Query 015612
Match_columns 403
No_of_seqs 122 out of 286
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 07:56:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015612.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015612hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04177 TAP42: TAP42-like fam 100.0 1E-75 2.2E-80 586.3 16.4 322 10-391 1-340 (340)
2 KOG2830 Protein phosphatase 2A 100.0 4.9E-60 1.1E-64 455.9 23.8 308 1-401 1-324 (324)
3 PF12309 KBP_C: KIF-1 binding 41.5 1.2E+02 0.0026 31.2 8.2 76 32-112 262-344 (371)
4 PF13355 DUF4101: Protein of u 37.5 47 0.001 28.2 3.9 41 305-349 6-46 (117)
5 TIGR00256 D-tyrosyl-tRNA(Tyr) 28.5 28 0.00061 31.1 1.1 67 41-112 41-118 (145)
6 KOG2830 Protein phosphatase 2A 21.1 1.6E+02 0.0034 29.8 4.8 31 125-155 120-150 (324)
7 PF08599 Nbs1_C: DNA damage re 20.5 2.3E+02 0.005 21.7 4.4 12 325-336 37-48 (65)
8 KOG2491 Nuclear matrix protein 20.1 3.6E+02 0.0078 29.6 7.4 98 11-111 226-341 (674)
9 COG2188 PhnF Transcriptional r 16.0 96 0.0021 29.4 2.0 18 306-323 16-33 (236)
10 PF00392 GntR: Bacterial regul 14.2 75 0.0016 23.5 0.6 19 306-324 9-27 (64)
No 1
>PF04177 TAP42: TAP42-like family; InterPro: IPR007304 The TOR signalling pathway activates a cell-growth program in response to nutrients []. TIP41 interacts with TAP42 and negatively regulates the TOR signalling pathway [].; GO: 0009966 regulation of signal transduction; PDB: 3QC1_A 2V0P_A.
Probab=100.00 E-value=1e-75 Score=586.34 Aligned_cols=322 Identities=35% Similarity=0.521 Sum_probs=171.3
Q ss_pred CHHHHHHHHHHHhh------hhccCCCchHHHHHHHHHHHHHHHHhhhhcCCCCCCCCccccccchhhhhHHHHhhhhhc
Q 015612 10 PLPSLFERGRKIHQ------IATESGCDPDAVRKGCEVLEKCEDMVGKLGLFSSNETKDDISTANLKYILVPYFLGELIE 83 (403)
Q Consensus 10 sL~~lf~~~~~~~~------~~~~s~~~q~~v~~~i~~l~~~~~~v~~l~lFS~NE~leDIsT~~L~yLllpy~lg~L~~ 83 (403)
||++||..|+++|. .+.+|+.||+.|.++|..|++|+.+|+++||||+||+||||+|++|+|||||||||.|+.
T Consensus 1 ~L~~lf~~~~~~~~~le~~~~~~~s~~~q~~v~~~i~~l~~~~~~v~~l~lFS~NE~ledIsT~~LkyLllpy~Lg~L~~ 80 (340)
T PF04177_consen 1 SLSELFDEALKLYDELENSSLPSSSPEYQEKVKSAIADLEKAQKMVSQLSLFSSNEELEDISTSDLKYLLLPYYLGELTL 80 (340)
T ss_dssp -HHHHHHHHHHHHHHCCC-SS-TTSHHHHHHHHHHHHHHHHHHHHHCCCTCCHCSSSCCCS-CCCHGGGGHHHHHHHHHC
T ss_pred ChHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhCCcCCCCCcccccccchhHHHHHHHHHHHHH
Confidence 69999999999996 366788899999999999999999999999999999999999999999999999999999
Q ss_pred c-ccchhHHHHHHHHHHHHH-HHHHHHhccCCChhHHHHHhhc----------CCcchHHHHHHHHHHHHHHHHHHHHHH
Q 015612 84 K-IAQDDRLQILKASQAKLK-FISFCEIMELVPEEELEAVAQA----------KPTAFTDQRARKIARFKRQRAAESKLQ 151 (403)
Q Consensus 84 k-~~~~~R~~~L~~a~~~~~-FL~~l~~Y~ll~~~~~~~~~~~----------~~~~~a~~R~~KI~rfK~eKel~~kL~ 151 (403)
+ ....+|+.+|+.|+.||. ||++|++|||+++++...+... .+.+|+.+|+.||+|||++|+|+++|.
