Query 029586
Match_columns 191
No_of_seqs 19 out of 21
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 15:17:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029586.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029586hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1128 Uncharacterized conser 99.4 2.6E-13 5.6E-18 132.0 8.8 143 2-179 613-759 (777)
2 PRK14099 glycogen synthase; Pr 51.4 14 0.0003 34.3 2.8 25 126-150 104-128 (485)
3 smart00386 HAT HAT (Half-A-TPR 41.5 56 0.0012 17.6 3.4 27 79-105 5-32 (33)
4 PF01322 Cytochrom_C_2: Cytoch 39.4 87 0.0019 23.4 5.1 48 129-177 70-117 (122)
5 PF13432 TPR_16: Tetratricopep 39.2 91 0.002 19.9 4.6 37 82-118 18-55 (65)
6 PF05843 Suf: Suppressor of fo 38.6 56 0.0012 28.0 4.4 90 82-184 57-150 (280)
7 COG0042 tRNA-dihydrouridine sy 37.2 1.2E+02 0.0026 27.3 6.4 38 139-176 253-290 (323)
8 PF14559 TPR_19: Tetratricopep 36.1 61 0.0013 20.7 3.4 40 83-122 13-53 (68)
9 PF08323 Glyco_transf_5: Starc 36.0 25 0.00055 29.5 1.9 24 126-149 106-129 (245)
10 PF07719 TPR_2: Tetratricopept 34.6 73 0.0016 17.7 3.2 29 94-122 1-29 (34)
11 PF13428 TPR_14: Tetratricopep 33.7 71 0.0015 19.7 3.3 30 94-123 1-30 (44)
12 TIGR02996 rpt_mate_G_obs repea 31.4 66 0.0014 22.0 3.0 29 83-111 5-33 (42)
13 PF07739 TipAS: TipAS antibiot 29.2 2E+02 0.0044 20.6 5.5 66 68-139 32-97 (118)
14 PF04270 Strep_his_triad: Stre 26.6 35 0.00076 24.1 1.1 18 155-172 35-52 (53)
15 PF05292 MCD: Malonyl-CoA deca 26.5 1E+02 0.0022 29.2 4.3 55 117-172 269-323 (354)
16 TIGR02935 probable nitrogen fi 26.4 56 0.0012 27.3 2.3 24 116-139 7-33 (140)
17 PF05635 23S_rRNA_IVP: 23S rRN 26.3 2.7E+02 0.0058 20.5 6.0 33 126-158 54-86 (110)
18 PF14689 SPOB_a: Sensor_kinase 26.0 62 0.0014 22.4 2.2 23 169-191 8-30 (62)
19 PRK14098 glycogen synthase; Pr 25.2 65 0.0014 29.9 2.8 25 125-149 113-137 (489)
20 PRK10370 formate-dependent nit 24.3 2.5E+02 0.0054 22.9 5.8 48 89-141 68-115 (198)
21 PF09454 Vps23_core: Vps23 cor 23.3 1.4E+02 0.0031 21.3 3.7 13 113-125 41-53 (65)
22 PF08311 Mad3_BUB1_I: Mad3/BUB 23.1 2.7E+02 0.0059 21.5 5.5 82 94-186 22-107 (126)
23 PF03288 Pox_D5: Poxvirus D5 p 22.2 60 0.0013 22.7 1.6 43 92-134 23-66 (86)
24 KOG3276 Uncharacterized conser 21.8 78 0.0017 26.1 2.3 42 42-85 43-84 (125)
25 PF13371 TPR_9: Tetratricopept 21.4 1.9E+02 0.004 18.6 3.7 38 82-119 16-54 (73)
26 COG2976 Uncharacterized protei 20.2 1.6E+02 0.0035 26.0 4.1 32 141-179 90-121 (207)
No 1
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=99.44 E-value=2.6e-13 Score=131.98 Aligned_cols=143 Identities=31% Similarity=0.418 Sum_probs=123.0
Q ss_pred ceecCCCccccHHHHHHHHHHHhccccccccccccccCCCCcCCCccCCCCCcccccCCCccccccccchhhhHHHHHHH
Q 029586 2 VLNMTNNKRIDTVLLERIVLDMEGRTSIIESESCRTTHNLNRTNNTCAKDLPVESVHVSSPEESIMGRSRENEHLMEFLG 81 (191)
Q Consensus 2 Vl~lS~nKr~d~~LLerI~~evE~r~~~~~~~~~~~~~d~~~t~~~~~~D~~~~~~~~~~~~~~~~g~~re~~qL~e~lG 81 (191)
.++|..+++.|.+++..|++.+|+.. +.+ +.+.++..++.. |.+|
T Consensus 613 ll~~~~~~~d~~vl~~iv~~~~~~~~----d~s----------------------------~de~~~~k~~~k---elmg 657 (777)
T KOG1128|consen 613 LLDLRKKYKDDEVLLIIVRTVLEGMT----DES----------------------------GDEATGLKGKLK---ELLG 657 (777)
T ss_pred HHHhhhhcccchhhHHHHHHHHhhcc----ccc----------------------------cchhhhhhHHHH---HHHH
Confidence 46788889999999999999999986 111 011122222233 9999
