Query 019254
Match_columns 344
No_of_seqs 128 out of 179
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 07:58:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019254.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019254hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04674 Phi_1: Phosphate-indu 100.0 2E-128 5E-133 914.0 24.8 271 59-340 1-272 (273)
2 TIGR01432 QOXA cytochrome aa3 55.1 7 0.00015 36.4 1.6 16 165-182 134-149 (217)
3 PF07172 GRP: Glycine rich pro 50.2 15 0.00033 30.7 2.7 18 9-26 11-28 (95)
4 MTH00139 COX2 cytochrome c oxi 47.1 12 0.00026 35.2 1.8 17 165-183 144-160 (226)
5 TIGR01433 CyoA cytochrome o ub 41.4 15 0.00032 34.9 1.5 17 165-183 143-159 (226)
6 TIGR02866 CoxB cytochrome c ox 41.1 16 0.00034 33.6 1.6 18 171-189 125-142 (201)
7 MTH00038 COX2 cytochrome c oxi 39.7 18 0.00039 34.2 1.8 17 165-183 144-160 (229)
8 COG3560 FMR2 Predicted oxidore 39.6 44 0.00095 31.7 4.2 41 140-180 16-58 (200)
9 MTH00168 COX2 cytochrome c oxi 37.4 21 0.00046 33.6 1.9 17 165-183 144-160 (225)
10 MTH00023 COX2 cytochrome c oxi 37.2 21 0.00046 34.0 1.9 17 165-183 155-171 (240)
11 MTH00154 COX2 cytochrome c oxi 34.5 23 0.00049 33.6 1.6 16 165-182 144-159 (227)
12 MTH00140 COX2 cytochrome c oxi 33.6 25 0.00055 33.1 1.7 17 165-183 144-160 (228)
13 MTH00047 COX2 cytochrome c oxi 33.5 25 0.00053 32.8 1.6 13 171-183 124-136 (194)
14 MTH00117 COX2 cytochrome c oxi 32.2 27 0.00058 33.0 1.7 17 165-183 144-160 (227)
15 MTH00027 COX2 cytochrome c oxi 30.4 32 0.00069 33.5 1.9 17 165-183 178-194 (262)
16 MTH00080 COX2 cytochrome c oxi 30.4 31 0.00067 32.9 1.7 17 165-183 147-163 (231)
17 MTH00051 COX2 cytochrome c oxi 29.7 30 0.00064 33.0 1.5 17 165-183 148-164 (234)
18 MTH00185 COX2 cytochrome c oxi 28.8 34 0.00074 32.5 1.8 17 165-183 144-160 (230)
19 MTH00008 COX2 cytochrome c oxi 28.6 35 0.00075 32.4 1.8 17 165-183 144-160 (228)
20 MTH00098 COX2 cytochrome c oxi 27.6 42 0.00092 31.8 2.1 17 165-183 144-160 (227)
21 MTH00129 COX2 cytochrome c oxi 26.0 39 0.00085 32.0 1.6 17 165-183 144-160 (230)
22 MTH00076 COX2 cytochrome c oxi 25.5 42 0.00091 31.8 1.7 17 165-183 144-160 (228)
23 PF09382 RQC: RQC domain; Int 21.8 1.1E+02 0.0024 24.5 3.2 27 139-165 46-72 (106)
24 PF15232 DUF4585: Domain of un 21.7 91 0.002 25.5 2.7 38 298-337 3-41 (75)
25 PF08145 BOP1NT: BOP1NT (NUC16 20.4 77 0.0017 31.2 2.4 54 82-168 17-71 (260)
No 1
>PF04674 Phi_1: Phosphate-induced protein 1 conserved region; InterPro: IPR006766 This entry represents a family of conserved plant proteins. A conserved region in these proteins was identified in a phosphate-induced protein of unknown function [].
