Query 030270
Match_columns 180
No_of_seqs 120 out of 191
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 11:11:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030270.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030270hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3318 Predicted membrane pro 100.0 2.2E-68 4.7E-73 434.9 13.9 171 9-179 5-176 (178)
2 PF06417 DUF1077: Protein of u 100.0 5E-60 1.1E-64 370.9 11.0 117 52-168 4-124 (124)
3 PRK09555 feoA ferrous iron tra 40.1 13 0.00028 26.6 0.7 36 144-179 23-58 (74)
4 KOG0527 HMG-box transcription 36.1 11 0.00024 34.4 -0.1 10 76-85 66-75 (331)
5 PF04244 DPRP: Deoxyribodipyri 34.6 12 0.00026 32.1 -0.2 34 2-38 164-197 (224)
6 cd00084 HMG-box High Mobility 26.1 25 0.00054 22.7 0.2 10 76-85 4-13 (66)
7 PF12037 DUF3523: Domain of un 25.6 35 0.00076 30.6 1.1 41 106-146 211-253 (276)
8 KOG4655 U3 small nucleolar rib 25.1 24 0.00052 29.9 -0.0 15 144-158 78-92 (181)
9 cd01390 HMGB-UBF_HMG-box HMGB- 21.6 34 0.00075 22.3 0.2 10 76-85 4-13 (66)
10 PF10032 Pho88: Phosphate tran 20.6 1E+02 0.0022 26.1 2.9 28 117-145 22-49 (192)
11 PRK04051 rps4p 30S ribosomal p 20.5 58 0.0013 27.3 1.4 15 142-156 72-86 (177)
No 1
>KOG3318 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=2.2e-68 Score=434.87 Aligned_cols=171 Identities=48% Similarity=0.865 Sum_probs=155.5
Q ss_pred CCCCCceecccCCCCCCCCCCCCCCCCCCCCCCCCcchhhhhhhhhHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHhCCc
Q 030270 9 GSGRRWAVDFTDNSTTPSTRDIADPPGFSRASQDQDDSTLSRQKKDAEANWKSQKAWEVAQAPFKNLMMMGFMMWMAGST 88 (180)
Q Consensus 9 ~~~~kW~~dl~~~~~~~~~~~lp~PpGy~~~~~~~~~~~~~~~~~~~~~~L~~kkaWeiA~~P~K~ipMn~FMmyMsGns 88 (180)
+...+|++++.++....++.++|+||||.+++...++++.+.+++++++.|+.|||||+|++|+||||||+|||||+|||
T Consensus 5 ~~~~~Wa~~~~~~~~~~nsd~~~~PpGf~~~s~~~~~s~~a~r~~d~~~~L~~kkaWdiAl~P~K~iPMN~FmmYMaGns 84 (178)
T KOG3318|consen 5 GEKLDWAVEFSDQSTVPNSDSIPSPPGFSRKSLVQQTSAEADRKKDQEATLVLKKAWDIALGPLKNIPMNLFMMYMAGNS 84 (178)
T ss_pred ccccchHHHhCCcccCCcccCCCCCCCccccccccchHHHHhhhhhHHHHHHHHHHHHHhhChHhhccHHHHHHHHcCCc
Confidence 46789999999977655667889999999886555444444555667789999999999999999999999999999999
Q ss_pred cchhHHHHHHHHHHHHHHHhhhcccccccccccc-ccchhhHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCcccCCCCc
Q 030270 89 VHLFSIGITFSALWQPISALQGVGKVFEPYKDSK-VDLLGPKLLFIALNLGGLALGVWKLNTLGLLPTHASDWVSSLPPA 167 (180)
Q Consensus 89 i~IFsImmv~m~~~~Pikai~~~~~~F~~~e~~~-~~~~~~kl~yv~~ql~~l~lglyK~~~MGLLPt~~sDWla~~~p~ 167 (180)
|||||||||+|+++||||||++++++|++||+++ .+++.+|++|+++|++++++|+|||++|||||||+||||+|++|+
T Consensus 85 vsIFpIMm~~Mml~~PikAl~st~stFkp~eg~~~~q~~~~~lvy~l~nL~~~~lgvyKlqsMGLLPt~aSDWLa~~~pp 164 (178)
T KOG3318|consen 85 VSIFPIMMVLMMLWRPIKALFSTGSTFKPFEGNKASQLFMAKLVYLLGNLGGLALGVYKLQSMGLLPTHASDWLAFEPPP 164 (178)
T ss_pred eEEeHHHHHHHHHHHHHHHHHhhhhhcccccCCchhhhHHHHHHHHHHhhhHHHHHHHhhhhcCCCCCCcccchhccCCc
Confidence 9999999999999999999999999999999976 689999999999999999999999999999999999999999999
Q ss_pred cceeecccCccC
Q 030270 168 LEVEYSGGGIPL 179 (180)
