Query 043130
Match_columns 157
No_of_seqs 47 out of 49
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 13:10:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043130.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043130hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02831 spo_II_M stage II sp 50.5 22 0.00049 28.9 3.7 63 79-141 33-100 (200)
2 COG4270 Predicted membrane pro 46.0 25 0.00054 28.3 3.2 48 95-142 45-92 (131)
3 PF11300 DUF3102: Protein of u 44.9 84 0.0018 24.9 6.0 35 57-95 19-53 (130)
4 PF13003 MRL1: Ribosomal prote 42.3 14 0.00029 29.8 1.2 29 83-111 54-82 (133)
5 PF00317 Ribonuc_red_lgN: Ribo 36.2 16 0.00035 25.5 0.7 37 59-95 24-61 (83)
6 TIGR03747 conj_TIGR03747 integ 35.3 1.6E+02 0.0035 25.3 6.7 51 84-143 109-159 (233)
7 PF04508 Pox_A_type_inc: Viral 35.2 40 0.00086 19.8 2.1 16 61-76 1-16 (23)
8 PF13197 DUF4013: Protein of u 30.2 2.2E+02 0.0048 21.8 6.1 19 77-95 31-49 (169)
9 PF11399 DUF3192: Protein of u 27.6 27 0.0006 26.8 0.7 16 79-94 7-22 (102)
10 PF12468 TTSSLRR: Type III sec 24.7 36 0.00078 22.6 0.8 12 84-95 24-35 (46)
11 PF04102 SlyX: SlyX; InterPro 23.3 29 0.00063 24.0 0.2 23 64-86 42-69 (69)
12 PF04547 Anoctamin: Calcium-ac 23.1 4.6E+02 0.0099 23.3 7.6 71 62-145 262-350 (452)
13 PHA02855 anti-apoptotic membra 21.9 98 0.0021 26.2 3.0 23 108-130 82-104 (180)
14 PRK00736 hypothetical protein; 21.3 70 0.0015 22.3 1.7 22 65-86 44-68 (68)
15 PLN02453 complex I subunit 21.1 27 0.00059 27.2 -0.4 12 85-96 57-68 (105)
16 PF00758 EPO_TPO: Erythropoiet 21.0 79 0.0017 26.2 2.3 52 65-116 9-76 (165)
17 PF10680 RRN9: RNA polymerase 20.9 37 0.0008 24.2 0.3 15 78-92 42-56 (71)
18 CHL00080 psbM photosystem II p 20.6 1.1E+02 0.0023 19.7 2.3 17 124-140 10-26 (34)
19 PF13632 Glyco_trans_2_3: Glyc 20.3 3.7E+02 0.0079 19.9 5.6 40 56-95 93-138 (193)
20 PRK09943 DNA-binding transcrip 20.0 1.2E+02 0.0026 23.6 3.0 35 58-93 1-44 (185)
No 1
>TIGR02831 spo_II_M stage II sporulation protein M. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This predicted integral membrane protein is designated stage II sporulation protein M.
Probab=50.47 E-value=22 Score=28.89 Aligned_cols=63 Identities=10% Similarity=0.009 Sum_probs=46.9
Q ss_pred cCCCCCchHHHH---Hhhhccch--hHHHHHHHHHHHHHhhcCchHHHHHHHHHHHhhhhhHHHHHHH
Q 043130 79 NYEPPENWMEWE---KKYYTGYD--SYICEAMGVLQAQLMNTRPSFALGVLALIALSVPTSAAVLCFR 141 (157)
Q Consensus 79 ~ye~P~~WmeWE---K~~y~~Y~--sdVc~a~g~LQ~~LMntRP~vAlG~~aLl~lSVP~S~~~v~~~ 141 (157)
|+-.|+.++|.. ++++..++ .++...--+.|.++-|.++.+.+-++.+...++|.-.++++.+
T Consensus 33 ~~~~~~~~~~l~~~~~~f~~~~~~~~~~~~~~~f~~if~nn~~~~~li~~lGl~~~Gip~i~~~l~~n 100 (200)
T TIGR02831 33 NSMSIVQKNDLYFYLSNFFGQLSGGNSASYGDIFRQSLFNNIKYVGLMWILGLSIIGLPIILILDFLK 100 (200)
T ss_pred hcCCHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 567788888887 66666552 2233345688999999999988888888889999988755544
No 2
>COG4270 Predicted membrane protein [Function unknown]
Probab=45.97 E-value=25 Score=28.26 Aligned_cols=48 Identities=21% Similarity=0.214 Sum_probs=43.1
Q ss_pred ccchhHHHHHHHHHHHHHhhcCchHHHHHHHHHHHhhhhhHHHHHHHH
Q 043130 95 TGYDSYICEAMGVLQAQLMNTRPSFALGVLALIALSVPTSAAVLCFRL 142 (157)