Probab=100.00 E-value=2.2e-128 Score=913.96 Aligned_cols=271 Identities=51% Similarity=0.972 Sum_probs=262.3
Q ss_pred eeecCCccccCCCceEeEEEeecCCchhHHHHHHHHHhcCCCCCCCCCcHHHHHHHHHhhhcccCCcceeeEEEceEEec
Q 019254 59 LRYHMGPVLSSSPINIYLVWYGRWPNYQKLLIKDFILSISPAAAAAKPSVSDWWRTVSLYTDQTGANVSRTVLIAGEHSD 138 (344)
Q Consensus 59 L~YH~GplLtg~~i~V~lIwYG~ftp~QksiI~DFl~Sls~~~~~~~PSVs~WW~t~~~Y~~~~g~~v~~~v~lg~qv~D 138 (344)
|+|||||||+| +|+|||||||+|+|+||+||+|||+||++++++++|||++||+|+++|+++++++++.+|+|++|+.|
T Consensus 1 L~YH~GplLtg-~i~V~lIWYG~ftp~QkaiI~DFl~SLs~~~~~~~PSVa~WW~t~~~Y~~~~~~~~~~~v~l~~qv~D 79 (273)
T PF04674_consen 1 LTYHGGPLLTG-NINVYLIWYGRFTPAQKAIIRDFLRSLSSSAPAPSPSVAQWWKTTEKYYDQAGANVSGRVVLGGQVSD 79 (273)
T ss_pred CCCCCCceeec-CeeEEEEEeeCCCHHHHHHHHHHHHhcCCCCCCCCCChhhhhhhHHhhcccccccccceEEEeeEEec
Confidence 79999999999 99999999999999999999999999999876789999999999999999999988899999999999
Q ss_pred CCCCCCCCCChhhHHHHHHHhhhcCCCCCCCCCceEEEeccCCccccccccccccccccCCCCCCCccccEEEecCCCCC
Q 019254 139 HLYSHGKSLTRLSVQQVIGTAVESAPFPVDHKNGIFLILTADDVTMQDYCRAVCGFHYFTFPSMVGYTMPYAWIGNSAKQ 218 (344)
Q Consensus 139 ~~ySlGksLt~~~i~~lv~~ai~~~~lP~~~~~gvylVLTa~DV~v~gFC~s~CG~H~~~~~s~~~~~~~YawVGNs~~q 218 (344)
++|||||+|+++||++||++++. ++|+|||||||+||+||||||++||+|++++++.++.+++|+|||||++|
T Consensus 80 ~~ySlGksL~~~~i~~lv~~~~~-------~~~gvylVLTa~DV~v~gFC~~~CG~H~~~~~~~~~~~~~YawVGns~~q 152 (273)
T PF04674_consen 80 ENYSLGKSLSRSQIQQLVAKAIP-------DPNGVYLVLTAADVAVEGFCMSRCGFHGSTFPSSVGKRLPYAWVGNSETQ 152 (273)
T ss_pred CCCCCCcccCHHHHHHHHHhcCC-------CCCceEEEEecccceecccccccccCCcCCcccccccceeEEEecCccCC
Confidence 99999999999999999999852 45999999999999999999999999999988877889999999999999
Q ss_pred CCCCCCCCCCcCCCCCCCCCCccCCCCCCccchhhHHHHHHHHHhhhcCccccccccCCCCCCCccccccCCCcccCCCC
Q 019254 219 CPEVCSYPFAVPGYMAGGGPAALKPPNGDVGVDGMISVIAHELAELSTNPLVNAWYAGEDPTAPTEIGDLCEGLYGTGGG 298 (344)
Q Consensus 219 CPg~CAwPF~~P~ygpq~~p~~L~~PNgDvGvDGMvi~iA~~LAgavTNPf~ngwyqG~~~~aplEaadaC~giyG~Gay 298 (344)
|||+||||||||+||||++| |++||||||||||||||||||||++||||+|||||| |++||+||+|+|+||||+|||
T Consensus 153 CPg~CAwPf~~p~ygp~~~~--l~~PNgDvGvDGMvi~iA~~LA~~~TNP~~~g~yqg-~~~aplEaa~aC~giyG~Gay 229 (273)
T PF04674_consen 153 CPGQCAWPFHQPIYGPQGPP--LVPPNGDVGVDGMVINIAHELAGAVTNPFGNGYYQG-DATAPLEAADACAGIYGSGAY 229 (273)
T ss_pred CCCCCCCCCcccccCCCCCC--ccCCCCCcchhhHHHHHHHHHHHhhcCccccccccC-CCCCccchhhhccccccCCCC
Confidence 99999999999999999999 999999999999999999999999999999999998 489999999999999999999
Q ss_pred CCCccceeec-CCCcccccccCCCceeeeeccccCCCCCccCC
Q 019254 299 GGYIGQVMRD-NKGRTFNMNGRRGRRFMVQWVWSPVLKACAGP 340 (344)
Q Consensus 299 pGY~G~llvD-~~GASyNa~G~nGRkfLlpa~WdP~t~~C~~p 340 (344)
|||+|+|++| .+|||||++|+|||||||||||||+|++|+|+
T Consensus 230 pgy~G~l~vD~~tGaSyN~~G~~gRkfLlpa~wdP~t~~C~t~ 272 (273)
