Query 031855
Match_columns 152
No_of_seqs 108 out of 348
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 06:18:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031855.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031855hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00151 translationally contr 100.0 2E-67 4.3E-72 416.7 15.3 147 2-152 13-172 (172)
2 PF00838 TCTP: Translationally 100.0 1.8E-64 4E-69 398.0 10.3 145 2-149 13-165 (165)
3 KOG1727 Microtubule-binding pr 100.0 1.6E-57 3.5E-62 356.8 10.0 150 2-152 13-169 (169)
4 PF07523 Big_3: Bacterial Ig-l 64.5 2.8 6.1E-05 27.6 0.5 27 110-136 4-30 (67)
5 PF09230 DFF40: DNA fragmentat 48.3 35 0.00075 28.8 4.5 48 62-110 49-105 (230)
6 PF12095 DUF3571: Protein of u 37.4 97 0.0021 22.2 4.8 58 55-117 14-72 (83)
7 PF09142 TruB_C: tRNA Pseudour 36.1 27 0.00059 22.7 1.7 23 120-142 32-55 (56)
8 cd02957 Phd_like Phosducin (Ph 34.4 32 0.00069 24.3 2.0 42 102-147 46-87 (113)
9 KOG0907 Thioredoxin [Posttrans 31.2 29 0.00064 25.2 1.4 48 101-151 42-89 (106)
10 PTZ00062 glutaredoxin; Provisi 30.2 92 0.002 25.3 4.3 41 97-148 34-74 (204)
11 PF13573 SprB: SprB repeat 28.6 87 0.0019 18.5 2.9 24 121-146 12-35 (37)
12 KOG2582 COP9 signalosome, subu 28.1 83 0.0018 28.7 3.9 51 87-141 319-371 (422)
13 KOG3242 Oligoribonuclease (3'- 24.6 20 0.00043 29.5 -0.6 44 73-116 134-196 (208)
14 PRK10486 autoinducer-2 (AI-2) 24.2 1.1E+02 0.0024 21.3 3.4 47 87-133 11-58 (96)
15 PRK00239 rpsT 30S ribosomal pr 23.5 1.7E+02 0.0037 20.8 4.2 36 69-104 22-60 (88)
16 PF14681 UPRTase: Uracil phosp 23.4 60 0.0013 26.0 2.0 30 98-127 162-194 (207)
17 cd00717 URO-D Uroporphyrinogen 23.0 49 0.0011 28.0 1.5 38 48-86 187-224 (335)
18 PF03992 ABM: Antibiotic biosy 22.6 2E+02 0.0044 17.9 5.0 46 87-132 11-58 (78)
19 TIGR03825 FliH_bacil flagellar 22.5 4.4E+02 0.0096 21.7 7.1 62 67-129 157-224 (255)
20 cd01145 TroA_c Periplasmic bin 22.0 83 0.0018 24.8 2.6 32 74-105 116-150 (203)
21 PF14679 FANCI_HD1: FANCI heli 21.2 20 0.00044 25.6 -1.0 29 89-117 33-62 (87)
22 PHA02278 thioredoxin-like prot 21.0 56 0.0012 23.3 1.3 13 136-148 72-84 (103)
23 TIGR01464 hemE uroporphyrinoge 20.9 56 0.0012 27.7 1.5 37 49-86 191-227 (338)
24 cd01019 ZnuA Zinc binding prot 20.4 93 0.002 26.0 2.6 32 75-106 130-164 (286)
No 1
>PTZ00151 translationally controlled tumor-like protein; Provisional
Probab=100.00 E-value=2e-67 Score=416.71 Aligned_cols=147 Identities=34% Similarity=0.631 Sum_probs=141.1
Q ss_pred ceeeeeee----------eeEEEEEEEEEEeccccccccCCCCCCCCCCCCCcccceeEeeeeeeCcccccCCCCCHHHH
Q 031855 2 IFINIERI----------LFFFKLHLQWVVQGAVDVDIGANPSAEGADEDEGVDDQAVKVVDIVDTFRLQEQPAFDKKQF 71 (152)
Q Consensus 2 ~f~~~~~i----------~~~yeV~~k~vt~~~~~~diGaN~sae~~~~de~~d~~~~~viDiV~~~rL~e~t~f~Kk~y 71 (152)
||||+|++ +++|||+||+|+++.++ ||+|||||+++ +|++|+++++|||||+|||||| |+||||+|
T Consensus 13 m~SDsyk~~~~~~~~~~~~~~yEV~~k~v~~~~~d--ig~n~saee~~-~e~~d~~~~~vvDIV~~frLqe-t~f~Kk~Y 88 (172)
T PTZ00151 13 VCSDSYKQLDPFGNAEFSEIAFEVKSKKVIKGNED--YGIADNSEEGD-VEGVDADVETVIDIVDAFKLQS-TPFTKKEY 88 (172)
T ss_pred eecccccccccccccccCCEEEEEeeEEEEECCcc--ccCCCCccccc-ccccccccEEEEEeeecCccee-cCCCHHHH
Confidence 79999987 69999999999998765 69999999753 6889999999999999999999 99999999