Q Consensus 95 ~~Y~sdVc~a~g~LQ~~LMntRP~vAlG~~aLl~lSVP~S~~~v~~~l 142 (157)
.-|++++.|.+|-+-.++=.+|+..+-|+.+|++...|+-.-+..+++
T Consensus 45 av~VSG~fEilgglaLlip~~s~~aa~gl~~l~laVfPANiYMa~h~l 92 (131)
T COG4270 45 AVLVSGIFEILGGLALLIPAPSQAAAWGLIILLLAVFPANIYMAQHKL 92 (131)
T ss_pred HHHHHHHHHHHhhhhhhcCCcHHHHHhhHHHHHHHHcchHHHHHhhcC
Confidence 358999999999999988899999999999999999999998888743
No 3
>PF11300 DUF3102: Protein of unknown function (DUF3102); InterPro: IPR021451 This entry is represented by Streptococcus phage 7201, Orf2. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=44.91 E-value=84 Score=24.86 Aligned_cols=35 Identities=20% Similarity=0.397 Sum_probs=28.7
Q ss_pred CccccchHHHHHHHHHHHHHHhcCCCCCchHHHHHhhhc
Q 043130 57 RLVDENMIVLRKRIHEMKMIERNYEPPENWMEWEKKYYT 95 (157)
Q Consensus 57 ~LVDE~MiVLRkRI~Emkm~E~~ye~P~~WmeWEK~~y~ 95 (157)
+.+=++||-.=||..|+|.. .|..+|.+|=|.-+.
T Consensus 19 ~~~l~~~iEIGrrL~eaK~~----l~HGef~~Wle~~~~ 53 (130)
T PF11300_consen 19 QILLESAIEIGRRLKEAKEL----LPHGEFGKWLEEEVG 53 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHh----CCHHHHHHHHHHHcC
Confidence 44557889999999999953 689999999997665
No 4
>PF13003 MRL1: Ribosomal protein L1; InterPro: IPR024663 This entry represents a ribosomal protein L1 domain found mainly in chordates.
Probab=42.26 E-value=14 Score=29.77 Aligned_cols=29 Identities=28% Similarity=0.462 Sum_probs=24.5
Q ss_pred CCchHHHHHhhhccchhHHHHHHHHHHHH
Q 043130 83 PENWMEWEKKYYTGYDSYICEAMGVLQAQ 111 (157)
Q Consensus 83 P~~WmeWEK~~y~~Y~sdVc~a~g~LQ~~ 111 (157)
|-.+||||++||+.=--+|-.|+.+|-.|
T Consensus 54 ~y~~~e~~~~lyPr~Iyeve~Ai~mLKkf 82 (133)
T PF13003_consen 54 SYSYMEWEKRLYPRPIYEVEKAIDMLKKF 82 (133)
T ss_pred ccccccccceeccccHHHHHHHHHHHHhc
Confidence 66799999999987777788899988665
No 5
>PF00317 Ribonuc_red_lgN: Ribonucleotide reductase, all-alpha domain; InterPro: IPR013509 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The reduction of ribonucleotides to deoxyribonucleotides involves the transfer of free radicals, the function of each metallocofactor is to generate an active site thiyl radical. This thiyl radical then initiates the nucleotide reduction process by hydrogen atom abstraction from the ribonucleotide []. The radical-based reaction involves five cysteines: two of these are located at adjacent anti-parallel strands in a new type of ten-stranded alpha/beta-barrel; two others reside at the carboxyl end in a flexible arm; and the fifth, in a loop in the centre of the barrel, is positioned to initiate the radical reaction []. There are several regions of similarity in the sequence of the large chain of prokaryotes, eukaryotes and viruses spread across 3 domains: an N-terminal domain common to the mammalian and bacterial enzymes; a C-terminal domain common to the mammalian and viral ribonucleotide reductases; and a central domain common to all three [].; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0005524 ATP binding, 0006260 DNA replication, 0055114 oxidation-reduction process; PDB: 1PEM_A 2BQ1_E 1PEU_A 1PEQ_A 1PEO_A 1XJN_A 1XJK_A 3O0O_B 1XJF_A 3O0Q_A ....