T PF04674_consen 230 PGYPGQLLVDPATGASYNANGVNGRKFLLPALWDPETSSCSTL 272 (273)
T ss_pred CCCCcceeecCCCCceeeccccCCceEEeecccCCCcCccccc
Confidence 9999999999 55999999999999999999999999999987
No 2
>TIGR01432 QOXA cytochrome aa3 quinol oxidase, subunit II. This enzyme catalyzes the oxidation of quinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. This subunit contains two transmembrane helices and a large external domain responsible for the binding and oxidation of quinol. QuoX is (presently) only found in gram positive bacteria of the Bacillus/Staphylococcus group. Like CyoA, the ubiquinol oxidase found in proteobacteria, the residues responsible for the ligation of Cu(a) and cytochrome c (found in the related cyt. c oxidases) are absent. Unlike CyoA, QoxA is in complex with a subunit I which contains cytochromes a similar to the cyt. c oxidases (as opposed to cytochromes b).
Probab=55.11 E-value=7 Score=36.41 Aligned_cols=16 Identities=25% Similarity=0.517 Sum_probs=11.5
Q ss_pred CCCCCCCceEEEeccCCc
Q 019254 165 FPVDHKNGIFLILTADDV 182 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV 182 (344)
+|.+ .-|.+.|||+||
T Consensus 134 iP~g--~~v~~~ltS~DV 149 (217)
T TIGR01432 134 IPKD--RPVLFKLQSADT 149 (217)
T ss_pred EECC--CEEEEEEECCch
Confidence 4544 368888888888
No 3
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=50.17 E-value=15 Score=30.69 Aligned_cols=18 Identities=50% Similarity=0.619 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHhhhccc
Q 019254 9 LIFAALLLLSKTRAAADS 26 (344)
Q Consensus 9 ~~~~~l~~~~~~~~~~~~ 26 (344)
++|++|||||+..++|+.
T Consensus 11 l~LA~lLlisSevaa~~~ 28 (95)
T PF07172_consen 11 LLLAALLLISSEVAAREL 28 (95)
T ss_pred HHHHHHHHHHhhhhhHHh
Confidence 446677888888877775
No 4
>MTH00139 COX2 cytochrome c oxidase subunit II; Provisional
Probab=47.12 E-value=12 Score=35.24 Aligned_cols=17 Identities=35% Similarity=0.528 Sum_probs=12.9
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-|.+.+||.||-
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (226)
T MTH00139 144 LPYK--SNIRALITAADVL 160 (226)
T ss_pred EecC--CEEEEEEecCccc
Confidence 4544 4788999999984
No 5
>TIGR01433 CyoA cytochrome o ubiquinol oxidase subunit II. This enzyme catalyzes the oxidation of ubiquinol with the concomitant reduction of molecular oxygen to water. This acts as the terminal electron acceptor in the respiratory chain. Subunit II is responsible for binding and oxidation of the ubiquinone substrate. This sequence is closely related to QoxA, which oxidizes quinol in gram positive bacteria but which is in complex with subunits which utilize cytochromes a in the reduction of molecular oxygen. Slightly more distantly related is subunit II of cytochrome c oxidase which uses cyt. c as the oxidant.