Q ss_pred HHHHHHHHHHhccCC---ChHHHHHHHHhhHHHHHHHHhcCCCcceeecCCcCCCceEEEEeccCCCcceEEEEEccccc
Q 031855 72 VTYMKRFIKLLTPKL---SEERQEIFKKNIEGATKFLLSKLSDLQFFVGESMHDDGCLVFAYYKEGATDPTFLYIADALK 148 (152)
Q Consensus 72 ~~yiK~Y~K~vk~kL---~~e~v~~Fk~~a~~~vK~il~nfkd~qFf~Gesmd~dgmv~l~~y~edg~tP~~~f~KdGL~ 148 (152)
++|||+|||+|++|| +|+||+.|+++||++||+||+||+||||||||||||||||||++|||||+||||+||||||+
T Consensus 89 ~~yiK~YmK~vk~~L~e~~pe~v~~Fk~~a~~~vK~il~~Fkd~qFf~GeSmd~dgmv~l~~Yredg~tP~~~f~KdGL~ 168 (172)
T PTZ00151 89 STYIKKYMQRIKAYLEEKNPDRVEKFKTNAQPFVKHILENFDDFEFYLGESLDCEAGLIYGYYKGEELAPRFVYIKDGLK 168 (172)
T ss_pred HHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHhcCCceEeecCCCCCCccEEEEeecCCCcceEEEEEcccce
Confidence 999999999999999 69999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecC
Q 031855 149 EVKC 152 (152)
Q Consensus 149 eeK~ 152 (152)
||||
T Consensus 169 eeK~ 172 (172)
T PTZ00151 169 EERY 172 (172)
T ss_pred eecC
Confidence 9998
No 2
>PF00838 TCTP: Translationally controlled tumour protein; InterPro: IPR018105 Mammalian translationally controlled tumour protein (TCTP) (or P23) is a protein which has been found to be preferentially synthesised in cells during the early growth phase of some types of tumour [, ], but which is also expressed in normal cells. The physiological function of TCTP is still not known. It was first identified as a histamine-releasing factor, acting in IgE +-dependent allergic reactions. In addition, TCTP has been shown to bind to tubulin in the cytoskeleton, has a high affinity for calcium, is the binding target for the antimalarial compound artemisinin, and is induced in vitamin D-dependent apoptosis. TCTP production is thought to be controlled at the translational as well as the transcriptional level []. TCTP is a hydrophilic protein of 18 to 20 kD. TCTPs do not share significant sequence similarity with any other class of proteins. Recently, the structure of TCTP was determined and exhibited significant structural similarity to the human protein Mss4, which is a guanine nucleotide-free chaperone of the Rab protein []. Close homologues have been found in plants [], earthworm [], Caenorhabditis elegans (F52H2.11), Hydra, Saccharomyces cerevisiae (YKL056c) [] and Schizosaccharomyces pombe (SpAC1F12.02c).; PDB: 2KWB_A 2LOY_A 1TXJ_A 1H6Q_A 1H7Y_A 3P3K_A 1YZ1_C 3EBM_D 2HR9_A.
Probab=100.00 E-value=1.8e-64 Score=398.00 Aligned_cols=145 Identities=41% Similarity=0.686 Sum_probs=133.4
Q ss_pred ceeeeeeee----eEEEEEEEEEEec-cccccccCCCCCCCCCCCCCcccceeEeeeeeeCcccccCCCCCHHHHHHHHH
Q 031855 2 IFINIERIL----FFFKLHLQWVVQG-AVDVDIGANPSAEGADEDEGVDDQAVKVVDIVDTFRLQEQPAFDKKQFVTYMK 76 (152)
Q Consensus 2 ~f~~~~~i~----~~yeV~~k~vt~~-~~~~diGaN~sae~~~~de~~d~~~~~viDiV~~~rL~e~t~f~Kk~y~~yiK 76 (152)
||||+|++. ++|||+||+|+++ .++++||||||||+++ |++++++++|||||+|||||| |+||||+|++|||
T Consensus 13 m~SD~y~~~~~~~~~yeV~gk~vt~~~~d~~liG~N~SaE~~~--e~~~~~~~~viDiV~~~~L~e-t~f~Kk~y~~yiK 89 (165)
T PF00838_consen 13 MFSDSYKIELVDDVFYEVEGKMVTRTGIDDSLIGANPSAEEGE--EGTDDSVETVIDIVDNHRLQE-TSFDKKSYKAYIK 89 (165)
T ss_dssp EEETTSCEEEGCTTEEEEE--EEEEETTB-TTTSSS--SSSSS--SSSCCCECEEEHHHHHTTEEE-ECCHHHHHHHHHH
T ss_pred ecccCccccccCCEEEEEEEEEEeeccccccccccCcccccCc--cCCCCccEEccceeeccccee-ecccHHHHHHHHH