Probab=36.18 E-value=16 Score=25.50 Aligned_cols=37 Identities=27% Similarity=0.466 Sum_probs=25.3
Q ss_pred cccchHHHHHHHHHHHH-HHhcCCCCCchHHHHHhhhc
Q 043130 59 VDENMIVLRKRIHEMKM-IERNYEPPENWMEWEKKYYT 95 (157)
Q Consensus 59 VDE~MiVLRkRI~Emkm-~E~~ye~P~~WmeWEK~~y~ 95 (157)
+.|.---+=+||--.=+ +|..|..+.+|++|+++||.
T Consensus 24 ~~Etpq~~~~RVA~~la~~e~~y~~~~~~~~~~~~fy~ 61 (83)
T PF00317_consen 24 VIETPQEMFMRVAMALASAEPKYDDAEDRMEWAEEFYD 61 (83)
T ss_dssp B--SHHHHHHHHHHHHHTCCGG-THCCTHHHHHHHHHH
T ss_pred EeeCHHHHHHHHHHHHHHHcccccccCCHHHHHHHHHH
Confidence 66766666666654443 37778889999999999996
No 6
>TIGR03747 conj_TIGR03747 integrating conjugative element membrane protein, PFL_4697 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=35.29 E-value=1.6e+02 Score=25.26 Aligned_cols=51 Identities=20% Similarity=0.284 Sum_probs=36.6
Q ss_pred CchHHHHHhhhccchhHHHHHHHHHHHHHhhcCchHHHHHHHHHHHhhhhhHHHHHHHHH
Q 043130 84 ENWMEWEKKYYTGYDSYICEAMGVLQAQLMNTRPSFALGVLALIALSVPTSAAVLCFRLM 143 (157)
Q Consensus 84 ~~WmeWEK~~y~~Y~sdVc~a~g~LQ~~LMntRP~vAlG~~aLl~lSVP~S~~~v~~~l~ 143 (157)
.+-..|.+.+|...++-.-.++=.+|.++++ ++++++++|.-..+++.-++
T Consensus 109 ~~~~~~~~~~~~~~~~yl~a~~~~~~~f~iR---------L~IL~~~lPlfll~~~~glv 159 (233)
T TIGR03747 109 RSLRYWAAWLYVYARDYLLAAVYVTLVFLVR---------LVILVLAIPLFLLAAFVGLV 159 (233)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHH
Confidence 3556677777776666666667777777776 77888899988777766665
No 7
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=35.19 E-value=40 Score=19.81 Aligned_cols=16 Identities=31% Similarity=0.457 Sum_probs=12.7
Q ss_pred cchHHHHHHHHHHHHH
Q 043130 61 ENMIVLRKRIHEMKMI 76 (157)
Q Consensus 61 E~MiVLRkRI~Emkm~ 76 (157)
+.|--||.||.+++.+
T Consensus 1 ~E~~rlr~rI~dLer~ 16 (23)
T PF04508_consen 1 REMNRLRNRISDLERQ 16 (23)
T ss_pred ChHHHHHHHHHHHHHH
Confidence 3577899999998754
No 8
>PF13197 DUF4013: Protein of unknown function (DUF4013)
Probab=30.24 E-value=2.2e+02 Score=21.77 Aligned_cols=19 Identities=11% Similarity=0.419 Sum_probs=14.8
Q ss_pred HhcCCCCCchHHHHHhhhc
Q 043130 77 ERNYEPPENWMEWEKKYYT 95 (157)
Q Consensus 77 E~~ye~P~~WmeWEK~~y~ 95 (157)
+++.++|+||.+|.+.+-.
T Consensus 31 ~g~~~~lP~~~~~~~l~~~ 49 (169)
T PF13197_consen 31 IGGSDPLPEFNDWGELFVD 49 (169)
T ss_pred ccCCCCCCCchHHHHHHHH
Confidence 6666777889999988764
No 9
>PF11399 DUF3192: Protein of unknown function (DUF3192); InterPro: IPR021534 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=27.57 E-value=27 Score=26.79 Aligned_cols=16 Identities=31% Similarity=0.976 Sum_probs=13.2
Q ss_pred cCCCCCchHHHHHhhh
Q 043130 79 NYEPPENWMEWEKKYY 94 (157)
Q Consensus 79 ~ye~P~~WmeWEK~~y 94 (157)
.|++-++||.||++-.