Probab=41.37 E-value=15 Score=34.87 Aligned_cols=17 Identities=35% Similarity=0.624 Sum_probs=12.5
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-|.+.|||.||-
T Consensus 143 lP~g--~pV~~~ltS~DVi 159 (226)
T TIGR01433 143 FPVN--TPINFKITSNSVM 159 (226)
T ss_pred EECC--CEEEEEEEECchh
Confidence 4544 4688899999984
No 6
>TIGR02866 CoxB cytochrome c oxidase, subunit II. Cytochrome c oxidase is the terminal electron acceptor of mitochondria (and one of several possible acceptors in prokaryotes) in the electron transport chain of aerobic respiration. The enzyme couples the oxidation of reduced cytochrome c with the reduction of molecular oxygen to water. This process results in the pumping of four protons across the membrane which are used in the proton gradient powered synthesis of ATP. The oxidase contains two heme a cofactors and three copper atoms as well as other bound ions.
Probab=41.12 E-value=16 Score=33.56 Aligned_cols=18 Identities=22% Similarity=0.336 Sum_probs=13.2
Q ss_pred CceEEEeccCCcccccccc
Q 019254 171 NGIFLILTADDVTMQDYCR 189 (344)
Q Consensus 171 ~gvylVLTa~DV~v~gFC~ 189 (344)
.-|.+.|||.||. .+|+.
T Consensus 125 ~~v~~~~ts~DV~-Hsf~i 142 (201)
T TIGR02866 125 TPVRLQVTSKDVI-HSFWV 142 (201)
T ss_pred CEEEEEEEeCchh-hcccc
Confidence 4788899999984 55544
No 7
>MTH00038 COX2 cytochrome c oxidase subunit II; Provisional
Probab=39.67 E-value=18 Score=34.22 Aligned_cols=17 Identities=24% Similarity=0.483 Sum_probs=13.0
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+.+++||.||-
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (229)
T MTH00038 144 LPYQ--TPIRVLVSSADVL 160 (229)
T ss_pred EecC--eEEEEEEEECCcc
Confidence 4544 4788999999985
No 8
>COG3560 FMR2 Predicted oxidoreductase related to nitroreductase [General function prediction only]
Probab=39.61 E-value=44 Score=31.66 Aligned_cols=41 Identities=22% Similarity=0.434 Sum_probs=28.0
Q ss_pred CCCCCCCCC--hhhHHHHHHHhhhcCCCCCCCCCceEEEeccC
Q 019254 140 LYSHGKSLT--RLSVQQVIGTAVESAPFPVDHKNGIFLILTAD 180 (344)
Q Consensus 140 ~ySlGksLt--~~~i~~lv~~ai~~~~lP~~~~~gvylVLTa~ 180 (344)
-|+|||+|. +++|+++|+.+++.-+---+...+-.|||+.+
T Consensus 16 iYaL~k~lp~~~e~i~~~v~~avk~tPsaFNSQssR~ViL~gd 58 (200)
T COG3560 16 IYALKKNLPVSDEEIKEIVKEAVKHTPSAFNSQSSRVVILFGD 58 (200)
T ss_pred HhhcCCCCCCcHHHHHHHHHHHHhcCCcccccCCceEEEEecc
Confidence 499999887 67899999999965432223334556666654
No 9
>MTH00168 COX2 cytochrome c oxidase subunit II; Provisional
Probab=37.41 E-value=21 Score=33.64 Aligned_cols=17 Identities=35% Similarity=0.647 Sum_probs=12.7
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+.+++||.||-
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (225)
T MTH00168 144 LPMD--SKIRVLVTSADVL 160 (225)
T ss_pred EecC--CEEEEEEEeCChh
Confidence 4544 4688999999983
No 10
>MTH00023 COX2 cytochrome c oxidase subunit II; Validated
Probab=37.22 E-value=21 Score=34.04 Aligned_cols=17 Identities=24% Similarity=0.567 Sum_probs=13.0
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-|.+++||.||-
T Consensus 155 lP~~--~~v~~~~tS~DVi 171 (240)
T MTH00023 155 VPIN--THVRILVTGADVL 171 (240)
T ss_pred EecC--CEEEEEEEcCCcc
Confidence 4544 4789999999984
No 11
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=34.52 E-value=23 Score=33.58 Aligned_cols=16 Identities=38% Similarity=0.725 Sum_probs=12.6
Q ss_pred CCCCCCCceEEEeccCCc
Q 019254 165 FPVDHKNGIFLILTADDV 182 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV 182 (344)
+|.+ .-+.+.+||+||
T Consensus 144 lP~~--~~v~~~~tS~DV 159 (227)
T MTH00154 144 LPMN--TQIRILITAADV 159 (227)
T ss_pred EecC--CEEEEEEEcCch
Confidence 4554 468899999999
No 12
>MTH00140 COX2 cytochrome c oxidase subunit II; Provisional
Probab=33.57 E-value=25 Score=33.07 Aligned_cols=17 Identities=24% Similarity=0.399 Sum_probs=13.3
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-|.+.+||+||.
