Query 031843
Match_columns 152
No_of_seqs 23 out of 25
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 06:07:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031843.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031843hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10902 FKBP-type peptidyl-pr 86.8 0.58 1.3E-05 39.4 2.8 28 123-150 136-163 (269)
2 KOG0552 FKBP-type peptidyl-pro 84.4 0.84 1.8E-05 38.4 2.6 23 127-149 114-136 (226)
3 PRK11570 peptidyl-prolyl cis-t 76.0 2.6 5.6E-05 34.0 2.8 25 125-149 94-118 (206)
4 COG0545 FkpA FKBP-type peptidy 72.0 3.6 7.7E-05 34.6 2.7 26 125-150 93-118 (205)
5 PF04722 Ssu72: Ssu72-like pro 58.5 7.3 0.00016 32.6 2.0 79 37-122 4-107 (195)
6 PF15518 L_protein_N: L protei 54.8 8.2 0.00018 32.3 1.8 49 98-146 45-99 (183)
7 PF10018 Med4: Vitamin-D-recep 54.0 17 0.00036 28.6 3.3 43 79-129 72-114 (188)
8 COG3019 Predicted metal-bindin 49.5 15 0.00033 29.9 2.5 53 58-129 1-62 (149)
9 PF01346 FKBP_N: Domain amino 39.4 20 0.00043 25.4 1.6 15 124-138 109-123 (124)
10 PF14249 Tocopherol_cycl: Toco 38.6 18 0.0004 31.9 1.5 36 106-141 91-128 (336)
11 PF10237 N6-adenineMlase: Prob 38.2 21 0.00046 28.1 1.7 58 67-130 31-98 (162)
12 cd03140 GATase1_PfpI_3 Type 1 37.1 35 0.00075 25.2 2.6 21 117-137 26-47 (170)
13 PF15599 Imm38: Immunity prote 36.9 63 0.0014 24.1 4.0 43 98-145 9-54 (124)
14 PF03033 Glyco_transf_28: Glyc 34.5 22 0.00048 24.4 1.1 31 113-143 22-54 (139)
15 KOG0177 20S proteasome, regula 34.2 29 0.00063 29.4 2.0 25 104-133 169-193 (200)
16 TIGR02102 pullulan_Gpos pullul 32.4 20 0.00044 36.2 0.9 61 59-119 787-856 (1111)
17 TIGR03516 ppisom_GldI peptidyl 32.1 43 0.00094 26.4 2.6 24 126-149 62-87 (177)
18 cd03134 GATase1_PfpI_like A ty 31.6 38 0.00082 24.4 2.0 27 114-140 23-53 (165)
19 COG1092 Predicted SAM-dependen 30.0 61 0.0013 29.1 3.4 46 90-135 249-308 (393)
20 TIGR01382 PfpI intracellular p 28.8 61 0.0013 23.3 2.7 23 114-136 23-46 (166)
21 COG5066 SCS2 VAMP-associated p 27.7 43 0.00093 29.2 2.0 29 102-136 25-54 (242)
22 PF13477 Glyco_trans_4_2: Glyc 27.6 43 0.00092 22.8 1.6 16 113-128 20-35 (139)
23 cd03132 GATase1_catalase Type 27.5 70 0.0015 22.6 2.8 22 115-136 26-48 (142)
24 PF08201 BssC_TutF: BssC/TutF 26.7 25 0.00053 24.8 0.3 11 138-148 18-28 (57)
25 COG0403 GcvP Glycine cleavage 25.8 47 0.001 31.1 2.0 31 86-119 55-85 (450)
26 KOG3350 Uncharacterized conser 25.3 48 0.001 28.5 1.8 58 74-132 83-149 (217)
27 PF07172 GRP: Glycine rich pro 24.7 20 0.00043 26.3 -0.5 15 95-109 29-43 (95)