T Consensus 7 ~~~~~~~~~~W~drq~ 22 (102)
T PF11399_consen 7 VYDDDPDWMDWEDRQA 22 (102)
T ss_pred EcCCCcccCCHHHHHH
Confidence 3678889999999865
No 10
>PF12468 TTSSLRR: Type III secretion system leucine rich repeat protein ; PDB: 3CVR_A 3G06_A 1JL5_A 1G9U_A.
Probab=24.67 E-value=36 Score=22.57 Aligned_cols=12 Identities=33% Similarity=0.825 Sum_probs=8.9
Q ss_pred CchHHHHHhhhc
Q 043130 84 ENWMEWEKKYYT 95 (157)
Q Consensus 84 ~~WmeWEK~~y~ 95 (157)
+.|.||||.-=+
T Consensus 24 aiWseW~~~ap~ 35 (46)
T PF12468_consen 24 AIWSEWERNAPP 35 (46)
T ss_dssp HHHHHHHHTS-T
T ss_pred HHHHHHHHcCCC
Confidence 579999997544
No 11
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=23.26 E-value=29 Score=23.96 Aligned_cols=23 Identities=30% Similarity=0.577 Sum_probs=3.5
Q ss_pred HHHHHHHHHHHHH-----HhcCCCCCch
Q 043130 64 IVLRKRIHEMKMI-----ERNYEPPENW 86 (157)
Q Consensus 64 iVLRkRI~Emkm~-----E~~ye~P~~W 86 (157)
-.|+.||++++.. ....+||.||
T Consensus 42 ~~L~~rl~~~~~~~~~~~~~~~~~PPHY 69 (69)
T PF04102_consen 42 RLLRERLRELEDPSGSADPPEEEPPPHY 69 (69)
T ss_dssp HHHHHT----------------------
T ss_pred HHHHHHHHHhccccCCCCCCCCCCcCCC
Confidence 3466666666622 2345677775
No 12
>PF04547 Anoctamin: Calcium-activated chloride channel; InterPro: IPR007632 This family contains the anoctamin/TMEM16 proteins which are thought to be calcium-dependent chloride channel [].
Probab=23.08 E-value=4.6e+02 Score=23.29 Aligned_cols=71 Identities=23% Similarity=0.393 Sum_probs=45.3
Q ss_pred chHHHHHHHHHHHHHHhc-----------CCCCCchHHHHHhhh-ccch-----hHHHHHHHHHHHHHhhcCchHHHHHH
Q 043130 62 NMIVLRKRIHEMKMIERN-----------YEPPENWMEWEKKYY-TGYD-----SYICEAMGVLQAQLMNTRPSFALGVL 124 (157)
Q Consensus 62 ~MiVLRkRI~Emkm~E~~-----------ye~P~~WmeWEK~~y-~~Y~-----sdVc~a~g~LQ~~LMntRP~vAlG~~ 124 (157)
-.+-+.++.++.|..+.. .+....=..||+++. +.|+ .|..|.+ +=.|.+
T Consensus 262 ~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~y~~~g~~~dY~emv-------------iQFGyv 328 (452)
T PF04547_consen 262 VLPYLKKRYRRKKIRKKQRKKQQDERQENEEENQFLQQWEKEYELPPYDPDGLFDDYLEMV-------------IQFGYV 328 (452)
T ss_pred HHHHHHHHHHHHHHHhhhhhcccccccccccccchHHHHHHHhcCCCCCcCCchHHHHHHH-------------HHHHHH
Confidence 344567777777554322 223456678999987 4787 4444432 347899
Q ss_pred HHHHHhhhhhHHHH-HHHHHHH
Q 043130 125 ALIALSVPTSAAVL-CFRLMEL 145 (157)
Q Consensus 125 aLl~lSVP~S~~~v-~~~l~~~ 145 (157)
.+.+.+-|...++. +.+.+|+
T Consensus 329 ~lF~~afPlapl~allnN~~ei 350 (452)
T PF04547_consen 329 TLFSAAFPLAPLFALLNNIVEI 350 (452)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999988754 4445543
No 13
>PHA02855 anti-apoptotic membrane protein; Provisional
Probab=21.92 E-value=98 Score=26.16 Aligned_cols=23 Identities=26% Similarity=0.541 Sum_probs=18.9
Q ss_pred HHHHHhhcCchHHHHHHHHHHHh
Q 043130 108 LQAQLMNTRPSFALGVLALIALS 130 (157)
Q Consensus 108 LQ~~LMntRP~vAlG~~aLl~lS 130 (157)
..+++-..||||-++.++|+++-
T Consensus 82 ie~L~~D~rPSVKLA~iSLlSiI 104 (180)
T PHA02855 82 IESLNNDNRPSVKLAIISLISMI 104 (180)
T ss_pred HHHHHhcCCchhHHHHHHHHHHH
Confidence 45667889999999999998753
No 14
>PRK00736 hypothetical protein; Provisional
Probab=21.28 E-value=70 Score=22.27 Aligned_cols=22 Identities=18% Similarity=0.451 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHH---HhcCCCCCch
Q 043130 65 VLRKRIHEMKMI---ERNYEPPENW 86 (157)
Q Consensus 65 VLRkRI~Emkm~---E~~ye~P~~W 86 (157)
.|+.|++++.-. ....+||.||
T Consensus 44 ~L~~rl~~~~~~~~~~~~~~~PPHY 68 (68)
T PRK00736 44 ALTERFLSLEEQAAPDVPVTKPPHW 68 (68)
T ss_pred HHHHHHHHhccccCCCCCCCCcCCC
Confidence 445555554421 1124667776
No 15
>PLN02453 complex I subunit
Probab=21.09 E-value=27 Score=27.17 Aligned_cols=12 Identities=33% Similarity=1.010 Sum_probs=10.3
Q ss_pred chHHHHHhhhcc