T Consensus 81 k~~~~~~R~~~L~~A~~~~~~FL~~~~~y~ll~~~~~~~~~~~~~~~~~~~~~~~~~~a~~R~~KI~r~K~eKel~~~L~ 160 (340)
T PF04177_consen 81 KLSNPEDRLEILKRAKEYYIEFLKRCEDYGLLDKDDPKLLESYQDNPSSSSSSSLSDPAARRNEKIARFKREKELEQKLK 160 (340)
T ss_dssp T-HHHHHHHHHHHHHHHHHHHHHCCHHHTT-S-HHHHHHHHT-HHS---SSCCHHHHHHHHHCCHHHHHHHHHHHHHHHH
T ss_pred hhcCchhHHHHHHHHHHHHHHHHHHHHHCCCCChhHHHHHhhcccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9 577899999999999999 9999999999999887765433 356899999999999999999999999
Q ss_pred HHHHHHHhcccccccCCCCCCcccCCCCCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhCCCcc
Q 015612 152 EIKERKERRGRSTRAAAPSAPVEAGEEDVLDDDGEEEREAWLTTISLAVCKALDLLEMLKKEEDMLSAVKERQLKGGEEE 231 (403)
Q Consensus 152 ~L~~~~~~~~r~~~~~~~~~~~e~~~~~~~~~DEE~~Re~~l~~L~l~~~~a~~~L~si~~El~iL~~~~~~~~~~~~~~ 231 (403)
.|++.... +.+++|||++|++||++|++|+++|+++|+||.+|++||++++++........
T Consensus 161 ~l~~~~~~-------------------~~~~~DEE~~Re~~l~~L~~~~~~s~~~l~si~~El~mL~~~~~~~~~~~~~~ 221 (340)
T PF04177_consen 161 ELEKRRES-------------------DDDDDDEEIEREYYLLLLKLWVLKSLEELESIEQELEMLEMRPKMKEAPESEP 221 (340)
T ss_dssp HHHHHHHT-------------------TTT-S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTT----------
T ss_pred HHHHhhcc-------------------cCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCCCCcc
Confidence 99986431 12356999999999999999999999999999999999999988765332210
Q ss_pred hhhHHhHhhhhhhhhhhhhhHhhhhcCCCCCCccccchhhhhhhhcccccccccccCCCccccCccccCCCCchHHHHHH
Q 015612 232 FSEVVLDERSKKAESWHRDAAIRAQYTKPAQPITCATFAQDVLEGRAKVSQAHEHKHQPMIFGPASLVGGGLTSERERMA 311 (403)
Q Consensus 232 ~~~~~~d~r~~~~~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~~~~~~~~Pl~~~p~~~~~~~it~~R~~lq 311 (403)
......+.....+.+|+.+.+ .+.|. ....++| ++|||| ++.|+++|
T Consensus 222 ~~~~~~~~~~~~~~~~~l~~~----~~~pl----------------------~~~~~~~--l~pfti-----~~~R~~~~ 268 (340)
T PF04177_consen 222 SQDERDDEPDADGYSDRLESP----KPGPL----------------------LSKPGKP--LKPFTI-----TSTREQLQ 268 (340)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccccccccccccccccccc----CCCCC----------------------CCCCCCC--CCCccc-----HHHHHHHH
Confidence 000000000011223332220 00010 1112345 489975 45699999
Q ss_pred hhcCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccCCCCCCCCCCcHHHHHHHHhhhccccCCC
Q 015612 312 AQVFQPMHRLPTMSIEEAGLKEMEMMNKWQEMNVKLMEEANSAWYKDNRKLGTSENDNEDDDDDAVQKARAFDDWKDDNP 391 (403)
Q Consensus 312 ~~VFgpGh~LPTMTvdE~~~~E~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~e~dee~~~k~R~WDd~KD~np 391 (403)
++||||||+||||||||||++||+ +|.++.++..........+....+++++++|++++|+|+||||||+||