28 PF13579 Glyco_trans_4_4: Glyc 23.9 65 0.0014 21.2 1.9 30 112-141 13-46 (160)
29 PLN00042 photosystem II oxygen 23.7 1.4E+02 0.0031 26.0 4.4 83 34-145 33-131 (260)
30 PF09266 VirDNA-topo-I_N: Vira 22.6 49 0.0011 23.3 1.2 19 118-137 38-56 (58)
31 PHA02057 ADP-ribosylation supe 21.3 32 0.00069 31.0 0.0 68 62-138 200-282 (319)
32 PF07879 PHB_acc_N: PHB/PHA ac 21.1 35 0.00075 24.3 0.2 17 108-124 23-39 (64)
33 PF03873 RseA_C: Anti sigma-E 21.1 39 0.00084 22.8 0.4 19 85-103 25-43 (53)
34 PRK08105 flavodoxin; Provision 20.7 75 0.0016 23.8 1.9 37 115-151 28-68 (149)
No 1
>PRK10902 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional
Probab=86.80 E-value=0.58 Score=39.40 Aligned_cols=28 Identities=21% Similarity=0.405 Sum_probs=24.3
Q ss_pred ecCCCceecCCceeeeeeccccCCCCCC
Q 031843 123 VTSENYTKRDSGLIYRDFEVGKGNFPLY 150 (152)
Q Consensus 123 v~~d~Yv~~dsGLIYkDf~~G~G~~Pk~ 150 (152)
-.-+|+++.+|||.|+-.+.|+|+.|++
T Consensus 136 ~k~~gv~~t~sGl~y~Vi~~G~G~~p~~ 163 (269)
T PRK10902 136 AKEKGVKTTSTGLLYKVEKEGTGEAPKD 163 (269)
T ss_pred ccCCCcEECCCccEEEEEeCCCCCCCCC
Confidence 3457888999999999999999999864
No 2
>KOG0552 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=84.40 E-value=0.84 Score=38.44 Aligned_cols=23 Identities=30% Similarity=0.450 Sum_probs=20.2
Q ss_pred CceecCCceeeeeeccccCCCCC
Q 031843 127 NYTKRDSGLIYRDFEVGKGNFPL 149 (152)
Q Consensus 127 ~Yv~~dsGLIYkDf~~G~G~~Pk 149 (152)
.+++-++||+|+|.++|.|..|+
T Consensus 114 ~~~tl~~Gl~y~D~~vG~G~~a~ 136 (226)
T KOG0552|consen 114 KSRTLPGGLRYEDLRVGSGPSAK 136 (226)
T ss_pred cceecCCCcEEEEEEecCCCCCC
Confidence 34778899999999999999886
No 3
>PRK11570 peptidyl-prolyl cis-trans isomerase; Provisional
Probab=76.03 E-value=2.6 Score=33.98 Aligned_cols=25 Identities=32% Similarity=0.611 Sum_probs=22.6
Q ss_pred CCCceecCCceeeeeeccccCCCCC
Q 031843 125 SENYTKRDSGLIYRDFEVGKGNFPL 149 (152)
Q Consensus 125 ~d~Yv~~dsGLIYkDf~~G~G~~Pk 149 (152)
-+|.++.++||.|+-.+.|+|+.|+
T Consensus 94 ~~gv~~t~sGl~y~vi~~G~G~~p~ 118 (206)
T PRK11570 94 KEGVNSTESGLQFRVLTQGEGAIPA 118 (206)
T ss_pred cCCcEECCCCcEEEEEeCCCCCCCC
Confidence 4678888999999999999999986
No 4
>COG0545 FkpA FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
Probab=72.00 E-value=3.6 Score=34.56 Aligned_cols=26 Identities=27% Similarity=0.441 Sum_probs=22.0
Q ss_pred CCCceecCCceeeeeeccccCCCCCC
Q 031843 125 SENYTKRDSGLIYRDFEVGKGNFPLY 150 (152)
Q Consensus 125 ~d~Yv~~dsGLIYkDf~~G~G~~Pk~ 150 (152)
.++-.+.++||.|+|.++|+|..|+.