Confidence 799999886 8999999999995 5567899999999865 889999999999999999999 9999999999999
Q ss_pred HHHHHhccCC---ChHHHHHHHHhhHHHHHHHHhcCCCcceeecCCcCCCceEEEEeccCCCcceEEEEEccccce
Q 031855 77 RFIKLLTPKL---SEERQEIFKKNIEGATKFLLSKLSDLQFFVGESMHDDGCLVFAYYKEGATDPTFLYIADALKE 149 (152)
Q Consensus 77 ~Y~K~vk~kL---~~e~v~~Fk~~a~~~vK~il~nfkd~qFf~Gesmd~dgmv~l~~y~edg~tP~~~f~KdGL~e 149 (152)
+|||+|++|| .|+||++|+++|++++|+||+||||||||+||||||||||||++|||||+||+|+||||||+|
T Consensus 90 ~Y~K~i~~kL~e~~~erv~~F~~~a~~~vK~il~nfkd~qFf~Gesm~~dgmv~l~~yredg~tP~~~f~KdGL~E 165 (165)
T PF00838_consen 90 DYMKKIKEKLEENGPERVKAFKKGAQEFVKKILANFKDYQFFTGESMDPDGMVALLNYREDGVTPYFIFFKDGLKE 165 (165)
T ss_dssp HHHHHHHHHHHHHTGGGHHHHHHHHHHHHHHHHHTGGGCEEEEETTCCTTS-EEEEEEETTSSSEEEEEEGGGEEE
T ss_pred HHHHHHHHHHhhhccchhhHHHHHhHHHHHHHHhhccccccccccccCCCCcEEEEEecCCCccEEEEEEcccccC
Confidence 9999999999 799999999999999999999999999999999999999999999999999999999999987
No 3
>KOG1727 consensus Microtubule-binding protein (translationally controlled tumor protein) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=100.00 E-value=1.6e-57 Score=356.77 Aligned_cols=150 Identities=39% Similarity=0.637 Sum_probs=138.2
Q ss_pred ceeeeeeee----eEEEEEEEEEEecccc-ccccCCCCCCCCCCCCCcccceeEeeeeeeCcccccCCCCCHHHHHHHHH
Q 031855 2 IFINIERIL----FFFKLHLQWVVQGAVD-VDIGANPSAEGADEDEGVDDQAVKVVDIVDTFRLQEQPAFDKKQFVTYMK 76 (152)
Q Consensus 2 ~f~~~~~i~----~~yeV~~k~vt~~~~~-~diGaN~sae~~~~de~~d~~~~~viDiV~~~rL~e~t~f~Kk~y~~yiK 76 (152)
++||+|.+. ++|||+||+|||+++| .+||+|||||++.++|++++++++|+|||++|||||+ ++.|+.|++|||
T Consensus 13 l~sd~~~~k~i~~l~~EvegK~vsr~~~D~~lig~NpSaE~~~edegte~~~~~~vdiV~~~rLqEq-~~~ke~~k~yik 91 (169)
T KOG1727|consen 13 LLSDSYPMKEVDDLCYEVEGKMVTRTNGDDSLIGANPSAEEGAEDEGTEETVETVVDIVLNFRLQEQ-SPFKERFKAYIK 91 (169)
T ss_pred hcccchhHHHHHhhhheeeceeccccCccchhcccCccccccccCCcchhheeeeeeeeeeeccccc-chHHHHHHHHHH
Confidence 577887543 9999999999998665 4699999999965589999999999999999999995 444999999999
Q ss_pred HHHHHhccCCChHHHHHHHHhhHHHHHHHHh-cCCCcceeecCCcCCCceEEEEeccCCC-cceEEEEEccccceecC
Q 031855 77 RFIKLLTPKLSEERQEIFKKNIEGATKFLLS-KLSDLQFFVGESMHDDGCLVFAYYKEGA-TDPTFLYIADALKEVKC 152 (152)
Q Consensus 77 ~Y~K~vk~kL~~e~v~~Fk~~a~~~vK~il~-nfkd~qFf~Gesmd~dgmv~l~~y~edg-~tP~~~f~KdGL~eeK~ 152 (152)
+|||+|++||.+++++.|++++++++|.++. ||||||||+||||||||||||++||||| +||+|+||||||++|||
T Consensus 92 ~ymK~v~~klee~~~~~f~k~~~~a~q~~h~anFKnyqFFIGEnMnpdgmVal~~YRedg~~~P~~~ffk~gl~~ekc 169 (169)
T KOG1727|consen 92 GYMKAVKAKLEEEDVDVFKKNIQGAEKIKHIANFKNYQFFIGENMNPDGMVALLDYREDGGVTPYMIFFKDGLEEEKC 169 (169)
T ss_pred HHHHHhhhhhhhhhhhhhhhccchHHHHHHhhccccceeeecccCCCCceEEEeeeecCCCcCceEEEeccCcccccC
Confidence 9999999999889999999999999998887 9999999999999999999999999965 99999999999999998
No 4
>PF07523 Big_3: Bacterial Ig-like domain (group 3); InterPro: IPR011080 This entry represents bacterial domains with an Ig-like fold. These domains are found in a variety of bacterial surface proteins.; PDB: 2L7Y_A 2KPN_A.
Probab=64.49 E-value=2.8 Score=27.58 Aligned_cols=27 Identities=30% Similarity=0.650 Sum_probs=18.0
Q ss_pred CCcceeecCCcCCCceEEEEeccCCCc
Q 031855 110 SDLQFFVGESMHDDGCLVFAYYKEGAT 136 (152)
Q Consensus 110 kd~qFf~Gesmd~dgmv~l~~y~edg~ 136 (152)
++-..+.||++||+|+++-..|.++..