T Consensus 269 ~~VFgpg~~LPTMTveE~~e~E~~--------~g~~~~~~~~~~~~~~~~~~~~~e~~~e~~d~e~~k~R~WDdwKD~np 340 (340)
T PF04177_consen 269 KKVFGPGHPLPTMTVEEFLEQEMR--------EGNIPQGGGAKAEAKEEEEEEDDEDDDEEDDEETLKAREWDDWKDDNP 340 (340)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHhcCCCCCCCcCcHHHHHHHHHH--------hccCccccccccccccccccchhhhhhhhhcHHHHHHHhhhcccccCC
Confidence 999999999999999999999994 355666543220000011112233455667888999999999999998
No 2
>KOG2830 consensus Protein phosphatase 2A-associated protein [Signal transduction mechanisms]
Probab=100.00 E-value=4.9e-60 Score=455.91 Aligned_cols=308 Identities=35% Similarity=0.501 Sum_probs=243.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHhhhhccCCCchHHHHHHHHHHHHHHHHhhhhcCCCCCCCCccccccchhhhhHHHHhhh
Q 015612 1 MGEVSREELPLPSLFERGRKIHQIATESGCDPDAVRKGCEVLEKCEDMVGKLGLFSSNETKDDISTANLKYILVPYFLGE 80 (403)
Q Consensus 1 ~~~~~~~~~sL~~lf~~~~~~~~~~~~s~~~q~~v~~~i~~l~~~~~~v~~l~lFS~NE~leDIsT~~L~yLllpy~lg~ 80 (403)
|+.+.+...+|..||+...+.+.....+..++..+...|..+..|+.+|++|+|||+||+||||+|++||||+||||||.
T Consensus 1 Ma~~~e~~~~~~~L~d~~~~~~~~~~E~~~~~~~~~~~i~q~~~~t~m~~ql~lFSsNE~iedIsT~sLkyLlVpyflg~ 80 (324)
T KOG2830|consen 1 MASLDELELPLQKLYDLSLKGKQLRDESEVATEPVLKRIKQLKVATEMVNQLALFSSNETIEDISTNSLKYLLVPYFLGK 80 (324)
T ss_pred CcchhhhccchhhhHHHHHHhHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHHhhcccchhhhccccccchhhhHHHHHH
Confidence 78888888888888888887766667888899999999999999999999999999999999999999999999999999
Q ss_pred hhccccchhHHHHHHHHHHHHH-HHHHHHhccCCChhHH---------HHH----hhcCCcchHHHHHHHHHHHHHHHHH
Q 015612 81 LIEKIAQDDRLQILKASQAKLK-FISFCEIMELVPEEEL---------EAV----AQAKPTAFTDQRARKIARFKRQRAA 146 (403)
Q Consensus 81 L~~k~~~~~R~~~L~~a~~~~~-FL~~l~~Y~ll~~~~~---------~~~----~~~~~~~~a~~R~~KI~rfK~eKel 146 (403)
|+.++.+..|+++|+.|..||. ||.+|..|+|++.... ... .......++..|..||+||+++||+
T Consensus 81 Lt~k~~~~~~~~~lk~a~~~f~~~ls~c~~y~L~~~~~~k~~~~~~~~~~~~s~~~~~~l~~~~~~r~~Kier~~r~kEl 160 (324)
T KOG2830|consen 81 LTEKQINEDRLDHLKLAEEHFINFLSRCQDYHLAPFELPKTKNNAADRALKISRMAEKSLVEAALKRQKKIERYKRKKEL 160 (324)
T ss_pred HHHHhhcCchHHHHHHHHHHHHHHHHHHhccCccchhhccccCchhHHHHHHhhhccchhHHHHHHHHhHHHHHHHHHHH
Confidence 9999877778999999999999 9999999999654321 111 2235668999999999999999999
Q ss_pred HHHHHHHHHHHHhcccccccCCCCCCcccCCCCCCCCChHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhHHhhh
Q 015612 147 ESKLQEIKERKERRGRSTRAAAPSAPVEAGEEDVLDDDGEEEREAWLTTISL-AVCKALDLLEMLKKEEDMLSAVKERQL 225 (403)
Q Consensus 147 ~~kL~~L~~~~~~~~r~~~~~~~~~~~e~~~~~~~~~DEE~~Re~~l~~L~l-~~~~a~~~L~si~~El~iL~~~~~~~~ 225 (403)
+.+|..++.. ++++ .+||+.+|++|+.+|+. |+..+++++++|.+|+.+|+....