T Consensus 93 ~~~v~~~~sgl~y~~~~~G~G~~~~~ 118 (205)
T COG0545 93 EKGVKTLPSGLQYKVLKAGDGAAPKK 118 (205)
T ss_pred cCCceECCCCcEEEEEeccCCCCCCC
Confidence 45566778999999999999999874
No 5
>PF04722 Ssu72: Ssu72-like protein; InterPro: IPR006811 The highly conserved and essential protein Ssu72 has intrinsic phosphatase activity and plays an essential role in the transcription cycle. Ssu72 was originally identified in a yeast genetic screen as enhancer of a defect caused by a mutation in the transcription initiation factor TFIIB []. It binds to TFIIB and is also involved in mRNA elongation. Ssu72 is further involved in both poly(A) dependent and independent termination. It is a subunit of the yeast cleavage and polyadenylation factor (CPF), which is part of the machinery for mRNA 3'-end formation. Ssu72 is also essential for transcription termination of snRNAs [].; GO: 0004721 phosphoprotein phosphatase activity, 0006397 mRNA processing, 0005634 nucleus; PDB: 3O2S_B 3O2Q_E 3FMV_H 3OMW_D 3P9Y_B 3FDF_A 3OMX_A.
Probab=58.53 E-value=7.3 Score=32.58 Aligned_cols=79 Identities=29% Similarity=0.513 Sum_probs=39.8
Q ss_pred ceeEeecCCCccccccchhhhhhhhhhhHhhhhcCcccccccccccc-----CCCchhHH------------------HH
Q 031843 37 HIVRCSSSHNLKDNGFHCKVKLKRRVVPFLLFSSGLFPTLSASGKTK-----SKNPYDEK------------------RL 93 (152)
Q Consensus 37 ~~~~c~~~~~~kd~~~~~~~~lrrr~~l~~l~ss~~~~~lss~~ktk-----s~~pydEk------------------rl 93 (152)
--++|++|++.. --+-.-|+++-+-.-.+.+|--+-|+.-.-.| =..||+|- ..
T Consensus 4 ~avVCasN~NRS---MEAH~~L~~~G~~V~SfGTGs~VkLPGps~d~PnvY~FgT~Y~~iy~dL~~kd~~lY~~NGlL~M 80 (195)
T PF04722_consen 4 FAVVCASNQNRS---MEAHNVLKKAGFNVRSFGTGSHVKLPGPSIDKPNVYDFGTPYDDIYNDLLRKDKELYTQNGLLHM 80 (195)
T ss_dssp EEEEESSSSSHH---HHHHHHHHHTT-EEEEEE-SSSEEEEESSTTCEEEE-TTS-HHHHHHHHHHHHHHHHHHTSHHHH
T ss_pred EEEEccCCCCcC---HHHHHHHHHCCCceEeecCCCcccCCCCCCCCCcccCCCCcHHHHHHHHHHhCHHHHHHcCcHHH
Confidence 458999999874 11223566655555555566444444322222 13788874 34
Q ss_pred HHHhHhhhhhcCCCCCcchhhhcc--ceeEE
Q 031843 94 LEQNKRMQKENSAPEGFPNFIREG--FEVKV 122 (152)
Q Consensus 94 L~~N~RIQ~~NnaP~DFP~FIREG--fdVKV 122 (152)
|+-|+||+. ||+-|-+- ++. |||-+
T Consensus 81 L~RN~~iK~---~PERfQ~~-~~~~~fDvIi 107 (195)
T PF04722_consen 81 LDRNRRIKP---APERFQDC-KEKGKFDVII 107 (195)
T ss_dssp HHHHHCH-S---S--BGGG--------SEEE
T ss_pred HhcCccccC---CccchhcC-CCCcceeEEE
Confidence 566666664 89999984 444 88854
No 6
>PF15518 L_protein_N: L protein N-terminus; PDB: 2XI5_D 2XI7_D.