T Consensus 144 lP~~--~~v~~~~ts~DVi 160 (228)
T MTH00140 144 LPYS--VDTRVLVTSADVI 160 (228)
T ss_pred EeeC--cEEEEEEEcCccc
Confidence 4544 4688999999997
No 13
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=33.53 E-value=25 Score=32.75 Aligned_cols=13 Identities=31% Similarity=0.401 Sum_probs=10.4
Q ss_pred CceEEEeccCCcc
Q 019254 171 NGIFLILTADDVT 183 (344)
Q Consensus 171 ~gvylVLTa~DV~ 183 (344)
.-+.+.|||.||.
T Consensus 124 ~~v~~~ltS~DVi 136 (194)
T MTH00047 124 VPYHLLVTSSDVI 136 (194)
T ss_pred CEEEeeeecCccc
Confidence 4688899999984
No 14
>MTH00117 COX2 cytochrome c oxidase subunit II; Provisional
Probab=32.25 E-value=27 Score=33.03 Aligned_cols=17 Identities=35% Similarity=0.702 Sum_probs=13.3
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+-+.+||+||-
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (227)
T MTH00117 144 IPME--SPIRILITAEDVL 160 (227)
T ss_pred EecC--ceEEEEEEecchh
Confidence 4554 4688999999996
No 15
>MTH00027 COX2 cytochrome c oxidase subunit II; Provisional
Probab=30.43 E-value=32 Score=33.54 Aligned_cols=17 Identities=41% Similarity=0.731 Sum_probs=12.9
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+.+++||+||-
T Consensus 178 lP~~--~~v~~~ltS~DVi 194 (262)
T MTH00027 178 LPVD--TNVRVLITAADVL 194 (262)
T ss_pred EeeC--cEEEEEEEcCccc
Confidence 4554 4688999999984
No 16
>MTH00080 COX2 cytochrome c oxidase subunit II; Provisional
Probab=30.36 E-value=31 Score=32.95 Aligned_cols=17 Identities=35% Similarity=0.614 Sum_probs=13.0
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+-+.+||+||-
T Consensus 147 lP~~--~~v~~~itS~DVi 163 (231)
T MTH00080 147 LPCD--TNIRFCITSSDVI 163 (231)
T ss_pred eecC--cEEEEEEEeCccc
Confidence 5554 4789999999993
No 17
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=29.74 E-value=30 Score=32.96 Aligned_cols=17 Identities=29% Similarity=0.567 Sum_probs=13.2
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+.+.+||.||.
T Consensus 148 lP~~--~~v~~~itS~DVi 164 (234)
T MTH00051 148 VPIQ--TQVRVLVTAADVL 164 (234)
T ss_pred EecC--cEEEEEEEeCchh
Confidence 4544 4688999999996
No 18
>MTH00185 COX2 cytochrome c oxidase subunit II; Provisional
Probab=28.83 E-value=34 Score=32.49 Aligned_cols=17 Identities=35% Similarity=0.665 Sum_probs=13.3
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+-+++||+||.