T Consensus 161 ~~~l~~~~~a----------------ve~~-----~~Dde~lrelyl~~l~~~~~d~~lee~E~i~~e~r~lkE~~s--- 216 (324)
T KOG2830|consen 161 KHRLTRMQSA----------------VEDG-----QDDDEHLRELYLLQLQRGWIDISLEEEESIDQEERLLKEGES--- 216 (324)
T ss_pred HHHHHHHHHh----------------hhcC-----CCchHHHHHHHHHHHHhhhhchhHHHHHHHHHHHHHHhcccc---
Confidence 9999999862 5554 34777799999999999 999999999999999999982110
Q ss_pred hCCCcchhhHHhHhhhhhhhhhhhhhHhhhhcCCCCCCccccchhhhhhhhcccccccccccCCCccccCccccCCCCch
Q 015612 226 KGGEEEFSEVVLDERSKKAESWHRDAAIRAQYTKPAQPITCATFAQDVLEGRAKVSQAHEHKHQPMIFGPASLVGGGLTS 305 (403)
Q Consensus 226 ~~~~~~~~~~~~d~r~~~~~~~~~~~~~~~~~~~p~~p~~~~~~~~~~~~~~~~~~~~~~~~~~Pl~~~p~~~~~~~it~ 305 (403)
|+ +.. +.++. ++ ..+| ...||++
T Consensus 217 ---------------------~r-~~s-------t~~t~------------~~--------e~~p-~~~~fi~------- 239 (324)
T KOG2830|consen 217 ---------------------SR-DPS-------TSNTS------------RG--------ETRP-PLFPFII------- 239 (324)
T ss_pred ---------------------cc-ccc-------cCccc------------cc--------cCCC-CcchHHH-------
Confidence 00 000 00000 00 0144 4477753
Q ss_pred HHHHHHhhcCCCCCC-CCcccHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccccccCCCCCCCCCCcHHHHHHHHhhh
Q 015612 306 ERERMAAQVFQPMHR-LPTMSIEEAGLKEMEMMNKWQEMNVKLMEEANSAWYKDNRKLGTSENDNEDDDDDAVQKARAFD 384 (403)
Q Consensus 306 ~R~~lq~~VFgpGh~-LPTMTvdE~~~~E~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~e~dee~~~k~R~WD 384 (403)
.|++.|++|||.||+ |||||||||++++|++ |.++.++..+.... .+++++++++|+++++|+|+||
T Consensus 240 ~r~~~q~kVfG~Gyp~lPtMsvdE~~~~~~~~--------g~a~~~~~~~~~a~----~ed~E~~e~ddd~~~~kar~wD 307 (324)
T KOG2830|consen 240 TRNETQKKVFGLGYPGLPTMTVDEFLDQEFEE--------GIAKAEAEESRPAA----KEDQEEEEEDDDEATMKARRWD 307 (324)
T ss_pred HHHHHhhhhhhcCCCCCccccHHHHHHHHHHh--------hhcccCcccccccc----cchhhhhcccChHHHHHHhhhc
Confidence 399999999999995 8999999999988842 43333322221111 1122225778899999999999
Q ss_pred ccccCCCCCCCCCCCCC
Q 015612 385 DWKDDNPRGAGNKKLTP 401 (403)
Q Consensus 385 d~KD~npRG~GN~~~~~ 401 (403)
+|||+|||||||||+++
T Consensus 308 e~Kd~~prG~GN~~n~~ 324 (324)
T KOG2830|consen 308 EFKDDHPRGSGNTMNTG 324 (324)
T ss_pred cccccCcccccccccCC
Confidence 99999999999999986
No 3
>PF12309 KBP_C: KIF-1 binding protein C terminal; InterPro: IPR022083 This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 365 and 621 amino acids in length. There is a conserved LLP sequence motif. KBP is a binding partner for KIF1Balpha that is a regulator of its transport function and thus represents a type of kinesin interacting protein.