Probab=54.77 E-value=8.2 Score=32.31 Aligned_cols=49 Identities=20% Similarity=0.384 Sum_probs=24.3
Q ss_pred HhhhhhcCCCCC------cchhhhccceeEEecCCCceecCCceeeeeeccccCC
Q 031843 98 KRMQKENSAPEG------FPNFIREGFEVKVVTSENYTKRDSGLIYRDFEVGKGN 146 (152)
Q Consensus 98 ~RIQ~~NnaP~D------FP~FIREGfdVKVv~~d~Yv~~dsGLIYkDf~~G~G~ 146 (152)
..|+--|++|-+ -|.+=---+++.-+|||||+.-+.-|+--||+|--|+
T Consensus 45 l~IEYRNDVp~~DIlLd~~P~~d~~~~~ipn~TPDNYi~~~~~L~IiDyKVSV~~ 99 (183)
T PF15518_consen 45 LNIEYRNDVPLDDILLDVLPGVDPMAYNIPNITPDNYIIDNGKLYIIDYKVSVDN 99 (183)
T ss_dssp HT----SS--HHHHHHHHSTTS-TTT--------SEEEEETTEEEEEEEEE-SSS
T ss_pred hCchhhcCCcHHHHHHHHcCCCCcceeecCCcCCCcEEEECCEEEEEEEEEeccC
Confidence 445666777632 3443335588899999999999999999999997654
No 7
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=54.02 E-value=17 Score=28.56 Aligned_cols=43 Identities=33% Similarity=0.440 Sum_probs=36.0
Q ss_pred cccccCCCchhHHHHHHHhHhhhhhcCCCCCcchhhhccceeEEecCCCce
Q 031843 79 SGKTKSKNPYDEKRLLEQNKRMQKENSAPEGFPNFIREGFEVKVVTSENYT 129 (152)
Q Consensus 79 ~~ktks~~pydEkrlL~~N~RIQ~~NnaP~DFP~FIREGfdVKVv~~d~Yv 129 (152)
......+++++=+.||..=+||-++|.+|+.||+-- ++|.||+
T Consensus 72 ~~~~~~~~~v~~~eLL~YA~rISk~t~~p~~~~~~~--------~~P~~~~ 114 (188)
T PF10018_consen 72 SIPKAEKRPVDYEELLSYAHRISKFTSAPPTFPSGS--------IAPNNWQ 114 (188)
T ss_pred cccccccCCCCHHHHHHHHHHHHHhcCCCCCCCCCC--------cCCcccc
Confidence 445566788889999999999999999999998764 6777777
No 8
>COG3019 Predicted metal-binding protein [General function prediction only]
Probab=49.54 E-value=15 Score=29.88 Aligned_cols=53 Identities=30% Similarity=0.433 Sum_probs=35.7
Q ss_pred hhhhhhhHhhhhcCccccccccccccCCCchh--------H-HHHHHHhHhhhhhcCCCCCcchhhhccceeEEecCCCc
Q 031843 58 LKRRVVPFLLFSSGLFPTLSASGKTKSKNPYD--------E-KRLLEQNKRMQKENSAPEGFPNFIREGFEVKVVTSENY 128 (152)
Q Consensus 58 lrrr~~l~~l~ss~~~~~lss~~ktks~~pyd--------E-krlL~~N~RIQ~~NnaP~DFP~FIREGfdVKVv~~d~Y 128 (152)
.||+..|+++++.+|..++++-+-+..+--|- | -+.|+ -.||+||++..|++
T Consensus 1 Mrr~~~l~~l~a~~l~~~~~~~a~~~~~~vyksPnCGCC~~w~~~mk-------------------~~Gf~Vk~~~~~d~ 61 (149)
T COG3019 1 MRRRAFLRSLAALGLGSTGPAQAQATEMVVYKSPNCGCCDEWAQHMK-------------------ANGFEVKVVETDDF 61 (149)
T ss_pred CchhHHHHHHHHHHhhcccchhcceeeEEEEeCCCCccHHHHHHHHH-------------------hCCcEEEEeecCcH
Confidence 37888899999888888888777655543321 1 11221 24999999998887
Q ss_pred e
Q 031843 129 T 129 (152)
Q Consensus 129 v 129 (152)
-
T Consensus 62 ~ 62 (149)
T COG3019 62 L 62 (149)
T ss_pred H
Confidence 4
No 9
>PF01346 FKBP_N: Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; InterPro: IPR000774 Peptidyl-prolyl cis-trans isomerase (PPIase) catalyses the cis-trans isomerisation of proline imidic peptide bonds in oligopeptides [, ]. This alpha helical domain is found at the N terminus of proteins belonging to the FKBP-type peptidyl-prolyl cis-trans isomerase(IPR001179 from INTERPRO) family. Peptidyl-prolyl cis-trans isomerase has been shown to accelerate the refolding of several proteins in vitro [, , ]; the FKPB-type enzymes probably act in the folding of extracytoplasmic proteins.; GO: 0006457 protein folding; PDB: 1FD9_A 2VCD_A 3OE2_A 2UZ5_A 3B09_A 1Q6H_B 1Q6I_B 1Q6U_A.