Q Consensus 168 ~~~E~s~Gg~~l 179 (180)
.++||++|+..+
T Consensus 165 ~~~~ys~g~~~f 176 (178)
T KOG3318|consen 165 FRLEYSGGPMCF 176 (178)
T ss_pred ceeeecCCceee
Confidence 999999998754
No 2
>PF06417 DUF1077: Protein of unknown function (DUF1077); InterPro: IPR009445 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=100.00 E-value=5e-60 Score=370.91 Aligned_cols=117 Identities=41% Similarity=0.761 Sum_probs=112.0
Q ss_pred hhhHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHhCCccchhHHHHHHHHHHHHHHHhhhcccccccccccc----ccchh
Q 030270 52 KKDAEANWKSQKAWEVAQAPFKNLMMMGFMMWMAGSTVHLFSIGITFSALWQPISALQGVGKVFEPYKDSK----VDLLG 127 (180)
Q Consensus 52 ~~~~~~~L~~kkaWeiA~~P~K~ipMn~FMmyMsGnsi~IFsImmv~m~~~~Pikai~~~~~~F~~~e~~~----~~~~~ 127 (180)
+++++++|++|||||+|++|+||||||+|||||||||+||||||||+|+++||||||+++|++|++||++. .++++
T Consensus 4 ~~~~~~~L~~KkAWeiA~~P~K~ipMn~FMmyMsGnsi~IFsIm~v~m~~~~Pikai~~~~~~F~~~~~~~~~~~~~~~~ 83 (124)
T PF06417_consen 4 SKEQQDALKVKKAWEIALGPAKSIPMNLFMMYMSGNSIQIFSIMMVGMLLWNPIKAIFSVNQAFKPFEGDSNDNRSQLLL 83 (124)
T ss_pred cHHHHHHHHHHHHHHHHhhHHHhhhHHHHHHHHhCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhhHHH
Confidence 45678899999999999999999999999999999999999999999999999999999999999998863 48999
Q ss_pred hHHHHHHHHHHHHHHHHHHhhcCCCcCCCCCCcccCCCCcc
Q 030270 128 PKLLFIALNLGGLALGVWKLNTLGLLPTHASDWVSSLPPAL 168 (180)
Q Consensus 128 ~kl~yv~~ql~~l~lglyK~~~MGLLPt~~sDWla~~~p~~ 168 (180)
+|++||+||++++++|+||||+|||||||+||||+|++|++
T Consensus 84 ~kl~yvl~ql~~l~~gl~K~~~MGLLPt~~sDWla~~~p~~ 124 (124)
T PF06417_consen 84 QKLVYVLCQLLGLALGLYKCNSMGLLPTTSSDWLAFEPPQQ 124 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHccCCCCCcccccccCCCCC
Confidence 99999999999999999999999999999999999999874
No 3
>PRK09555 feoA ferrous iron transport protein A; Reviewed
Probab=40.13 E-value=13 Score=26.56 Aligned_cols=36 Identities=25% Similarity=0.301 Sum_probs=28.5
Q ss_pred HHHhhcCCCcCCCCCCcccCCCCccceeecccCccC
Q 030270 144 VWKLNTLGLLPTHASDWVSSLPPALEVEYSGGGIPL 179 (180)
Q Consensus 144 lyK~~~MGLLPt~~sDWla~~~p~~~~E~s~Gg~~l 179 (180)
.-||.+||++|-++=.-+.-.+--.++|++.+|..+
T Consensus 23 ~~rL~~mGl~pG~~V~v~~~aP~gdPi~i~v~g~~i 58 (74)
T PRK09555 23 RQKLLSLGMLPGSSFNVVRVAPLGDPIHIETRRVSL 58 (74)
T ss_pred HHHHHHcCCCCCCEEEEEEECCCCCCEEEEECCEEE
Confidence 457899999999998877666667888888877643
No 4
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=36.14 E-value=11 Score=34.37 Aligned_cols=10 Identities=40% Similarity=0.856 Sum_probs=8.7
Q ss_pred HHHHHHHHHh
Q 030270 76 MMMGFMMWMA 85 (180)
Q Consensus 76 pMn~FMmyMs 85 (180)
|||+||.|=-
T Consensus 66 PMNAFMVWSq 75 (331)
T KOG0527|consen 66 PMNAFMVWSQ 75 (331)
T ss_pred CcchhhhhhH
Confidence 9999999943
No 5
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=34.56 E-value=12 Score=32.07 Aligned_cols=34 Identities=32% Similarity=0.614 Sum_probs=11.7
Q ss_pred CCCCCCCCCCCCceecccCCCCCCCCCCCCCCCCCCC
Q 030270 2 EKGKGVMGSGRRWAVDFTDNSTTPSTRDIADPPGFSR 38 (180)
Q Consensus 2 ~~~~~~~~~~~kW~~dl~~~~~~~~~~~lp~PpGy~~ 38 (180)
|.|+|++ -||++|-.|..+-+....+|.|+-|..