Q ss_pred HHHHHHHhccCcchhhh-HHHHHHHhhCChh-hhhHHHHHHhhhhcCCcccc-chHHHHHHHHHHHHHHHHHHHHhcCCC
Q 029586 82 KILQQVVRSESSADMWG-LYARWLKNKGDLT-MCSEALLKQVRSYQGSDLWK-DRDRFKRFSYASLELCKVYMEISSSSG 158 (191)
Q Consensus 82 kiLqQiv~S~~~adiWg-L~Arw~~~~Gd~~-~csEA~LKQVRslqgS~~~k-D~~rF~~yA~ASl~lCr~y~e~~~s~G 158 (191)
++++|+++|+.+..+|+ +|++|...+++-. .|.++..|+++..+|+..|+ |.+.|+++.++++.||.+|+|+....+
T Consensus 658 ~~~~qv~~s~~~wrL~a~l~~~~~~ek~~~~eka~~~l~k~~~~~s~~~~w~~d~~~~~~~v~~a~~l~~v~~e~~~~i~ 737 (777)
T KOG1128|consen 658 KVLSQVTNSPETWRLYALLYGNGSSEKLDENEKAYRALSKAYKCDTGSNVWEKDITLFKEVVQAALGLAHVAIECSKNIS 737 (777)
T ss_pred HHHHHHhCchhhhHhHhhhccccchhcccccHHHHhhhhhCccccccccCCccchhHHHHHHHHHHHHHHHHHHHhhhhH
Confidence 99999999888889999 8899999998888 99999999999999999888 999999999999999999999999999
Q ss_pred chhh-HHHHHHHHHHHHHHHHH
Q 029586 159 SRRE-LFAAEMHLKNVLKQVKH 179 (191)
Q Consensus 159 s~re-L~~A~MHLk~~lKqa~~ 179 (191)
+.+| ++++|||||+.+++++-
T Consensus 738 s~~e~~~t~rl~Lk~~~~~~~~ 759 (777)
T KOG1128|consen 738 SSQEMLSTVRLNLKGLLSKAKV 759 (777)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc
Confidence 9999 99999999999999863
No 2
>PRK14099 glycogen synthase; Provisional
Probab=51.43 E-value=14 Score=34.26 Aligned_cols=25 Identities=20% Similarity=0.295 Sum_probs=22.1
Q ss_pred CCccccchHHHHHHHHHHHHHHHHH
Q 029586 126 GSDLWKDRDRFKRFSYASLELCKVY 150 (191)
Q Consensus 126 gS~~~kD~~rF~~yA~ASl~lCr~y 150 (191)
|.+|.-|..||.-|++|+|++|+.-
T Consensus 104 ~~~~~d~~~rf~~f~~a~~~~~~~~ 128 (485)
T PRK14099 104 GKDWPDNAQRFAALARAAAAIGQGL 128 (485)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHhhh
Confidence 4579999999999999999999754
No 3
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=41.51 E-value=56 Score=17.58 Aligned_cols=27 Identities=22% Similarity=0.393 Sum_probs=19.3
Q ss_pred HHHHHHHHHHhcc-CcchhhhHHHHHHH
Q 029586 79 FLGKILQQVVRSE-SSADMWGLYARWLK 105 (191)
Q Consensus 79 ~lGkiLqQiv~S~-~~adiWgL~Arw~~ 105 (191)
..-++++++++.. .+.++|-.|+++..
T Consensus 5 ~~r~i~e~~l~~~~~~~~~W~~y~~~e~ 32 (33)
T smart00386 5 RARKIYERALEKFPKSVELWLKYAEFEE 32 (33)
T ss_pred HHHHHHHHHHHHCCCChHHHHHHHHHHh
Confidence 3445677766554 66899999998854
No 4
>PF01322 Cytochrom_C_2: Cytochrome C'; InterPro: IPR002321 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class II includes the high-spin cytC' and a number of low-spin cytochromes, e.g. cyt c-556. The haem-attachment site is close to the C terminus. The cytC' are capable of binding such ligands as CO, NO or CN(-), albeit with rate and equilibrium constants 100 to 1,000,000-fold smaller than other high-spin haemoproteins []. This, coupled with its relatively low redox potential, makes it unlikely that cytC' is a terminal oxidase. Thus cytC' probably functions as an electron transfer protein []. The 3D structures of a number of cytC' have been determined. The molecule usually exists as a dimer, each monomer folding as a four-alpha-helix bundle incorporating a covalently-bound haem group at the core []. The Chromatium vinosum cytC' exhibits dimer dissociation upon ligand binding [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0005746 mitochondrial respiratory chain; PDB: 1BBH_A 2J9B_B 2J8W_A 1JAF_B 3ZTM_A 2XLD_A 2XL6_A 1E86_A 2YLD_A 2YKZ_A ....