Probab=41.46 E-value=1.2e+02 Score=31.18 Aligned_cols=76 Identities=18% Similarity=0.342 Sum_probs=53.5
Q ss_pred hHHHHHHHHHHHHHHHHhhhhcCCCCC--CCCccccccchh-hhhHHHHhhhhhcccc---chhHHHHHHHHHHHHH-HH
Q 015612 32 PDAVRKGCEVLEKCEDMVGKLGLFSSN--ETKDDISTANLK-YILVPYFLGELIEKIA---QDDRLQILKASQAKLK-FI 104 (403)
Q Consensus 32 q~~v~~~i~~l~~~~~~v~~l~lFS~N--E~leDIsT~~L~-yLllpy~lg~L~~k~~---~~~R~~~L~~a~~~~~-FL 104 (403)
-..+.++|..|+....... +++ +.-+-+..+.++ ||..=|++|.|+.|+. +..++++|..|-.+|. ++
T Consensus 262 n~l~~~ai~~y~~fl~s~~-----~~~~~~~~~~~~~d~~~~~l~a~f~~arl~~K~~~~~~~~~~~~l~~sl~~y~~vv 336 (371)
T PF12309_consen 262 NQLCSKAIKYYQKFLDSYK-----SPDSGKLPEKLDEDELRPYLYAYFHIARLYSKLITSDPKEQLENLEKSLEYYKWVV 336 (371)
T ss_pred HHHHHHHHHHHHHHHHHHc-----CCccccCCCCCcHHHHHHHHHHHHHHHHHHccccCCChHHHHHHHHHHHHHHHHHH
Confidence 3445667777755544333 444 222225555554 6667788999999983 4579999999999999 99
Q ss_pred HHHHhccC
Q 015612 105 SFCEIMEL 112 (403)
Q Consensus 105 ~~l~~Y~l 112 (403)
..|+.+..
T Consensus 337 ~y~~~~~~ 344 (371)
T PF12309_consen 337 DYCEKHPE 344 (371)
T ss_pred HHHHhChh
Confidence 99999986
No 4
>PF13355 DUF4101: Protein of unknown function (DUF4101)
Probab=37.47 E-value=47 Score=28.22 Aligned_cols=41 Identities=22% Similarity=0.272 Sum_probs=26.9
Q ss_pred hHHHHHHhhcCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHH
Q 015612 305 SERERMAAQVFQPMHRLPTMSIEEAGLKEMEMMNKWQEMNVKLME 349 (403)
Q Consensus 305 ~~R~~lq~~VFgpGh~LPTMTvdE~~~~E~e~~~~~~~~~~~~~~ 349 (403)
..-...|+.+|||.|. +=.+++++...| +..|+.+......
T Consensus 6 ~~Wl~~Ka~alg~~~~--~~~L~~vl~g~l--l~~w~~~a~~~~~ 46 (117)
T PF13355_consen 6 QRWLSAKAQALGPPHD--IDSLSEVLTGPL--LSQWQDRAQWLKA 46 (117)
T ss_pred HHHHHHHHHHhCCCcc--hhHHHHHhhHHH--HHHHHHHHHHHHH
Confidence 3467789999999996 334555555555 6667666554444
No 5
>TIGR00256 D-tyrosyl-tRNA(Tyr) deacylase. This homodimeric enzyme appears able to cleave any D-amino acid (and glycine, which does not have distinct D/L forms) from charged tRNA. The name reflects characterization with respect to D-Tyr on tRNA(Tyr) as established in the literature, but substrate specificity seems much broader.