T Consensus 4 ~kt~y~~Ge~~d~~~~~v~at~~dG~~ 30 (67)
T PF07523_consen 4 KKTTYYVGEKFDPTGLFVTATYSDGTS 30 (67)
T ss_dssp S-EEEETTT---HHCHEEEEEETTS-E
T ss_pred ccCEEECCCCcCccCCEEEEEEcCCCE
Confidence 345678999999999999998876544
No 5
>PF09230 DFF40: DNA fragmentation factor 40 kDa; InterPro: IPR015311 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. DNA fragmentation factor (DFF) is a complex of the DNase DFF40 (CAD) and its chaperone/inhibitor DFF45 (ICAD-L). In its inactive form, DFF is a heterodimer composed of a 45kDa chaperone inhibitor subunit (DFF45 or ICAD), and a 40kDa latent endonuclease subunit (DFF40 or CAD). Upon caspase-3 cleavage of DFF45, DFF40 forms active endonuclease homo-oligomers. It is activated during apoptosis to induce DNA fragmentation. DNA binding by DFF is mediated by the nuclease subunit, which can also form stable DNA complexes after release from DFF [, ]. The nuclease subunit is inhibited in DNA cleavage but not in DNA binding []. DFF45 can also be cleaved and inactivated by caspase-7 but not by caspase-6 and caspase-8. The cleaved DFF45 fragments dissociate from DFF40, allowing DFF40 to oligomerise, forming a large complex that cleaves DNA by introducing double strand breaks. Histone H1 confers DNA binding ability to DFF and stimulates the nuclease activity of DFF40 [].; GO: 0016787 hydrolase activity, 0006309 DNA fragmentation involved in apoptotic nuclear change, 0005634 nucleus, 0005737 cytoplasm; PDB: 1V0D_A.
Probab=48.26 E-value=35 Score=28.77 Aligned_cols=48 Identities=13% Similarity=0.197 Sum_probs=28.9
Q ss_pred cCCCC-CHHHHHHH-----HHHHHHHhccCC--C-hHHHHHHHHhhHHHHHHHHhcCC
Q 031855 62 EQPAF-DKKQFVTY-----MKRFIKLLTPKL--S-EERQEIFKKNIEGATKFLLSKLS 110 (152)
Q Consensus 62 e~t~f-~Kk~y~~y-----iK~Y~K~vk~kL--~-~e~v~~Fk~~a~~~vK~il~nfk 110 (152)
| +.| ||.+|+.| |.+|++++++.+ . ..+...--..+-+.+...|...+
T Consensus 49 e-~rfktK~~yM~~~~qsRIRgY~~k~~~~~~~~~~~~ar~~~~~~l~~~~~~Lk~~~ 105 (230)
T PF09230_consen 49 E-SRFKTKSEYMRYRCQSRIRGYFYKVKEYLSKVQNAKAREEYLRVLESFRQKLKSDK 105 (230)
T ss_dssp --TT--BHHHHHHHHHHHHHHHHHHHHHGGGGGS--TTTHHHHHHHHHHHHHHHHHGG
T ss_pred h-hhhccHHHHHhhhHHHhHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHhcCC
Confidence 5 677 79999876 999999999999 1 33333333334444445554444
No 6
>PF12095 DUF3571: Protein of unknown function (DUF3571); InterPro: IPR021954 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 85 to 97 amino acids in length. ; PDB: 2KRX_A.
Probab=37.39 E-value=97 Score=22.18 Aligned_cols=58 Identities=19% Similarity=0.315 Sum_probs=36.0
Q ss_pred eeCcccccCCCC-CHHHHHHHHHHHHHHhccCCChHHHHHHHHhhHHHHHHHHhcCCCcceeec
Q 031855 55 VDTFRLQEQPAF-DKKQFVTYMKRFIKLLTPKLSEERQEIFKKNIEGATKFLLSKLSDLQFFVG 117 (152)
Q Consensus 55 V~~~rL~e~t~f-~Kk~y~~yiK~Y~K~vk~kL~~e~v~~Fk~~a~~~vK~il~nfkd~qFf~G 117 (152)
|+...--| .| |+.+..+++|+++.+ ...| |..+..|. ...+++++++.++=++++--|
T Consensus 14 vLEp~~~E--qflt~~Ell~~Lk~~L~~-~~~L-P~dL~~~~-s~~~qa~~Lldt~CeLeigpg 72 (83)
T PF12095_consen 14 VLEPGQPE--QFLTPEELLEKLKEWLQN-QDDL-PPDLAKFS-SVEEQAQYLLDTACELEIGPG 72 (83)
T ss_dssp EEESSS-S--EEE-HHHHHHHHHHHHHH-TTTS--HHHHH----HHHHHHHHHHH---EEEETT
T ss_pred EecCCCCc--ccCCHHHHHHHHHHHHHc-CCCC-CHHHHhCC-CHHHHHHHHHHhceeeecCCC
Confidence 34333344 35 999999999999999 7777 66666664 456778889999888887333
No 7
>PF09142 TruB_C: tRNA Pseudouridine synthase II, C terminal; InterPro: IPR015225 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. The C-terminal domain adopts a secondary structure consisting of a four-stranded beta sheet and one alpha helix, similar to that found in PUA domains. It is predominantly involved in RNA-binding, being mostly found in tRNA pseudouridine synthase B (TruB) []. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1SGV_B.