Probab=39.44 E-value=87 Score=23.45 Aligned_cols=48 Identities=21% Similarity=0.288 Sum_probs=36.0
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHhcCCCchhhHHHHHHHHHHHHHHH
Q 029586 129 LWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQV 177 (191)
Q Consensus 129 ~~kD~~rF~~yA~ASl~lCr~y~e~~~s~Gs~reL~~A~MHLk~~lKqa 177 (191)
-|.|.+.|.+++.+-.+-...-.+.. .+|....+..+=..|..+||..
T Consensus 70 Iw~~~~~F~~~~~~~~~aa~~L~~aa-~~~d~~~~~~a~~~v~~~C~aC 117 (122)
T PF01322_consen 70 IWEDPEDFKQLAQAFQKAAAALAAAA-KSGDLAAIKAAFGEVGKSCKAC 117 (122)
T ss_dssp HHHTHHHHHHHHHHHHHHHHHHHHHH-HHTSHHHHHHHHHHHHHHHHHH
T ss_pred HHhCHHHHHHHHHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHHHHHH
Confidence 58899999998888777766666555 3467778888877788877764
No 5
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=39.25 E-value=91 Score=19.87 Aligned_cols=37 Identities=16% Similarity=0.324 Sum_probs=28.5
Q ss_pred HHHHHHHhcc-CcchhhhHHHHHHHhhCChhhhhHHHH
Q 029586 82 KILQQVVRSE-SSADMWGLYARWLKNKGDLTMCSEALL 118 (191)
Q Consensus 82 kiLqQiv~S~-~~adiWgL~Arw~~~~Gd~~~csEA~L 118 (191)
++++++++.. ..+++|-.+++-+...|+..-+-+..-
T Consensus 18 ~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~ 55 (65)
T PF13432_consen 18 AAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYE 55 (65)
T ss_dssp HHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 4567777555 679999999999999999998884443
No 6
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=38.58 E-value=56 Score=28.02 Aligned_cols=90 Identities=21% Similarity=0.366 Sum_probs=50.7
Q ss_pred HHHHHHHhc-cCcchhhhHHHHHHHhhCChhhhhHHHHHHhhhhcCCccccchHHHHHHHHHHHHHHHHHHHHhcCCCch
Q 029586 82 KILQQVVRS-ESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSR 160 (191)
Q Consensus 82 kiLqQiv~S-~~~adiWgL~Arw~~~~Gd~~~csEA~LKQVRslqgS~~~kD~~rF~~yA~ASl~lCr~y~e~~~s~Gs~ 160 (191)
+|+...++. +...++|-.|.++.-..||..-++ ++++++=+.-+. +.. +-.+|+-|++.-+.-|..
T Consensus 57 ~Ife~glk~f~~~~~~~~~Y~~~l~~~~d~~~aR-~lfer~i~~l~~----~~~--------~~~iw~~~i~fE~~~Gdl 123 (280)
T PF05843_consen 57 KIFERGLKKFPSDPDFWLEYLDFLIKLNDINNAR-ALFERAISSLPK----EKQ--------SKKIWKKFIEFESKYGDL 123 (280)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHHTT-HHHHH-HHHHHHCCTSSC----HHH--------CHHHHHHHHHHHHHHS-H
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHhCcHHHHH-HHHHHHHHhcCc----hhH--------HHHHHHHHHHHHHHcCCH
Confidence 344444433 355799999999998888866554 233322111111 110 778999999998888866
Q ss_pred hhHHHHHHHHHHHH---HHHHHHHHHH
Q 029586 161 RELFAAEMHLKNVL---KQVKHLIIRY 184 (191)
Q Consensus 161 reL~~A~MHLk~~l---Kqa~~f~~~~ 184 (191)
..+...+......+ +....|+.||
T Consensus 124 ~~v~~v~~R~~~~~~~~~~~~~f~~ry 150 (280)
T PF05843_consen 124 ESVRKVEKRAEELFPEDNSLELFSDRY 150 (280)
T ss_dssp HHHHHHHHHHHHHTTTS-HHHHHHCCT
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHHh
Confidence 65555555544444 3334556555
No 7
>COG0042 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=37.15 E-value=1.2e+02 Score=27.26 Aligned_cols=38 Identities=18% Similarity=0.125 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHhcCCCchhhHHHHHHHHHHHHHH
Q 029586 139 FSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQ 176 (191)
Q Consensus 139 yA~ASl~lCr~y~e~~~s~Gs~reL~~A~MHLk~~lKq 176 (191)
....-++.|..|++..-..++.+-+..+++|+...+|.