Probab=28.48 E-value=28 Score=31.05 Aligned_cols=67 Identities=16% Similarity=0.257 Sum_probs=44.4
Q ss_pred HHHHHHHHhhhhcCCCCCC-----CCccccccchhhhhHHHHhhhhhccccchhHHHHH-----HHHHHHHH-HHHHHHh
Q 015612 41 VLEKCEDMVGKLGLFSSNE-----TKDDISTANLKYILVPYFLGELIEKIAQDDRLQIL-----KASQAKLK-FISFCEI 109 (403)
Q Consensus 41 ~l~~~~~~v~~l~lFS~NE-----~leDIsT~~L~yLllpy~lg~L~~k~~~~~R~~~L-----~~a~~~~~-FL~~l~~ 109 (403)
....+..-|-.|-||++.+ ++.|+ +-..|+||=| .|+......+|..+- +.|+.+|. |+..|+.
T Consensus 41 ~~~~~~~Kil~lRif~de~gk~~~Sv~d~---~geiL~VSQF--TL~a~~~KG~rPsF~~a~~~~~A~~ly~~fv~~l~~ 115 (145)
T TIGR00256 41 KADKLAEKVLNYRIFSDSEGKMNLNVQQA---GGEILSVSQF--TLAADTKKGMRPSFSKGASPDRAEELYEYFVELCRE 115 (145)
T ss_pred HHHHHHHHHhheEeccCCCCCccCCHHHC---CCCEEEEECC--cccccCCCCCCCCccccCCHHHHHHHHHHHHHHHHh
Confidence 3455677777899999844 44444 2345666655 666655434454433 58899999 9999998
Q ss_pred ccC
Q 015612 110 MEL 112 (403)
Q Consensus 110 Y~l 112 (403)
++.
T Consensus 116 ~~~ 118 (145)
T TIGR00256 116 KGM 118 (145)
T ss_pred cCC
Confidence 763
No 6
>KOG2830 consensus Protein phosphatase 2A-associated protein [Signal transduction mechanisms]
Probab=21.12 E-value=1.6e+02 Score=29.76 Aligned_cols=31 Identities=29% Similarity=0.363 Sum_probs=25.5
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 015612 125 KPTAFTDQRARKIARFKRQRAAESKLQEIKE 155 (403)
Q Consensus 125 ~~~~~a~~R~~KI~rfK~eKel~~kL~~L~~ 155 (403)
....++..|..||++|+...-+...+....+
T Consensus 120 k~~~~~~~~~~~~s~~~~~~l~~~~~~r~~K 150 (324)
T KOG2830|consen 120 KTKNNAADRALKISRMAEKSLVEAALKRQKK 150 (324)
T ss_pred cccCchhHHHHHHhhhccchhHHHHHHHHhH
Confidence 3458899999999999999888887766554
No 7
>PF08599 Nbs1_C: DNA damage repair protein Nbs1; InterPro: IPR013908 This C-terminal region of the DNA damage repair protein Nbs1 has been identified to be necessary for the binding of Mre11 and Tel1 [].
Probab=20.53 E-value=2.3e+02 Score=21.75 Aligned_cols=12 Identities=42% Similarity=0.307 Sum_probs=9.9
Q ss_pred cHHHHHHHHHHH
Q 015612 325 SIEEAGLKEMEM 336 (403)
Q Consensus 325 TvdE~~~~E~e~ 336 (403)
.+|||+.+||+.
