=42% Similarity=0.645 Sum_probs=10.3
Q ss_pred hhHHHHHHHHHHH
Q 012018 30 GRCSLAATHVMYV 42 (473)
Q Consensus 30 ~R~~lAaaH~~Y~ 42 (473)
.|..|| ||.+||
T Consensus 63 ~RRtL~-AHlDYI 74 (81)
T PF06404_consen 63 MRRTLA-AHLDYI 74 (81)
T ss_pred HHHHHH-HHhhhe
Confidence 477888 999998
No 4
>PF06600 DUF1140: Protein of unknown function (DUF1140); InterPro: IPR009520 This entry is represented by Bacteriophage bIL286, Orf36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several short, hypothetical phage and bacterial proteins. The function of this family is unknown.
Probab=38.99 E-value=20 Score=31.74 Aligned_cols=16 Identities=38% Similarity=0.922 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHHHHhh
Q 012018 448 STLDRLYAWERKLYDE 463 (473)
Q Consensus 448 STLdRLyaWEkKLYdE 463 (473)
--|||||-|-.||.+|
T Consensus 73 ~e~Dr~~~Ws~kLHQd 88 (107)
T PF06600_consen 73 AEIDRLFHWSSKLHQD 88 (107)
T ss_pred HHHHHHhhHHHHHHHH
Confidence 4689999999999987
No 5
>PF06989 BAALC_N: BAALC N-terminus; InterPro: IPR009728 This entry represents the mammalian BAALC proteins. BAALC (brain and acute leukaemia, cytoplasmic) is highly conserved among mammals, but is absent from lower organisms. Two isoforms are specifically expressed in neuroectoderm-derived tissues, but not in tumours or cancer cell lines of non-neural tissue origin. It has been shown that blasts from a subset of patients with acute leukaemia greatly overexpress eight different BAALC transcripts, resulting in five protein isoforms. Among patients with acute myeloid leukaemia, those overexpressing BAALC show distinctly poor prognosis, pointing to a key role of the BAALC products in leukaemia. It has been suggested that BAALC is a gene implicated in both neuroectodermal and hematopoietic cell functions [].; GO: 0005737 cytoplasm
Probab=30.58 E-value=20 Score=27.75 Aligned_cols=10 Identities=30% Similarity=0.604 Sum_probs=8.3
Q ss_pred CCCCcccccc
Q 012018 1 MGVSSSKLEE 10 (473)
Q Consensus 1 MGc~~Sk~d~ 10 (473)
|||+.|+.|.
T Consensus 1 mgcggsrada 10 (53)
T PF06989_consen 1 MGCGGSRADA 10 (53)
T ss_pred CCCCcccccc
Confidence 8999998765
No 6
>PF12408 DUF3666: Ribose-5-phosphate isomerase ; InterPro: IPR022133 This domain family is found in bacteria, and is approximately 50 amino acids in length. The family is found in association with PF02502 from PFAM. There are two completely conserved residues (D and F) that may be functionally important. ; PDB: 3ONO_A 3C5Y_N 2PPW_A.
Probab=26.34 E-value=52 Score=25.54 Aligned_cols=24 Identities=29% Similarity=0.447 Sum_probs=17.9
Q ss_pred CcchHHHHHHHHHHHHHHHhcCCc
Q 012018 326 SKDFFSSMKDIELLFIKASDSGKE 349 (473)
Q Consensus 326 ~~d~~ev~keIe~~F~rA~~sg~e 349 (473)
.||+++++|+|+..|+|.+=+|..
T Consensus 4 ~k~ll~iLk~iDqdLvK~AisGe~ 27 (48)
T PF12408_consen 4 YKDLLDILKAIDQDLVKTAISGER 27 (48)
T ss_dssp S--HHHHHHHS-HHHHHHHT-SHH
T ss_pred hhhHHHHHHHhCHHHHHHHhccHH
Confidence 479999999999999999988754
No 7
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=20.92 E-value=63 Score=35.49 Aligned_cols=20 Identities=20% Similarity=0.340 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCC
Q 012018 157 EPAESSQFEDSPLPPETQPW 176 (473)
Q Consensus 157 ~~~~s~~~~ppp~PP~~s~W 176 (473)
...+..|+||||+||+.+-|
T Consensus 230 ~s~~g~PPPPPP~PPp~~~~ 249 (480)
T KOG2675|consen 230 ASAPGAPPPPPPAPPPAPFF 249 (480)
T ss_pred ccCCCCCCCCCCCCCCcccc
No 8
>COG4817 DNA-binding ferritin-like protein (Dps family) [General function prediction only]
Probab=18.70 E-value=1.3e+02 Score=27.03 Aligned_cols=30 Identities=30% Similarity=0.420 Sum_probs=23.5
Q ss_pred CCcchHH--HHHHHHHHHHHHHhcCCchhhhh
Q 012018 325 ASKDFFS--SMKDIELLFIKASDSGKEVPRML 354 (473)
Q Consensus 325 ~~~d~~e--v~keIe~~F~rA~~sg~eVs~mL 354 (473)
++.+..+ ++++|=+.|.-|+..|++|..+|
T Consensus 44 g~t~~~~~~Il~~iLelfE~aaadgk~v~dv~ 75 (111)
T COG4817 44 GPTGWNEMKILGNILELFEEAAADGKEVTDVL 75 (111)
T ss_pred CcchhHHHHHHHHHHHHHHHHHhccccHHHHh
Confidence 4555555 88888888888888888888776
No 9
>PF09225 Endonuc-PvuII: Restriction endonuclease PvuII; InterPro: IPR015306 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the type II restriction endonuclease PvuII, which recognise the double-stranded DNA sequence 5'-CAGCTG-3' and cleave after G-3 []. ; PDB: 1H56_B 1EYU_A 3KSK_B 1F0O_A 1PVI_B 1PVU_B 3PVI_A 1K0Z_B 1NI0_A 2PVI_A ....
Probab=16.88 E-value=96 Score=29.04 Aligned_cols=25 Identities=28% Similarity=0.733 Sum_probs=17.2
Q ss_pred ccccccccccchhhHHHHHHH-HHHHHHhh
Q 012018 435 IFDSIHMISSSHASTLDRLYA-WERKLYDE 463 (473)
Q Consensus 435 ~~ee~~m~sgShsSTLdRLya-WEkKLYdE 463 (473)
+.+-++|. -.-|+.+|. ||+|+|.-
T Consensus 107 l~~iY~l~----p~~lE~~y~~WE~kw~~~ 132 (155)
T PF09225_consen 107 LQEIYKLT----PEDLEPFYDKWERKWYSD 132 (155)
T ss_dssp EEEEEEE-----HHHHHHHHHHHHHHHHHT
T ss_pred hhhhhhcC----HHHhHHHHHHHHHHHHhc
Confidence 33455665 567889984 99999963
No 10
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=16.31 E-value=4.3e+02 Score=20.06 Aligned_cols=34 Identities=18% Similarity=0.173 Sum_probs=0.0
Q ss_pred chHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 012018 10 EDKALQLCRERKKFVRQALDGRCSLAATHVMYVQ 43 (473)
Q Consensus 10 ~~~av~~CkeRk~~~k~Av~~R~~lAaaH~~Y~~ 43 (473)
+-.|+..||+|++.-.+-+..+...-..-...++
T Consensus 12 Nr~AA~r~R~rkk~~~~~le~~~~~L~~en~~L~ 45 (54)
T PF07716_consen 12 NREAARRSRQRKKQREEELEQEVQELEEENEQLR 45 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Done!