Q 043130 85 NWMEWEKKYYTG 96 (157)
Q Consensus 85 ~WmeWEK~~y~~ 96 (157)
.|.+||..||..
T Consensus 57 kwEdWE~p~Y~~ 68 (105)
T PLN02453 57 KWEDWELPCYIT 68 (105)
T ss_pred ccccchhhHHHH
Confidence 599999999963
No 16
>PF00758 EPO_TPO: Erythropoietin/thrombopoietin; InterPro: IPR001323 Erythropoietin, a plasma glycoprotein, is the primary physiological mediator of erythropoiesis []. It is involved in the regulation of the level of peripheral erythrocytes by stimulating the differentiation of erythroid progenitor cells, found in the spleen and bone marrow, into mature erythrocytes []. It is primarily produced in adult kidneys and foetal liver, acting by attachment to specific binding sites on erythroid progenitor cells, stimulating their differentiation []. Severe kidney dysfunction causes reduction in the plasma levels of erythropoietin, resulting in chronic anaemia - injection of purified erythropoietin into the blood stream can help to relieve this type of anaemia. Levels of erythropoietin in plasma fluctuate with varying oxygen tension of the blood, but androgens and prostaglandins also modulate the levels to some extent []. Erythropoietin glycoprotein sequences are well conserved, a consequence of which is that the hormones are cross-reactive among mammals, i.e. that from one species, say human, can stimulate erythropoiesis in other species, say mouse or rat []. Thrombopoeitin (TPO), a glycoprotein, is the mammalian0 hormone which functions as a megakaryocytic lineage specific growth and differentiation factor affecting the proliferation and maturation from their committed progenitor cells acting at a late stage of megakaryocyte development. It acts as a circulating regulator of platelet numbers.; GO: 0005179 hormone activity, 0005576 extracellular region; PDB: 1EER_A 1CN4_C 1BUY_A 1V7N_Z 1V7M_X.
Probab=21.03 E-value=79 Score=26.20 Aligned_cols=52 Identities=25% Similarity=0.385 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhcC----------------CCCCchHHHHHhhhccchhHHHHHHHHHHHHHhhcC
Q 043130 65 VLRKRIHEMKMIERNY----------------EPPENWMEWEKKYYTGYDSYICEAMGVLQAQLMNTR 116 (157)
Q Consensus 65 VLRkRI~Emkm~E~~y----------------e~P~~WmeWEK~~y~~Y~sdVc~a~g~LQ~~LMntR 116 (157)
||.|=|+|.|.+|.-- ..--+.-+|||+--..=..+|-..+.+|+--++..|
T Consensus 9 vl~k~I~EAkdae~~~~~C~e~c~L~~~v~vP~t~vnf~~Wk~k~~~~ka~EV~~gL~LL~eav~~~q 76 (165)
T PF00758_consen 9 VLNKYIREAKDAENAMSQCSEGCSLSEPVTVPDTDVNFYEWKKKNVQEKAQEVWQGLWLLSEAVLRAQ 76 (165)
T ss_dssp HHHHHHHHHHHHHHHHCCSTSSTEESCEEEEE-TTB-CHHHCCS-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhcCCCcCCCCCceecCceeeeHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 6889999999998432 223478899999887667778766666665555443
No 17
>PF10680 RRN9: RNA polymerase I specific transcription initiation factor; InterPro: IPR019622 This entry represents the RNA polymerase I-specific transcription initiation factor RRN9. Initiation of transcription of ribosomal DNA (rDNA) in yeast involves an interaction of upstream activation factor (UAF) with the upstream element of the promoter, to form a stable UAF-template complex. UAF, together with the TATA-binding transcription initiation factor protein (TBP), then recruits an essential core factor to the promoter, to form a stable pre-initiation complex []. This Rrn9 domain, which seems to be constrained to fungi, is the two highly conserved regions of proteins which form one of the subunits of UAF and appears to be the region responsible for the interaction with TBP. The family includes the Schizosaccharomyces pombe (Fission yeast) Arc1 protein, Q10204 from SWISSPROT, which is found to be essential for the accumulation of condensin at kinetochores [].