T Consensus 253 ~~~e~~~~~~~~~~~~~~~~~~~~~~~~r~h~~~~~~~ 290 (323)
T COG0042 253 TLAEVLDILREHLELLLEYYGKKGLRRLRKHLGYYLKG 290 (323)
T ss_pred CHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHhhc
Confidence 44566788888888776665588899999999887764
No 8
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=36.14 E-value=61 Score=20.66 Aligned_cols=40 Identities=18% Similarity=0.312 Sum_probs=28.6
Q ss_pred HHHHHH-hccCcchhhhHHHHHHHhhCChhhhhHHHHHHhh
Q 029586 83 ILQQVV-RSESSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (191)
Q Consensus 83 iLqQiv-~S~~~adiWgL~Arw~~~~Gd~~~csEA~LKQVR 122 (191)
++++++ ..+.+.++|-.+|.-+-..|++.-|.+-+-+-+.
T Consensus 13 ~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~ 53 (68)
T PF14559_consen 13 LLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLK 53 (68)
T ss_dssp HHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344444 4567899999999999999999998765544333
No 9
>PF08323 Glyco_transf_5: Starch synthase catalytic domain; InterPro: IPR013534 This region represents the catalytic domain of glycogen (or starch) synthases that use ADP-glucose (2.4.1.21 from EC), rather than UDP-glucose (2.4.1.11 from EC) as in animals, as the glucose donor. This enzyme is found in bacteria and plants. Whether the name given is glycogen synthase or starch synthase depends on context, and therefore on substrate.; PDB: 2BIS_C 3L01_A 3FRO_A 2R4U_A 2R4T_A 3D1J_A 3COP_A 3GUH_A 2QZS_A 3CX4_A ....
Probab=35.96 E-value=25 Score=29.49 Aligned_cols=24 Identities=46% Similarity=0.585 Sum_probs=21.8
Q ss_pred CCccccchHHHHHHHHHHHHHHHH
Q 029586 126 GSDLWKDRDRFKRFSYASLELCKV 149 (191)
Q Consensus 126 gS~~~kD~~rF~~yA~ASl~lCr~ 149 (191)
|.+|-.|..||.-|++|++++|+.
T Consensus 106 ~~~~~d~~~rf~~fs~a~le~~~~ 129 (245)
T PF08323_consen 106 GGDYPDNAERFAFFSRAALELLKK 129 (245)
T ss_dssp SSBHTTHHHHHHHHHHHHHHHHCT
T ss_pred CCcchhHHHHHHHHHHHHHHHHHh
Confidence 568899999999999999999985
No 10
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=34.59 E-value=73 Score=17.69 Aligned_cols=29 Identities=17% Similarity=0.240 Sum_probs=23.4
Q ss_pred chhhhHHHHHHHhhCChhhhhHHHHHHhh
Q 029586 94 ADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (191)
Q Consensus 94 adiWgL~Arw~~~~Gd~~~csEA~LKQVR 122 (191)
|++|-..+..+...|+...|.+...|-++
T Consensus 1 a~~~~~lg~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF07719_consen 1 AEAWYYLGQAYYQLGNYEEAIEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 46788899999999999999988776554
No 11
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=33.65 E-value=71 Score=19.74 Aligned_cols=30 Identities=17% Similarity=0.211 Sum_probs=24.2
Q ss_pred chhhhHHHHHHHhhCChhhhhHHHHHHhhh
Q 029586 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRS 123 (191)
Q Consensus 94 adiWgL~Arw~~~~Gd~~~csEA~LKQVRs 123 (191)
+++|-.+|+++...|++.-|.+.+-+=|+.
T Consensus 1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~ 30 (44)
T PF13428_consen 1 PAAWLALARAYRRLGQPDEAERLLRRALAL 30 (44)
T ss_pred CHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 368999999999999999987766555543
No 12
>TIGR02996 rpt_mate_G_obs repeat-companion domain TIGR02996. This model describes an abundant paralogous domain of Gemmata obscuriglobus UQM 2246, a member of the Planctomycetes. The domain also occurs, although rarely, in Myxococcus xanthus DK 1622 and related species. Most member proteins have extensive repeats similar to the leucine-rich repeat, or another repeat class or region of low-complexity sequence. This domain is not repeated, and in Gemmata is usually found at the protein N-terminus.