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (230)
T MTH00185 144 VPME--SPIRVLITAEDVL 160 (230)
T ss_pred EecC--CEEEEEEEcCccc
Confidence 4544 4688999999997
No 19
>MTH00008 COX2 cytochrome c oxidase subunit II; Validated
Probab=28.64 E-value=35 Score=32.36 Aligned_cols=17 Identities=35% Similarity=0.610 Sum_probs=13.4
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-|.+.+||+||.
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (228)
T MTH00008 144 LPMQ--TEIRVLVTAADVI 160 (228)
T ss_pred EecC--CEEEEEEEeCCcc
Confidence 4554 4789999999997
No 20
>MTH00098 COX2 cytochrome c oxidase subunit II; Validated
Probab=27.63 E-value=42 Score=31.82 Aligned_cols=17 Identities=24% Similarity=0.616 Sum_probs=13.7
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+.+.+||+||.
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (227)
T MTH00098 144 LPME--MPIRMLISSEDVL 160 (227)
T ss_pred ecCC--CEEEEEEEECccc
Confidence 5654 4799999999997
No 21
>MTH00129 COX2 cytochrome c oxidase subunit II; Provisional
Probab=25.97 E-value=39 Score=32.05 Aligned_cols=17 Identities=35% Similarity=0.661 Sum_probs=13.6
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-|-+.+||+||.
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (230)
T MTH00129 144 VPVE--SPIRVLVSAEDVL 160 (230)
T ss_pred EecC--cEEEEEEEeCccc
Confidence 5654 4789999999997
No 22
>MTH00076 COX2 cytochrome c oxidase subunit II; Provisional
Probab=25.51 E-value=42 Score=31.83 Aligned_cols=17 Identities=35% Similarity=0.684 Sum_probs=13.3
Q ss_pred CCCCCCCceEEEeccCCcc
Q 019254 165 FPVDHKNGIFLILTADDVT 183 (344)
Q Consensus 165 lP~~~~~gvylVLTa~DV~ 183 (344)
+|.+ .-+.+.+||+||.
T Consensus 144 lP~~--~~v~~~~tS~DVi 160 (228)
T MTH00076 144 VPME--SPIRMLITAEDVL 160 (228)
T ss_pred EecC--CEEEEEEEecccc
Confidence 4544 4788999999996
No 23
>PF09382 RQC: RQC domain; InterPro: IPR018982 This entry represents the RQC domain, which is a DNA-binding domain found only in RecQ family enzymes. RecQ family helicases can unwind G4 DNA, and play important roles at G-rich domains of the genome, including the telomeres, rDNA, and immunoglobulin switch regions. This domain has a helix-turn-helix structure and acts as a high affinity G4 DNA binding domain []. Binding of RecQ to Holliday junctions involves both the RQC and the HRDC domains.; GO: 0043140 ATP-dependent 3'-5' DNA helicase activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1OYW_A 1OYY_A 3AAF_A 2AXL_A 2V1X_B 2WWY_B.
Probab=21.75 E-value=1.1e+02 Score=24.51 Aligned_cols=27 Identities=15% Similarity=0.267 Sum_probs=22.4
Q ss_pred CCCCCCCCCChhhHHHHHHHhhhcCCC
Q 019254 139 HLYSHGKSLTRLSVQQVIGTAVESAPF 165 (344)
Q Consensus 139 ~~ySlGksLt~~~i~~lv~~ai~~~~l 165 (344)
+.|-.||.+++.++++|+...+..|.+
T Consensus 46 ~~yG~gk~~~~~~~~~li~~Li~~g~L 72 (106)
T PF09382_consen 46 PTYGIGKDMSKDDWERLIRQLILEGYL 72 (106)
T ss_dssp TTTTTTTTS-HHHHHHHHHHHHHTTSE
T ss_pred cccCCcccCCHHHHHHHHHHHHHcCCc
Confidence 368999999999999999998876655
No 24
>PF15232 DUF4585: Domain of unknown function (DUF4585)