T Consensus 37 eleeWl~~e~E~ 48 (65)
T PF08599_consen 37 ELEEWLRQEMEE 48 (65)
T ss_pred cHHHHHHHHHHH
Confidence 789999988853
No 8
>KOG2491 consensus Nuclear matrix protein [Nuclear structure]
Probab=20.12 E-value=3.6e+02 Score=29.57 Aligned_cols=98 Identities=10% Similarity=0.076 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHhhhhc------cCC---CchHHHHHHHHHHHHHHHHhhhhcCCCCCCCCccccccchhhhhH------H
Q 015612 11 LPSLFERGRKIHQIAT------ESG---CDPDAVRKGCEVLEKCEDMVGKLGLFSSNETKDDISTANLKYILV------P 75 (403)
Q Consensus 11 L~~lf~~~~~~~~~~~------~s~---~~q~~v~~~i~~l~~~~~~v~~l~lFS~NE~leDIsT~~L~yLll------p 75 (403)
...||..=|.+...-. +.+ .++..+..+|..|.... .+.+. =++||.+++.+|..+.+..| -
T Consensus 226 d~~lY~~FWSLQ~~f~NP~sly~k~kw~~F~~~~~~vLq~F~S~k--le~~~-~~sn~~~ee~at~~~s~~~i~k~ff~K 302 (674)
T KOG2491|consen 226 DYNLYRKFWSLQDYFSNPNSLYEKIKWKKFLKYLEEVLQVFKSYK--LEDTF-GESNEKMEELATGGESVKYIDKGFFAK 302 (674)
T ss_pred cHHHHHHHHHHHHHhcCcHHHhcchHHHHHHHHHHHHHHHHhhhh--hhhhh-cccccccchhhhcCcchhhhhcchhHH
Confidence 6788888887654321 122 24455555555552211 11111 36899999999998877333 2
Q ss_pred HHhhhhh--cccc-chhHHHHHHHHHHHHHHHHHHHhcc
Q 015612 76 YFLGELI--EKIA-QDDRLQILKASQAKLKFISFCEIME 111 (403)
Q Consensus 76 y~lg~L~--~k~~-~~~R~~~L~~a~~~~~FL~~l~~Y~ 111 (403)
|+-..-+ .++. .+-|.++|-++-+.|.||.-=..+.
T Consensus 303 flts~kLlalQLsDssFRr~~LlQ~lIiFqYL~~~~Kfk 341 (674)
T KOG2491|consen 303 FLTSPKLLALQLSDSSFRRHILLQYLIIFQYLKAQSKFK 341 (674)
T ss_pred HhccHHHhhhhcCchHHHHHHHHHHHHHHHHHhhhcccc
Confidence 2222111 1222 3459999999988888887766555
No 9
>COG2188 PhnF Transcriptional regulators [Transcription]
Probab=15.96 E-value=96 Score=29.42 Aligned_cols=18 Identities=28% Similarity=0.578 Sum_probs=17.0
Q ss_pred HHHHHHhhcCCCCCCCCc
Q 015612 306 ERERMAAQVFQPMHRLPT 323 (403)
Q Consensus 306 ~R~~lq~~VFgpGh~LPT 323 (403)
-++++++++|.||+.||+
T Consensus 16 i~~~I~~G~~~~G~~LPs 33 (236)
T COG2188 16 IRQRIESGELPPGDKLPS 33 (236)
T ss_pred HHHHHHhCCCCCCCCCCC
Confidence 499999999999999998
No 10
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=14.23 E-value=75 Score=23.51 Aligned_cols=19 Identities=26% Similarity=0.431 Sum_probs=14.4
Q ss_pred HHHHHHhhcCCCCCCCCcc
Q 015612 306 ERERMAAQVFQPMHRLPTM 324 (403)
Q Consensus 306 ~R~~lq~~VFgpGh~LPTM 324 (403)
-++.++.+.|.||..|||.
T Consensus 9 l~~~I~~g~~~~g~~lps~ 27 (64)
T PF00392_consen 9 LRQAILSGRLPPGDRLPSE 27 (64)
T ss_dssp HHHHHHTTSS-TTSBE--H
T ss_pred HHHHHHcCCCCCCCEeCCH
Confidence 3899999999999999975
Done!