Probab=31.43 E-value=66 Score=22.01 Aligned_cols=29 Identities=24% Similarity=0.524 Sum_probs=24.6
Q ss_pred HHHHHHhccCcchhhhHHHHHHHhhCChh
Q 029586 83 ILQQVVRSESSADMWGLYARWLKNKGDLT 111 (191)
Q Consensus 83 iLqQiv~S~~~adiWgL~Arw~~~~Gd~~ 111 (191)
+|.-|...+....-|-.||+|-...|++.
T Consensus 5 ll~AI~~~P~ddt~RLvYADWL~e~gdp~ 33 (42)
T TIGR02996 5 LLRAILAHPDDDTPRLVYADWLDEHGDPA 33 (42)
T ss_pred HHHHHHhCCCCcchHHHHHHHHHHcCCHH
Confidence 56667778888899999999999999983
No 13
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=29.15 E-value=2e+02 Score=20.63 Aligned_cols=66 Identities=20% Similarity=0.312 Sum_probs=40.5
Q ss_pred ccchhhhHHHHHHHHHHHHHHhccCcchhhhHHHHHHHhhCChhhhhHHHHHHhhhhcCCccccchHHHHHH
Q 029586 68 GRSRENEHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRF 139 (191)
Q Consensus 68 g~~re~~qL~e~lGkiLqQiv~S~~~adiWgL~Arw~~~~Gd~~~csEA~LKQVRslqgS~~~kD~~rF~~y 139 (191)
....+..+|+..|...+.+=+ ++.+.++=.|-++|...-..+.-|++++++.+..+-- +..+|+++
T Consensus 32 ~~~~~~~~l~~~l~~~~~~g~-~p~s~evq~l~~~~~~~~~~~~~~~~~~~~~l~~~y~-----~~~~~~~~ 97 (118)
T PF07739_consen 32 ELQKEWDELFAELAALMEEGV-DPDSPEVQELAERWMELINQFTGGDPELLRGLAQMYV-----EDPRFAAM 97 (118)
T ss_dssp -TTHHHHHHHHHHHHHHHHT---TT-HHHHHHHHHHHHHHHHSS---HHHHHHHHHHTT-----STHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHcCC-CcCCHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHH-----cCHHHHhh
Confidence 334555666666666555432 5677889999999999877888899998888765543 23666654
No 14
>PF04270 Strep_his_triad: Streptococcal histidine triad protein ; InterPro: IPR006270 This entry represents a repeated sequence region that includes a His-X-X-His-X-His (histidine triad) motif, which is found in family of Streptococcal proteins. Members of the family are suggested to cleave human complement component 3, and family member PhpA has been shown in vaccine studies to be a protective antigen in mice []. ; PDB: 2CS7_C.
Probab=26.60 E-value=35 Score=24.12 Aligned_cols=18 Identities=39% Similarity=0.218 Sum_probs=12.6
Q ss_pred cCCCchhhHHHHHHHHHH
Q 029586 155 SSSGSRRELFAAEMHLKN 172 (191)
Q Consensus 155 ~s~Gs~reL~~A~MHLk~ 172 (191)
.+..|.-|+.+|++||++
T Consensus 35 k~dLs~~E~~aA~~~~~~ 52 (53)
T PF04270_consen 35 KSDLSASELKAAQAYLAG 52 (53)
T ss_dssp GGGS-HHHHHHHHHHHH-
T ss_pred hhhCCHHHHHHHHHHHhc
Confidence 345578899999999875
No 15
>PF05292 MCD: Malonyl-CoA decarboxylase (MCD); InterPro: IPR007956 This family consists of several eukaryotic malonyl-CoA decarboxylase (MLYCD) proteins. Malonyl-CoA, in addition to being an intermediate in the de novo synthesis of fatty acids, is an inhibitor of carnitine palmitoyltransferase I, the enzyme that regulates the transfer of long-chain fatty acyl-CoA into mitochondria, where they are oxidised. After exercise, malonyl-CoA decarboxylase participates with acetyl-CoA carboxylase in regulating the concentration of malonyl-CoA in liver and adipose tissue, as well as in muscle. Malonyl-CoA decarboxylase is regulated by AMP-activated protein kinase (AMPK) [].; GO: 0050080 malonyl-CoA decarboxylase activity, 0006633 fatty acid biosynthetic process; PDB: 2YGW_B.