Probab=39.37 E-value=20 Score=25.37 Aligned_cols=15 Identities=33% Similarity=0.605 Sum_probs=10.9
Q ss_pred cCCCceecCCceeee
Q 031843 124 TSENYTKRDSGLIYR 138 (152)
Q Consensus 124 ~~d~Yv~~dsGLIYk 138 (152)
.-+|-++.+|||.|+
T Consensus 109 k~~GV~~t~SGLqY~ 123 (124)
T PF01346_consen 109 KKEGVKTTESGLQYK 123 (124)
T ss_dssp TSTTEEE-TTS-EEE
T ss_pred CCCCCEECCCCCeee
Confidence 358889999999997
No 10
>PF14249 Tocopherol_cycl: Tocopherol cyclase
Probab=38.64 E-value=18 Score=31.86 Aligned_cols=36 Identities=17% Similarity=0.381 Sum_probs=28.9
Q ss_pred CCCCcchhhhccceeEEecCCCceecC--Cceeeeeec
Q 031843 106 APEGFPNFIREGFEVKVVTSENYTKRD--SGLIYRDFE 141 (152)
Q Consensus 106 aP~DFP~FIREGfdVKVv~~d~Yv~~d--sGLIYkDf~ 141 (152)
.|..|=..|+|||+|.+.--.|++..+ ..-.-.||.
T Consensus 91 ~p~~f~~~v~~g~q~t~~~~qg~~~~~~~~~~~~w~y~ 128 (336)
T PF14249_consen 91 PPQEFERRVQEGYQVTATWNQGIIRDPGTGKTCRWDYS 128 (336)
T ss_pred ChHHhHhhhhccceeccccccCCccCCCCccEEEEEEE
Confidence 588899999999999999888888877 344455663
No 11
>PF10237 N6-adenineMlase: Probable N6-adenine methyltransferase; InterPro: IPR019369 This family of proteins, which are of approximately 200 residues in length, contain a highly conserved Glu-Phe-Trp (QFW) motif close to the N terminus and an Asp/Asn-Pro-Pro-Tyr/Phe motif in the centre. This latter motif is characteristic of N-6 adenine-specific DNA methylases and could be involved in substrate binding or in the catalytic activity (, ).
Probab=38.25 E-value=21 Score=28.11 Aligned_cols=58 Identities=24% Similarity=0.468 Sum_probs=39.1
Q ss_pred hhhcC-ccccccccccccCCCchhHHHHHHHhHhhhhhc---------CCCCCcchhhhccceeEEecCCCcee
Q 031843 67 LFSSG-LFPTLSASGKTKSKNPYDEKRLLEQNKRMQKEN---------SAPEGFPNFIREGFEVKVVTSENYTK 130 (152)
Q Consensus 67 l~ss~-~~~~lss~~ktks~~pydEkrlL~~N~RIQ~~N---------naP~DFP~FIREGfdVKVv~~d~Yv~ 130 (152)
.+|+| ++.++.. ...|=..-.|||.-+|-.... |+|.++|...+.-|||-|+.|+ |..
T Consensus 31 clstPsl~~~l~~-----~~~~~~~~~Lle~D~RF~~~~~~~F~fyD~~~p~~~~~~l~~~~d~vv~DPP-Fl~ 98 (162)
T PF10237_consen 31 CLSTPSLYEALKK-----ESKPRIQSFLLEYDRRFEQFGGDEFVFYDYNEPEELPEELKGKFDVVVIDPP-FLS 98 (162)
T ss_pred EEeCcHHHHHHHh-----hcCCCccEEEEeecchHHhcCCcceEECCCCChhhhhhhcCCCceEEEECCC-CCC
Confidence 45555 5555554 223333445677777777643 5799999999999999999877 543
No 12
>cd03140 GATase1_PfpI_3 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. PfpI is an ATP-independent intracellular proteases which may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow.