Probab=36.08 E-value=27 Score=22.67 Aligned_cols=23 Identities=17% Similarity=0.436 Sum_probs=16.9
Q ss_pred cCCCc-eEEEEeccCCCcceEEEE
Q 031855 120 MHDDG-CLVFAYYKEGATDPTFLY 142 (152)
Q Consensus 120 md~dg-mv~l~~y~edg~tP~~~f 142 (152)
++||| +|+|+.-+.+...|..+|
T Consensus 32 ~~pdG~lvAL~~~~g~~~rp~~Vf 55 (56)
T PF09142_consen 32 FAPDGRLVALLEERGGRARPVVVF 55 (56)
T ss_dssp E-TTS-EEEEEEEETTEEEEEEES
T ss_pred ECCCCcEEEEEEccCCcEeEEEee
Confidence 47887 777887777777888765
No 8
>cd02957 Phd_like Phosducin (Phd)-like family; composed of Phd and Phd-like proteins (PhLP), characterized as cytosolic regulators of G protein functions. Phd and PhLPs specifically bind G protein betagamma (Gbg)-subunits with high affinity, resulting in the solubilization of Gbg from the plasma membrane and impeding G protein-mediated signal transduction by inhibiting the formation of a functional G protein trimer (G protein alphabetagamma). Phd also inhibits the GTPase activity of G protein alpha. Phd can be phosphorylated by protein kinase A and G protein-coupled receptor kinase 2, leading to its inactivation. Phd was originally isolated from the retina, where it is highly expressed and has been implicated to play an important role in light adaptation. It is also found in the pineal gland, liver, spleen, striated muscle and the brain. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-te
Probab=34.45 E-value=32 Score=24.32 Aligned_cols=42 Identities=17% Similarity=0.251 Sum_probs=24.8
Q ss_pred HHHHHhcCCCcceeecCCcCCCceEEEEeccCCCcceEEEEEcccc
Q 031855 102 TKFLLSKLSDLQFFVGESMHDDGCLVFAYYKEGATDPTFLYIADAL 147 (152)
Q Consensus 102 vK~il~nfkd~qFf~Gesmd~dgmv~l~~y~edg~tP~~~f~KdGL 147 (152)
+..+..++.+..|+. +|.+-. .+..--.=..+|++++|++|=
T Consensus 46 l~~la~~~~~v~f~~---vd~~~~-~l~~~~~i~~~Pt~~~f~~G~ 87 (113)
T cd02957 46 LEELAAKYPETKFVK---INAEKA-FLVNYLDIKVLPTLLVYKNGE 87 (113)
T ss_pred HHHHHHHCCCcEEEE---EEchhh-HHHHhcCCCcCCEEEEEECCE
Confidence 334444566677764 455433 444322234699999999984
No 9
>KOG0907 consensus Thioredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=31.25 E-value=29 Score=25.21 Aligned_cols=48 Identities=19% Similarity=0.097 Sum_probs=29.5
Q ss_pred HHHHHHhcCCCcceeecCCcCCCceEEEEeccCCCcceEEEEEccccceec
Q 031855 101 ATKFLLSKLSDLQFFVGESMHDDGCLVFAYYKEGATDPTFLYIADALKEVK 151 (152)
Q Consensus 101 ~vK~il~nfkd~qFf~Gesmd~dgmv~l~~y~edg~tP~~~f~KdGL~eeK 151 (152)
.+.++-.++.+-.|+.= |.|-..-+++=-+--..|+|.|||+|-+..+
T Consensus 42 ~~~~La~~y~~v~Flkv---dvde~~~~~~~~~V~~~PTf~f~k~g~~~~~ 89 (106)
T KOG0907|consen 42 KFEKLAEKYPDVVFLKV---DVDELEEVAKEFNVKAMPTFVFYKGGEEVDE 89 (106)
T ss_pred HHHHHHHHCCCCEEEEE---ecccCHhHHHhcCceEeeEEEEEECCEEEEE
Confidence 55666677888777752 3332111222112346999999999987654
No 10
>PTZ00062 glutaredoxin; Provisional
Probab=30.17 E-value=92 Score=25.32 Aligned_cols=41 Identities=12% Similarity=0.200 Sum_probs=28.9
Q ss_pred hhHHHHHHHHhcCCCcceeecCCcCCCceEEEEeccCCCcceEEEEEccccc
Q 031855 97 NIEGATKFLLSKLSDLQFFVGESMHDDGCLVFAYYKEGATDPTFLYIADALK 148 (152)
Q Consensus 97 ~a~~~vK~il~nfkd~qFf~Gesmd~dgmv~l~~y~edg~tP~~~f~KdGL~ 148 (152)
.+...+..|.+.|.+++|+.=+ .| | +--..|+|+||++|-.
T Consensus 34 ~m~~vl~~l~~~~~~~~F~~V~---~d-------~-~V~~vPtfv~~~~g~~ 74 (204)
T PTZ00062 34 QLMDVCNALVEDFPSLEFYVVN---LA-------D-ANNEYGVFEFYQNSQL 74 (204)
T ss_pred HHHHHHHHHHHHCCCcEEEEEc---cc-------c-CcccceEEEEEECCEE
Confidence 3455566677788999998754 34 2 2345899999999854
No 11
>PF13573 SprB: SprB repeat
Probab=28.59 E-value=87 Score=18.48 Aligned_cols=24 Identities=21% Similarity=0.379 Sum_probs=19.4
Q ss_pred CCCceEEEEeccCCCcceEEEEEccc
Q 031855 121 HDDGCLVFAYYKEGATDPTFLYIADA 146 (152)
Q Consensus 121 d~dgmv~l~~y~edg~tP~~~f~KdG 146 (152)
+.||.|.+. -.+|..||.+-|..|
T Consensus 12 ~~dG~i~v~--~tGG~~pY~y~w~~~ 35 (37)
T PF13573_consen 12 GNDGSITVT--VTGGTGPYTYSWSNG 35 (37)
T ss_pred CCCeEEEEE--EeCCCcCEEEEEcCC
Confidence 457988885 458999999999876
No 12
>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=28.07 E-value=83 Score=28.68 Aligned_cols=51 Identities=18% Similarity=0.237 Sum_probs=43.1
Q ss_pred ChHHHHH--HHHhhHHHHHHHHhcCCCcceeecCCcCCCceEEEEeccCCCcceEEE
Q 031855 87 SEERQEI--FKKNIEGATKFLLSKLSDLQFFVGESMHDDGCLVFAYYKEGATDPTFL 141 (152)
Q Consensus 87 ~~e~v~~--Fk~~a~~~vK~il~nfkd~qFf~Gesmd~dgmv~l~~y~edg~tP~~~ 141 (152)
+=+.++. +.+.+|+.-|.|+..|+|=+.|+--+ |||.+..=.++-..|-|.