Probab=26.47 E-value=1e+02 Score=29.16 Aligned_cols=55 Identities=20% Similarity=0.231 Sum_probs=38.8
Q ss_pred HHHHhhhhcCCccccchHHHHHHHHHHHHHHHHHHHHhcCCCchhhHHHHHHHHHH
Q 029586 117 LLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKN 172 (191)
Q Consensus 117 ~LKQVRslqgS~~~kD~~rF~~yA~ASl~lCr~y~e~~~s~Gs~reL~~A~MHLk~ 172 (191)
..+.+..+...+|+.|...=.+.-..-+.||-.|+=---..|.+-+ --|+-||.|
T Consensus 269 ~~~~L~~l~~~~W~~d~~~~~~l~~~l~~l~a~Yl~~ek~~g~~~d-pVa~FHL~N 323 (354)
T PF05292_consen 269 ALEALLALDDPDWAEDPELSEALKPPLLRLAAHYLLNEKRRGRALD-PVARFHLGN 323 (354)
T ss_dssp THHHHH-HTTTGGGG-HHHHHHTHHHHHHHHHHHHHT-EETTEESS-HHHHHHHHT
T ss_pred hHhhhhhccCccccCCHHHHHHHHHHHHHHHHHHHHhhhcCCCcCC-chhhhccCC
Confidence 3455667888999999988888888999999999954444553322 357888876
No 16
>TIGR02935 probable nitrogen fixation protein. Members of this protein family, called DUF269 by Pfam model pfam03270, are strictly limited to nitrogen-fixing species, although not universal among them. The gene typically is found next to the nifX gene (see TIGRFAMs model TIGR02663).
Probab=26.41 E-value=56 Score=27.27 Aligned_cols=24 Identities=21% Similarity=0.570 Sum_probs=19.0
Q ss_pred HHHHHhhhhcCCcccc---chHHHHHH
Q 029586 116 ALLKQVRSYQGSDLWK---DRDRFKRF 139 (191)
Q Consensus 116 A~LKQVRslqgS~~~k---D~~rF~~y 139 (191)
.+++|+|++.+.|-|. |+.--+.|
T Consensus 7 eLv~q~RA~DtyG~w~~~sDe~lL~pf 33 (140)
T TIGR02935 7 ELVRQIRAQDTYGAWEGKSDAELLAPY 33 (140)
T ss_pred HHHHHHHhccCccccCCCChHHHHHhh
Confidence 5789999999999998 66554444
No 17
>PF05635 23S_rRNA_IVP: 23S rRNA-intervening sequence protein; InterPro: IPR008815 This family consists of bacterial proteins encoded within an intervening sequence present within some 23S rRNA genes[]. The function of these proteins is not known, but a structural study indicates that each momonmer folds into an antiparallel four-helix bundle, while the overall protein is a homopentamer with a toroid-shaped structure containing a tapered central channel [].; PDB: 2GSC_E 2RLD_D.
Probab=26.26 E-value=2.7e+02 Score=20.53 Aligned_cols=33 Identities=27% Similarity=0.332 Sum_probs=28.1
Q ss_pred CCccccchHHHHHHHHHHHHHHHHHHHHhcCCC
Q 029586 126 GSDLWKDRDRFKRFSYASLELCKVYMEISSSSG 158 (191)
Q Consensus 126 gS~~~kD~~rF~~yA~ASl~lCr~y~e~~~s~G 158 (191)
|..--+|.-+|-..|..|+.-|+.+++++...|
T Consensus 54 ~r~s~~d~~~~l~iA~~s~~E~~~~L~~a~~~~ 86 (110)
T PF05635_consen 54 GRRSKKDFIRFLYIARGSLAELRYWLELARDLG 86 (110)
T ss_dssp TSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 445567888888999999999999999997666
No 18
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=25.98 E-value=62 Score=22.38 Aligned_cols=23 Identities=22% Similarity=0.522 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhccC
Q 029586 169 HLKNVLKQVKHLIIRYLRHLQLV 191 (191)
Q Consensus 169 HLk~~lKqa~~f~~~~~~~~~~~ 191 (191)
.+++.+..-+.+=|.|+.|||.+
T Consensus 8 ~~~~~~~~lR~~RHD~~NhLqvI 30 (62)
T PF14689_consen 8 ELEELIDSLRAQRHDFLNHLQVI 30 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhHHHHHHHHHH
Confidence 46677788888899999999863
No 19
>PRK14098 glycogen synthase; Provisional
Probab=25.16 E-value=65 Score=29.93 Aligned_cols=25 Identities=24% Similarity=0.271 Sum_probs=21.8
Q ss_pred cCCccccchHHHHHHHHHHHHHHHH
Q 029586 125 QGSDLWKDRDRFKRFSYASLELCKV 149 (191)
Q Consensus 125 qgS~~~kD~~rF~~yA~ASl~lCr~ 149 (191)
.|.+|--|..||.-|+.|.+++|+.