Probab=20.91 E-value=37 Score=24.15 Aligned_cols=15 Identities=33% Similarity=1.072 Sum_probs=11.8
Q ss_pred hcCCCCCchHHHHHh
Q 043130 78 RNYEPPENWMEWEKK 92 (157)
Q Consensus 78 ~~ye~P~~WmeWEK~ 92 (157)
..+.||..|+.|=..
T Consensus 42 ~~~~P~~~WTAWPl~ 56 (71)
T PF10680_consen 42 NPWAPPKNWTAWPLP 56 (71)
T ss_pred cccCCCCCcccCCCC
Confidence 557899999999543
No 18
>CHL00080 psbM photosystem II protein M
Probab=20.61 E-value=1.1e+02 Score=19.67 Aligned_cols=17 Identities=18% Similarity=0.376 Sum_probs=12.8
Q ss_pred HHHHHHhhhhhHHHHHH
Q 043130 124 LALIALSVPTSAAVLCF 140 (157)
Q Consensus 124 ~aLl~lSVP~S~~~v~~ 140 (157)
+.++.++||++.++++.
T Consensus 10 At~LFi~iPt~FLlily 26 (34)
T CHL00080 10 ATALFILVPTAFLLIIY 26 (34)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 55677899998877653
No 19
>PF13632 Glyco_trans_2_3: Glycosyl transferase family group 2
Probab=20.27 E-value=3.7e+02 Score=19.89 Aligned_cols=40 Identities=15% Similarity=0.068 Sum_probs=22.7
Q ss_pred CCccccchHHHHH------HHHHHHHHHhcCCCCCchHHHHHhhhc
Q 043130 56 HRLVDENMIVLRK------RIHEMKMIERNYEPPENWMEWEKKYYT 95 (157)
Q Consensus 56 g~LVDE~MiVLRk------RI~Emkm~E~~ye~P~~WmeWEK~~y~ 95 (157)
+..+-|++..-.+ ||.-...++...+.|.+|.+|=||-..
T Consensus 93 ~~~~~ED~~l~~~l~~~G~~~~~~~~~~~~~~~p~t~~~~~~Qr~R 138 (193)
T PF13632_consen 93 PFSIGEDMDLGFRLRRAGYRIVYVPDAIVYTEAPPTFRAFIRQRRR 138 (193)
T ss_pred cccccchHHHHHHHHHCCCEEEEecccceeeeCCCCHHHHHHHHHH
Confidence 4667788754221 111111122334779999999777766
No 20
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=20.05 E-value=1.2e+02 Score=23.56 Aligned_cols=35 Identities=20% Similarity=0.177 Sum_probs=23.8
Q ss_pred ccccchHHHHHHHHHHHHH---------HhcCCCCCchHHHHHhh
Q 043130 58 LVDENMIVLRKRIHEMKMI---------ERNYEPPENWMEWEKKY 93 (157)
Q Consensus 58 LVDE~MiVLRkRI~Emkm~---------E~~ye~P~~WmeWEK~~ 93 (157)
+-|++|. +-+||+++|.. +.-.-.++....||+.-
T Consensus 1 ~~~~~~~-~g~~l~~~R~~~glt~~elA~~~gis~~~is~~E~g~ 44 (185)
T PRK09943 1 MSDEGLA-PGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDK 44 (185)
T ss_pred CcchhhH-HHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHHHcCC
Confidence 3588888 88999998863 33334566677777643
Done!