T Consensus 319 sL~dIA~~vQLa~~qevek~Ilqmie~~~i~a~iN----G~v~f~~n~e~~~SpeM~ 371 (422)
T KOG2582|consen 319 SLSDIASRVQLASAQEVEKYILQMIEDGEIFASIN----GMVFFTDNPEKYNSPEMH 371 (422)
T ss_pred hHHHHHHHHHhcchHHHHHHHHHHhccCceEEEec----ceEEEecCcccCCCHHHH
Confidence 5577777 99999999999999999999999764 999998777777777554
No 13
>KOG3242 consensus Oligoribonuclease (3'->5' exoribonuclease) [RNA processing and modification]
Probab=24.64 E-value=20 Score=29.54 Aligned_cols=44 Identities=18% Similarity=0.317 Sum_probs=29.9
Q ss_pred HHHHHHHHHhccCC-----------------ChHHHH--HHHHhhHHHHHHHHhcCCCcceee
Q 031855 73 TYMKRFIKLLTPKL-----------------SEERQE--IFKKNIEGATKFLLSKLSDLQFFV 116 (152)
Q Consensus 73 ~yiK~Y~K~vk~kL-----------------~~e~v~--~Fk~~a~~~vK~il~nfkd~qFf~ 116 (152)
.+|+.||.++.++| .|+..+ +=|++.-.++..|.+..+++|+|.
T Consensus 134 lFl~k~mPk~~~~lhyrivDVStIkeL~~Rw~P~~~~~aPkK~~~HrAldDI~ESI~ELq~Yr 196 (208)
T KOG3242|consen 134 LFLKKYMPKLIKHLHYRIVDVSTIKELARRWYPDIKARAPKKKATHRALDDIRESIKELQYYR 196 (208)
T ss_pred HHHHHHhHHHHHhcceeeeeHHHHHHHHHHhCchhhccCcccccccchHHHHHHHHHHHHHHH
Confidence 47788888888887 243322 445666667777888888888775
No 14
>PRK10486 autoinducer-2 (AI-2) modifying protein LsrG; Provisional
Probab=24.17 E-value=1.1e+02 Score=21.26 Aligned_cols=47 Identities=15% Similarity=0.125 Sum_probs=33.6
Q ss_pred ChHHHHHHHHhhHHHHHHHHhcCCCcceeecCCcCCCceEEEEe-ccC
Q 031855 87 SEERQEIFKKNIEGATKFLLSKLSDLQFFVGESMHDDGCLVFAY-YKE 133 (152)
Q Consensus 87 ~~e~v~~Fk~~a~~~vK~il~nfkd~qFf~Gesmd~dgmv~l~~-y~e 133 (152)
.|++.++|...++..+......=....|...++-+..+.+++.. |++
T Consensus 11 kpg~~~~~~~~l~~~~~~sr~EpGcl~y~~~~~~~~p~~~~~~E~w~d 58 (96)
T PRK10486 11 KEDKVDEFIEVFRQNHLGSIQEPGNLRFDVLQDPEVPTRFYIYEAYKD 58 (96)
T ss_pred CcchHHHHHHHHHHHHHHHhCCCCceEEEEEeCCCCCCEEEEEEEeCC
Confidence 78999999999999998777655556676777655445555443 654
No 15
>PRK00239 rpsT 30S ribosomal protein S20; Reviewed
Probab=23.47 E-value=1.7e+02 Score=20.80 Aligned_cols=36 Identities=17% Similarity=0.103 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHhccCC---ChHHHHHHHHhhHHHHHH
Q 031855 69 KQFVTYMKRFIKLLTPKL---SEERQEIFKKNIEGATKF 104 (152)
Q Consensus 69 k~y~~yiK~Y~K~vk~kL---~~e~v~~Fk~~a~~~vK~ 104 (152)
+.+++-||.++|++..-+ +.+........++..+-+
T Consensus 22 ~~~kS~~kT~iKk~~~ai~~~~~~~a~~~~~~a~s~iDk 60 (88)
T PRK00239 22 KSRKSRVRTAIKKVEAAIAAGDKEAAEEALKAAQSKIDK 60 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence 467778888888887777 345555555555554443
No 16
>PF14681 UPRTase: Uracil phosphoribosyltransferase; PDB: 1V9S_B 1UPF_A 1UPU_D 1JLR_B 1BD4_A 1BD3_C 1JLS_D 1XTV_C 1XTU_H 3G6W_C ....