T Consensus 113 ~g~~~~d~~~rf~~f~~a~l~~~~~ 137 (489)
T PRK14098 113 LGGDLKGSAEKVIFFNVGVLETLQR 137 (489)
T ss_pred cCCCCCcHHHHHHHHHHHHHHHHHh
Confidence 4557889999999999999999975
No 20
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=24.34 E-value=2.5e+02 Score=22.88 Aligned_cols=48 Identities=10% Similarity=0.310 Sum_probs=34.5
Q ss_pred hccCcchhhhHHHHHHHhhCChhhhhHHHHHHhhhhcCCccccchHHHHHHHH
Q 029586 89 RSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSY 141 (191)
Q Consensus 89 ~S~~~adiWgL~Arw~~~~Gd~~~csEA~LKQVRslqgS~~~kD~~rF~~yA~ 141 (191)
..+..++.|-..++.+...|+...|.++.=+-++ +.+ +|.+.+..||.
T Consensus 68 ~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~-l~P----~~~~~~~~lA~ 115 (198)
T PRK10370 68 ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQ-LRG----ENAELYAALAT 115 (198)
T ss_pred HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-hCC----CCHHHHHHHHH
Confidence 5668899999999999999999999888754433 333 24444444444
No 21
>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.
Probab=23.31 E-value=1.4e+02 Score=21.30 Aligned_cols=13 Identities=46% Similarity=0.514 Sum_probs=10.2
Q ss_pred hhHHHHHHhhhhc
Q 029586 113 CSEALLKQVRSYQ 125 (191)
Q Consensus 113 csEA~LKQVRslq 125 (191)
--++.||+||.|.
T Consensus 41 ~~d~~lK~vR~La 53 (65)
T PF09454_consen 41 DLDTFLKQVRSLA 53 (65)
T ss_dssp -HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHH
Confidence 4588999999984
No 22
>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.
Probab=23.14 E-value=2.7e+02 Score=21.50 Aligned_cols=82 Identities=21% Similarity=0.427 Sum_probs=56.2
Q ss_pred chhhhHHHHHHHhhCCh----hhhhHHHHHHhhhhcCCccccchHHHHHHHHHHHHHHHHHHHHhcCCCchhhHHHHHHH
Q 029586 94 ADMWGLYARWLKNKGDL----TMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMH 169 (191)
Q Consensus 94 adiWgL~Arw~~~~Gd~----~~csEA~LKQVRslqgS~~~kD~~rF~~yA~ASl~lCr~y~e~~~s~Gs~reL~~A~MH 169 (191)
=++|--|-+|-.-+-.. .--.+.+-+=+|.++...-.++..|| |.+|-.|++.+. .+++++. .|+
T Consensus 22 L~~w~~yI~w~~~~~p~~~~~~~L~~lLer~~~~f~~~~~Y~nD~Ry-------lkiWi~ya~~~~---~~~~if~-~l~ 90 (126)
T PF08311_consen 22 LDPWLRYIKWIEENYPSGGKQSGLLELLERCIRKFKDDERYKNDERY-------LKIWIKYADLSS---DPREIFK-FLY 90 (126)
T ss_dssp HHHHHHHHHHHHHHCTTCCCCHHHHHHHHHHHHHHTTSGGGTT-HHH-------HHHHHHHHTTBS---HHHHHHH-HHH
T ss_pred hHHHHHHHHHHHHHCCCCCchhHHHHHHHHHHHHHhhhHhhcCCHHH-------HHHHHHHHHHcc---CHHHHHH-HHH
Confidence 38999999998855322 22234555667888887777777777 678888888776 6777776 677
Q ss_pred HHHHHHHHHHHHHHHHh
Q 029586 170 LKNVLKQVKHLIIRYLR 186 (191)
Q Consensus 170 Lk~~lKqa~~f~~~~~~ 186 (191)
-+++-.+.-.|-+.|-.