Probab=37.08 E-value=35 Score=25.20 Aligned_cols=21 Identities=33% Similarity=0.468 Sum_probs=17.4
Q ss_pred cceeEEecCCC-ceecCCceee
Q 031843 117 GFEVKVVTSEN-YTKRDSGLIY 137 (152)
Q Consensus 117 GfdVKVv~~d~-Yv~~dsGLIY 137 (152)
+|+|.+++.+| .++..+|+..
T Consensus 26 ~~~~~~~s~~~~~v~ss~g~~i 47 (170)
T cd03140 26 GFEVRTVSPTGEPVTSIGGLRV 47 (170)
T ss_pred CcEEEEEeCCCCeeEecCCeEE
Confidence 89999999887 5777888765
No 13
>PF15599 Imm38: Immunity protein 38
Probab=36.93 E-value=63 Score=24.13 Aligned_cols=43 Identities=21% Similarity=0.343 Sum_probs=26.7
Q ss_pred HhhhhhcCCCCCcchhhhccceeEEecCCCce---ecCCceeeeeeccccC
Q 031843 98 KRMQKENSAPEGFPNFIREGFEVKVVTSENYT---KRDSGLIYRDFEVGKG 145 (152)
Q Consensus 98 ~RIQ~~NnaP~DFP~FIREGfdVKVv~~d~Yv---~~dsGLIYkDf~~G~G 145 (152)
+-.++.++-+.+||.|++.|+ .+||.- ..++|-.|-.+|-|.+
T Consensus 9 ~l~~k~g~~~~~~~~~~~~~~-----~~dg~~~i~~~~~~Y~~~~~ERG~~ 54 (124)
T PF15599_consen 9 ELARKIGAPDNEYPLFFRDDP-----FGDGSPYIEIDNDGYHYVFYERGKE 54 (124)
T ss_pred HHHHHhCCCcccccccccCCC-----CCCCceEEEEeCCEEEEEEEecCce
Confidence 455677888899999999965 233322 3344445555555544
No 14
>PF03033 Glyco_transf_28: Glycosyltransferase family 28 N-terminal domain; InterPro: IPR004276 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 28 GT28 from CAZY comprises enzymes with a number of known activities; 1,2-diacylglycerol 3-beta-galactosyltransferase (2.4.1.46 from EC); 1,2-diacylglycerol 3-beta-glucosyltransferase (2.4.1.157 from EC); beta-N-acetylglucosamine transferase (2.4.1 from EC).; GO: 0016758 transferase activity, transferring hexosyl groups, 0005975 carbohydrate metabolic process, 0030259 lipid glycosylation; PDB: 2IYF_B 2YJN_A 2P6P_A 1PNV_A 3H4T_A 3H4I_A 1PN3_B 3IA7_B 1NLM_B 1F0K_B ....
Probab=34.46 E-value=22 Score=24.39 Aligned_cols=31 Identities=23% Similarity=0.456 Sum_probs=23.1
Q ss_pred hhhccceeEEecCCCcee--cCCceeeeeeccc
Q 031843 113 FIREGFEVKVVTSENYTK--RDSGLIYRDFEVG 143 (152)
Q Consensus 113 FIREGfdVKVv~~d~Yv~--~dsGLIYkDf~~G 143 (152)
+.+.|+||.+.++++|.. ...|+-+..+...