Probab=23.42 E-value=60 Score=26.04 Aligned_cols=30 Identities=17% Similarity=0.442 Sum_probs=25.5
Q ss_pred hHHHHHHHHhcCCCcceeec---CCcCCCceEE
Q 031855 98 IEGATKFLLSKLSDLQFFVG---ESMHDDGCLV 127 (152)
Q Consensus 98 a~~~vK~il~nfkd~qFf~G---esmd~dgmv~ 127 (152)
++..++.|...|.+.+.||+ +.+|.+|.|+
T Consensus 162 s~~Gl~~l~~~~P~v~I~ta~iD~~L~~~~~i~ 194 (207)
T PF14681_consen 162 SPEGLERLLKAFPDVRIYTAAIDPELNENGYIV 194 (207)
T ss_dssp EHHHHHHHHHHSTTSEEEEEEEESEEETTSEEE
T ss_pred cHHHHHHHHHhCCCeEEEEEEEccccCCCCCcc
Confidence 45688889999999999998 6788888886
No 17
>cd00717 URO-D Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction is located at the branching point of the tetrapyrrole biosynthetic pathway, leading to the biosynthesis of heme, chlorophyll or bacteriochlorophyll. URO-D deficiency is responsible for the human genetic diseases familial porphyria cutanea tarda (fPCT) and hepatoerythropoietic porphyria (HEP).
Probab=22.97 E-value=49 Score=27.99 Aligned_cols=38 Identities=13% Similarity=0.234 Sum_probs=27.2
Q ss_pred eeEeeeeeeCcccccCCCCCHHHHHHHHHHHHHHhccCC
Q 031855 48 AVKVVDIVDTFRLQEQPAFDKKQFVTYMKRFIKLLTPKL 86 (152)
Q Consensus 48 ~~~viDiV~~~rL~e~t~f~Kk~y~~yiK~Y~K~vk~kL 86 (152)
.+.|.|++.-+.-.. .-++.+.|..|++.|+|+|.+.+
T Consensus 187 ieaGad~i~i~d~~~-~~lsp~~f~ef~~P~~k~i~~~i 224 (335)
T cd00717 187 IEAGAQAVQIFDSWA-GALSPEDFEEFVLPYLKRIIEEV 224 (335)
T ss_pred HHhCCCEEEEeCccc-ccCCHHHHHHHHHHHHHHHHHHH
Confidence 345677664343333 34699999999999999998776
No 18
>PF03992 ABM: Antibiotic biosynthesis monooxygenase; InterPro: IPR007138 This domain is found in monooxygenases involved in the biosynthesis of several antibiotics by Streptomyces species, which can carry out oxygenation without the assistance of any of the prosthetic groups, metal ions or cofactors normally associated with activation of molecular oxygen. The structure of ActVA-Orf6 monooxygenase from Streptomyces coelicolor (Q53908 from SWISSPROT), which is involved in actinorhodin biosynthesis, reveals a dimeric alpha+beta barrel topology []. There is also a conserved histidine that is likely to be an active site residue. In S. coelicolor SCO1909 (Q9X9W3 from SWISSPROT) this domain occurs as a repeat. This domain is also found in protein LsrG, involved in the degradation of quorum-sensing molecule autoinducer-2 [], and in several uncharacterised proteins.; PDB: 1X7V_A 3F44_A 4DN9_B 1N5T_B 1LQ9_A 1N5Q_B 1N5V_A 1N5S_A 2GFF_B 3BM7_A ....
Probab=22.61 E-value=2e+02 Score=17.85 Aligned_cols=46 Identities=11% Similarity=0.175 Sum_probs=30.7
Q ss_pred ChHHHHHHHHhhHHHHHHHHhcCCCc-ceeecCCc-CCCceEEEEecc
Q 031855 87 SEERQEIFKKNIEGATKFLLSKLSDL-QFFVGESM-HDDGCLVFAYYK 132 (152)
Q Consensus 87 ~~e~v~~Fk~~a~~~vK~il~nfkd~-qFf~Gesm-d~dgmv~l~~y~ 132 (152)
.|++.+.|...++.....++.+.+.+ .+....+. ||+-.+.+-.|+
T Consensus 11 ~~~~~~~f~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~W~ 58 (78)
T PF03992_consen 11 KPGKEEEFLAAFQELAEATLRKEPGCLSYELYRSLDDPNRYVIVERWE 58 (78)
T ss_dssp ETTGHHHHHHHHHHHHHHHHHTSTTEEEEEEEEESSSTTEEEEEEEES
T ss_pred CcchHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCCCCEEEEEEEEC
Confidence 68889999999999999998877763 22223333 344444455454
No 19
>TIGR03825 FliH_bacil flagellar assembly protein FliH. This bacillus clade of FliH proteins is not found by the Pfam FliH model pfam02108, but is closely related to the sequences identified by that model. Sequences identified by this model are observed in flagellar operons in an analogous position relative to other flagellar operon genes.
Probab=22.50 E-value=4.4e+02 Score=21.67 Aligned_cols=62 Identities=18% Similarity=0.296 Sum_probs=46.6
Q ss_pred CHHHHHHHHHHHHHHhccC--C----ChHHHHHHHHhhHHHHHHHHhcCCCcceeecCCcCCCceEEEE
Q 031855 67 DKKQFVTYMKRFIKLLTPK--L----SEERQEIFKKNIEGATKFLLSKLSDLQFFVGESMHDDGCLVFA 129 (152)
Q Consensus 67 ~Kk~y~~yiK~Y~K~vk~k--L----~~e~v~~Fk~~a~~~vK~il~nfkd~qFf~Gesmd~dgmv~l~ 129 (152)
++......++..+..+... + +|+..+...... ..+...++....|.++-.+++++.|+++=.