T Consensus 91 ~~~IG~~~A~fY~~wA~ 107 (126)
T PF08311_consen 91 SKGIGTKLALFYEEWAE 107 (126)
T ss_dssp HHTTSTTBHHHHHHHHH
T ss_pred HcCccHHHHHHHHHHHH
Confidence 77766666666555543
No 23
>PF03288 Pox_D5: Poxvirus D5 protein-like; InterPro: IPR004968 This domain is found at the C terminus of phage P4 alpha protein and related proteins. Phage P4 DNA replication depends on the product of the alpha gene, which has origin recognition ability, DNA helicase activity, and DNA primase activity. The structure of the protein can be summarised as follows: The N terminus provides the primase activity, the central region is the helicase/nucleoside triphosphatase domain and the ori DNA recognition resides in the C-terminal 1/3 of the protein []. The domain is also found at the C terminus of a number of proteins from orthopox viruses including vaccinia virus D5. D5 encodes a 90kDa protein that is transiently expressed at early times after infection. It has an nucleoside triphosphatase activity which is independent of common nucleic acid cofactors and it can hydrolyse all the common ribo- and deoxyribonucleoside triphosphates to diphosphates in the presence of a divalent cation [].; PDB: 1KA8_E.
Probab=22.17 E-value=60 Score=22.71 Aligned_cols=43 Identities=21% Similarity=0.451 Sum_probs=30.5
Q ss_pred CcchhhhHHHHHHHhhCChh-hhhHHHHHHhhhhcCCccccchH
Q 029586 92 SSADMWGLYARWLKNKGDLT-MCSEALLKQVRSYQGSDLWKDRD 134 (191)
Q Consensus 92 ~~adiWgL~Arw~~~~Gd~~-~csEA~LKQVRslqgS~~~kD~~ 134 (191)
...+||..|-.|-+.+|-.. +-..++.++++.+-..+|-+.+.
T Consensus 23 ~~~~lY~~Y~~wc~~ng~~~~ls~~~F~~~L~~~~~~~~~~~~~ 66 (86)
T PF03288_consen 23 PSKDLYDAYKEWCEENGYKPPLSKRKFGKELKQYFPEGFEKKRT 66 (86)
T ss_dssp TTTBHHHHHHHHHHHTT-S----HHHHHHHHHHHHHH---EEEE
T ss_pred cHHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhhhhcEECCC
Confidence 34799999999999999999 99999999999987665655443
No 24
>KOG3276 consensus Uncharacterized conserved protein, contains YggU domain [Function unknown]
Probab=21.76 E-value=78 Score=26.15 Aligned_cols=42 Identities=26% Similarity=0.391 Sum_probs=32.5
Q ss_pred CcCCCccCCCCCcccccCCCccccccccchhhhHHHHHHHHHHH
Q 029586 42 NRTNNTCAKDLPVESVHVSSPEESIMGRSRENEHLMEFLGKILQ 85 (191)
Q Consensus 42 ~~t~~~~~~D~~~~~~~~~~~~~~~~g~~re~~qL~e~lGkiLq 85 (191)
+...|.|+.|+.-+.|+.....++.-|. -++.|+++|+++|-
T Consensus 43 pgaK~s~It~v~~e~V~V~IaApp~eGe--ANaeLl~ylskvLg 84 (125)
T KOG3276|consen 43 PGAKQSAITDVGDEAVGVAIAAPPREGE--ANAELLEYLSKVLG 84 (125)
T ss_pred CCccccceeeccccccceEEecCCccch--hhHHHHHHHHHHhh
Confidence 4567888888888888877777765554 46789999999884
No 25
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=21.41 E-value=1.9e+02 Score=18.61 Aligned_cols=38 Identities=21% Similarity=0.371 Sum_probs=27.8
Q ss_pred HHHHHHHh-ccCcchhhhHHHHHHHhhCChhhhhHHHHH
Q 029586 82 KILQQVVR-SESSADMWGLYARWLKNKGDLTMCSEALLK 119 (191)
Q Consensus 82 kiLqQiv~-S~~~adiWgL~Arw~~~~Gd~~~csEA~LK 119 (191)
+.++.++. .+.....|..+|..+...|+..-|-+.+-+
T Consensus 16 ~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~ 54 (73)
T PF13371_consen 16 EVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLER 54 (73)
T ss_pred HHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHH
Confidence 33444443 456789999999999999998877766544
No 26
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.20 E-value=1.6e+02 Score=26.01 Aligned_cols=32 Identities=44% Similarity=0.473 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHhcCCCchhhHHHHHHHHHHHHHHHHH
Q 029586 141 YASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQVKH 179 (191)
Q Consensus 141 ~ASl~lCr~y~e~~~s~Gs~reL~~A~MHLk~~lKqa~~ 179 (191)
-++|++++.|+|. .++..|+-||+.++.+..+
T Consensus 90 laaL~lAk~~ve~-------~~~d~A~aqL~~~l~~t~D 121 (207)
T COG2976 90 LAALELAKAEVEA-------NNLDKAEAQLKQALAQTKD 121 (207)
T ss_pred HHHHHHHHHHHhh-------ccHHHHHHHHHHHHccchh
Confidence 3789999999995 5689999999998876543
Done!