Probab=21.72 E-value=91 Score=25.54 Aligned_cols=38 Identities=11% Similarity=0.141 Sum_probs=22.1
Q ss_pred CCCCccceeecCC-CcccccccCCCceeeeeccccCCCCCc
Q 019254 298 GGGYIGQVMRDNK-GRTFNMNGRRGRRFMVQWVWSPVLKAC 337 (344)
Q Consensus 298 ypGY~G~llvD~~-GASyNa~G~nGRkfLlpa~WdP~t~~C 337 (344)
|+.-.+++|+|++ |--|=+. --|.=.+-.++||+|.+-
T Consensus 3 ~~~tqrKvL~DP~SG~Yy~vd--~P~Qp~~k~lfDPETGqY 41 (75)
T PF15232_consen 3 YPATQRKVLQDPESGQYYVVD--APVQPKTKTLFDPETGQY 41 (75)
T ss_pred CCccCccEeecCCCCCEEEEe--cCCCcceeeeecCCCCcE
Confidence 4556789999976 5333332 112222345689998653
No 25
>PF08145 BOP1NT: BOP1NT (NUC169) domain; InterPro: IPR012953 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This N-terminal domain is found in BOP1-like WD40 proteins. Bop1 is a nucleolar protein involved in rRNA processing, thereby controlling the cell cycle []. It is required for the maturation of the 25S and 5.8S ribosomal RNAs. It may serve as an essential factor in ribosome formation that coordinates processing of the spacer regions in pre-rRNA. The Pes1-Bop1 complex has several components: BOP1, GRWD1, PES1, ORC6L, and RPL3 and is involved in ribosome biogenesis and altered chromosome segregation. The overexpression of BOP1 increases the percentage of multipolar spindles in human cells. Deregulation of the BOP1 pathway may contribute to colorectal tumourigenesis in humans []. Elevated levels of Bop1 induces Bop1/WDR12 and Bop1/Pes1 subcomplexes and the assembly and integrity of the PeBoW complex is highly sensitive to changes in Bop1 protein levels []. Nop7p-Erb1p-Ytm1p, found in yeast, is potentially the homologous complex of Pes1-Bop1-WDR12 as it is involved in the control of ribosome biogenesis and S phase entry. The integrity of the PeBoW complex is required for ribosome biogenesis and cell proliferation in mammalian cells []. In Giardia, the species specific cytoskeleton protein, beta-giardin, interacts with Bop1 []. ; GO: 0006364 rRNA processing, 0005634 nucleus
Probab=20.38 E-value=77 Score=31.23 Aligned_cols=54 Identities=20% Similarity=0.367 Sum_probs=35.7
Q ss_pred CCchhHHHHHHHHHhcCCCCCCCCCcHHHHHHHH-HhhhcccCCcceeeEEEceEEecCCCCCCCCCChhhHHHHHHHhh
Q 019254 82 WPNYQKLLIKDFILSISPAAAAAKPSVSDWWRTV-SLYTDQTGANVSRTVLIAGEHSDHLYSHGKSLTRLSVQQVIGTAV 160 (344)
Q Consensus 82 ftp~QksiI~DFl~Sls~~~~~~~PSVs~WW~t~-~~Y~~~~g~~v~~~v~lg~qv~D~~ySlGksLt~~~i~~lv~~ai 160 (344)
-.++++..|.+||.+...+ .+|+|+ ..+.++ . -.||.++|+ ||++ |
T Consensus 17 ~K~~~~d~LD~fL~~~ddp---------~~Wrtv~D~~~g~-------~---------------v~Lt~eel~-lI~r-i 63 (260)
T PF08145_consen 17 MKPAKGDALDKFLDSMDDP---------NYWRTVYDKKNGR-------E---------------VVLTDEELE-LIRR-I 63 (260)
T ss_pred cCCCchhHHHHHHHhccCc---------cCCceeEcCCCCc-------e---------------eeeCHHHHH-HHHH-H
Confidence 3567889999999999873 368766 333221 1 257788876 6666 6
Q ss_pred hcCCCCCC
Q 019254 161 ESAPFPVD 168 (344)
Q Consensus 161 ~~~~lP~~ 168 (344)
.+|.+|..
T Consensus 64 ~~g~~p~~ 71 (260)
T PF08145_consen 64 QKGEFPDP 71 (260)
T ss_pred HcCCCCCC
Confidence 66777743
Done!