T Consensus 164 ~~g~P~G---GkWnfD~eNRk~~p~~~~~P~~~~~~~ 197 (224)
T PF04244_consen 164 EDGKPVG---GKWNFDAENRKKLPKGIPIPEPPRFEP 197 (224)
T ss_dssp ETTEEGG---GSS--GGGS-------TTS--------
T ss_pred CCCCcCC---CcCCCChhhccCCCCCCCCCCCCCCCC
Confidence 4555544 499999988654434457888888875
No 6
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=26.06 E-value=25 Score=22.66 Aligned_cols=10 Identities=0% Similarity=0.368 Sum_probs=8.1
Q ss_pred HHHHHHHHHh
Q 030270 76 MMMGFMMWMA 85 (180)
Q Consensus 76 pMn~FMmyMs 85 (180)
|+|.||+|+.
T Consensus 4 p~~af~~f~~ 13 (66)
T cd00084 4 PLSAYFLFSQ 13 (66)
T ss_pred CCcHHHHHHH
Confidence 7888888874
No 7
>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.
Probab=25.59 E-value=35 Score=30.61 Aligned_cols=41 Identities=27% Similarity=0.344 Sum_probs=26.3
Q ss_pred HHhhhccccccccccccccch--hhHHHHHHHHHHHHHHHHHH
Q 030270 106 SALQGVGKVFEPYKDSKVDLL--GPKLLFIALNLGGLALGVWK 146 (180)
Q Consensus 106 kai~~~~~~F~~~e~~~~~~~--~~kl~yv~~ql~~l~lglyK 146 (180)
+-|-+||.+|..+.++-..++ ..|++-+++-+.+|++|+|-
T Consensus 211 t~lesI~t~f~~lg~G~~~lltD~~kl~~~vgg~T~LA~GvYt 253 (276)
T PF12037_consen 211 TVLESINTTFSHLGEGFRALLTDRDKLTTTVGGLTALAAGVYT 253 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHH
Confidence 344466777777754322211 25788888888888888883
No 8
>KOG4655 consensus U3 small nucleolar ribonucleoprotein (snoRNP) component [RNA processing and modification]
Probab=25.09 E-value=24 Score=29.88 Aligned_cols=15 Identities=40% Similarity=0.676 Sum_probs=12.9
Q ss_pred HHHhhcCCCcCCCCC
Q 030270 144 VWKLNTLGLLPTHAS 158 (180)
Q Consensus 144 lyK~~~MGLLPt~~s 158 (180)
|=|+++||++||.++
T Consensus 78 L~kly~~GvipTr~~ 92 (181)
T KOG4655|consen 78 LEKLYAMGVIPTRKS 92 (181)
T ss_pred hccccccceecchhh
Confidence 558999999999875
No 9
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=21.55 E-value=34 Score=22.25 Aligned_cols=10 Identities=0% Similarity=0.368 Sum_probs=7.9
Q ss_pred HHHHHHHHHh
Q 030270 76 MMMGFMMWMA 85 (180)
Q Consensus 76 pMn~FMmyMs 85 (180)
|+|.||+||.
T Consensus 4 p~saf~~f~~ 13 (66)
T cd01390 4 PLSAYFLFSQ 13 (66)
T ss_pred CCcHHHHHHH
Confidence 7788888864
No 10
>PF10032 Pho88: Phosphate transport (Pho88); InterPro: IPR019263 This entry represents proteins involved in inorganic phosphate transport, as well as telomere length regulation and maintenance [, , , ].
Probab=20.65 E-value=1e+02 Score=26.15 Aligned_cols=28 Identities=18% Similarity=0.278 Sum_probs=22.1
Q ss_pred ccccccccchhhHHHHHHHHHHHHHHHHH
Q 030270 117 PYKDSKVDLLGPKLLFIALNLGGLALGVW 145 (180)
Q Consensus 117 ~~e~~~~~~~~~kl~yv~~ql~~l~lgly 145 (180)
.|+|. ..+...+++|+++|++.+++-+|
T Consensus 22 d~~dP-~v~~~vR~~y~~s~~i~~~~y~y 49 (192)
T PF10032_consen 22 DFEDP-QVLFYVRIAYVASQLIILGVYLY 49 (192)
T ss_pred CCCCH-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34553 34678899999999999998877
No 11
>PRK04051 rps4p 30S ribosomal protein S4P; Validated
Probab=20.49 E-value=58 Score=27.28 Aligned_cols=15 Identities=27% Similarity=0.301 Sum_probs=12.3
Q ss_pred HHHHHhhcCCCcCCC
Q 030270 142 LGVWKLNTLGLLPTH 156 (180)
Q Consensus 142 lglyK~~~MGLLPt~ 156 (180)
.-|.||+.||+|+++
T Consensus 72 ~Ll~kL~~~Gil~~~ 86 (177)
T PRK04051 72 QLLGKLKRYGILKEN 86 (177)
T ss_pred HHHHHHHHcCCCCCC
Confidence 346899999999874
Done!