T Consensus 157 ~~e~i~~lv~~al~~l~~~~~i~I~v~p~d~~~v~~~~-~~l~~~~~~~~~i~i~~D~~l~~GgcvIEt 224 (255)
T TIGR03825 157 DKNAFQALVRQVLSEVREFDEVSIYVHPHWYERVAAQK-DELQSILPACEHLAVYPDEKLPDGGCYVET 224 (255)
T ss_pred CHHHHHHHHHHHHHhccCCCcEEEEECHHHHHHHHHhH-HHHHhhcCCCCceEEEeCCCCCCCCeEEEc
Confidence 4556788888888888752 2 888877666543 455566777788999999999999998844
No 20
>cd01145 TroA_c Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=21.97 E-value=83 Score=24.79 Aligned_cols=32 Identities=25% Similarity=0.226 Sum_probs=22.7
Q ss_pred HHHHHHHHhccCC---ChHHHHHHHHhhHHHHHHH
Q 031855 74 YMKRFIKLLTPKL---SEERQEIFKKNIEGATKFL 105 (152)
Q Consensus 74 yiK~Y~K~vk~kL---~~e~v~~Fk~~a~~~vK~i 105 (152)
..+.+.+.|.+.| .|+..+.|+++++++.+++
T Consensus 116 ~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~l 150 (203)
T cd01145 116 NAPALAKALADALIELDPSEQEEYKENLRVFLAKL 150 (203)
T ss_pred HHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence 3456666777666 7887788888888777654
No 21
>PF14679 FANCI_HD1: FANCI helical domain 1; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=21.25 E-value=20 Score=25.63 Aligned_cols=29 Identities=21% Similarity=0.212 Sum_probs=24.1
Q ss_pred HHHHHHHHhhHHHHHH-HHhcCCCcceeec
Q 031855 89 ERQEIFKKNIEGATKF-LLSKLSDLQFFVG 117 (152)
Q Consensus 89 e~v~~Fk~~a~~~vK~-il~nfkd~qFf~G 117 (152)
.|+..|..++..++|. |+..|+|+|+-.|
T Consensus 33 arI~Rfeeqvfd~Lk~~i~k~~kd~~~~~~ 62 (87)
T PF14679_consen 33 ARIQRFEEQVFDFLKAAIVKSFKDDQKQQG 62 (87)
T ss_dssp TTSGGGHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 5778899999999995 6789999888665
No 22
>PHA02278 thioredoxin-like protein
Probab=21.04 E-value=56 Score=23.33 Aligned_cols=13 Identities=15% Similarity=0.266 Sum_probs=10.9
Q ss_pred cceEEEEEccccc
Q 031855 136 TDPTFLYIADALK 148 (152)
Q Consensus 136 ~tP~~~f~KdGL~ 148 (152)
..|+|++||+|=.
T Consensus 72 ~iPT~i~fk~G~~ 84 (103)
T PHA02278 72 STPVLIGYKDGQL 84 (103)
T ss_pred cccEEEEEECCEE
Confidence 4899999999843
No 23
>TIGR01464 hemE uroporphyrinogen decarboxylase. This model represents uroporphyrinogen decarboxylase (HemE), which converts uroporphyrinogen III to coproporphyrinogen III. This step takes the pathway toward protoporphyrin IX, a common precursor of both heme and chlorophyll, rather than toward precorrin 2 and its products.
Probab=20.90 E-value=56 Score=27.69 Aligned_cols=37 Identities=14% Similarity=0.250 Sum_probs=26.7
Q ss_pred eEeeeeeeCcccccCCCCCHHHHHHHHHHHHHHhccCC
Q 031855 49 VKVVDIVDTFRLQEQPAFDKKQFVTYMKRFIKLLTPKL 86 (152)
Q Consensus 49 ~~viDiV~~~rL~e~t~f~Kk~y~~yiK~Y~K~vk~kL 86 (152)
+.|.|++.-+.-.. .-++.+.|..|++.|+|+|.+.+
T Consensus 191 eaGad~i~i~d~~~-~~lsp~~f~ef~~p~~k~i~~~i 227 (338)
T TIGR01464 191 KAGAQAVQIFDSWA-GALSPEDFEEFVLPYLKKIIEEV 227 (338)
T ss_pred HcCCCEEEEECCcc-ccCCHHHHHHHHHHHHHHHHHHH
Confidence 45666655443333 45689999999999999998766
No 24
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=20.35 E-value=93 Score=25.99 Aligned_cols=32 Identities=16% Similarity=0.237 Sum_probs=24.2
Q ss_pred HHHHHHHhccCC---ChHHHHHHHHhhHHHHHHHH
Q 031855 75 MKRFIKLLTPKL---SEERQEIFKKNIEGATKFLL 106 (152)
Q Consensus 75 iK~Y~K~vk~kL---~~e~v~~Fk~~a~~~vK~il 106 (152)
.+.+++.|.+.| .|+..+.|.++++++.+++-
T Consensus 130 ~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~ 164 (286)
T cd01019 130 AAEVAQAVAEKLSALDPDNAATYAANLEAFNARLA 164 (286)
T ss_pred HHHHHHHHHHHHHHHCchhHHHHHHHHHHHHHHHH
Confidence 355666777766 78988999999998887643
Done!