T Consensus 22 L~~rGh~V~~~~~~~~~~~v~~~Gl~~~~~~~~ 54 (139)
T PF03033_consen 22 LRRRGHEVRLATPPDFRERVEAAGLEFVPIPGD 54 (139)
T ss_dssp HHHTT-EEEEEETGGGHHHHHHTT-EEEESSSC
T ss_pred HhccCCeEEEeecccceecccccCceEEEecCC
Confidence 578999999999998864 6788888776544
No 15
>KOG0177 consensus 20S proteasome, regulatory subunit beta type PSMB2/PRE1 [Posttranslational modification, protein turnover, chaperones]
Probab=34.21 E-value=29 Score=29.42 Aligned_cols=25 Identities=32% Similarity=0.499 Sum_probs=19.4
Q ss_pred cCCCCCcchhhhccceeEEecCCCceecCC
Q 031843 104 NSAPEGFPNFIREGFEVKVVTSENYTKRDS 133 (152)
Q Consensus 104 NnaP~DFP~FIREGfdVKVv~~d~Yv~~ds 133 (152)
-+-|-++| ||.||||..||+.+.++
T Consensus 169 kRlvin~~-----~f~v~IVdkdGir~~~~ 193 (200)
T KOG0177|consen 169 KRLVINLP-----GFIVKIVDKDGIRKLDD 193 (200)
T ss_pred HhcccCCC-----CcEEEEEcCCCceeccc
Confidence 35677887 56799999999987654
No 16
>TIGR02102 pullulan_Gpos pullulanase, extracellular, Gram-positive. Pullulan is an unusual, industrially important polysaccharide in which short alpha-1,4 chains (maltotriose) are connected in alpha-1,6 linkages. Enzymes that cleave alpha-1,6 linkages in pullulan and release maltotriose are called pullulanases although pullulan itself may not be the natural substrate. In contrast, a glycogen debranching enzyme such GlgX, homologous to this family, can release glucose at alpha,1-6 linkages from glycogen first subjected to limit degradation by phosphorylase. Characterized members of this family include a surface-located pullulanase from Streptococcus pneumoniae (PubMed:11083842) and an extracellular bifunctional amylase/pullulanase with C-terminal pullulanase activity (PubMed:8798645).
Probab=32.36 E-value=20 Score=36.17 Aligned_cols=61 Identities=20% Similarity=0.436 Sum_probs=41.9
Q ss_pred hhhhhhHhhhhcC---ccccccccccccCCC------chhHHHHHHHhHhhhhhcCCCCCcchhhhccce
Q 031843 59 KRRVVPFLLFSSG---LFPTLSASGKTKSKN------PYDEKRLLEQNKRMQKENSAPEGFPNFIREGFE 119 (152)
Q Consensus 59 rrr~~l~~l~ss~---~~~~lss~~ktks~~------pydEkrlL~~N~RIQ~~NnaP~DFP~FIREGfd 119 (152)
|.|++.++++.|. ++-+=.-++.||+.| |..|-+++..-..+-..++.|-+||.||+-=|+
T Consensus 787 r~rla~~llllSQGiPfi~aGqEf~RTK~gnnn~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nSY~ 856 (1111)
T TIGR02102 787 RIRLGNLMVLTSQGTAFIHSGQEYGRTKQFRNPDYRTPVSEDKVPNKSTLMTDVDGNPFRYPYFIHDSYD 856 (1111)
T ss_pred HHHHHHHHHHHhCcHhhhhcchhhhcccCCCccccccccccccccccccccccccccccccccccccccc
Confidence 3344444444332 666667789999986 444555665556677788999999999998775
No 17
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=32.14 E-value=43 Score=26.42 Aligned_cols=24 Identities=25% Similarity=0.455 Sum_probs=18.9
Q ss_pred CCceecCCceeeeeecc--ccCCCCC
Q 031843 126 ENYTKRDSGLIYRDFEV--GKGNFPL 149 (152)
Q Consensus 126 d~Yv~~dsGLIYkDf~~--G~G~~Pk 149 (152)
-+|.+.++||-|+..++ |+|..|+
T Consensus 62 ~~~~~t~sGl~Y~v~~~~~g~g~~p~ 87 (177)
T TIGR03516 62 VKYETSQNGFWYYYNQKDTGEGTTPE 87 (177)
T ss_pred CCceECCCccEEEEEEecCCCCCcCC
Confidence 56899999999998877 6666665
No 18
>cd03134 GATase1_PfpI_like A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. This group includes proteins similar to PfpI from P. furiosus. and PH1704 from Pyrococcus horikoshii. These enzymes are ATP-independent intracellular proteases and may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. For PH1704, it is believed that this Cys together with a different His in one monomer and Glu (from an adjacent monomer) forms a different catalytic triad from the typical GATase1domain. PfpI is homooligomeric. Protease activity is only found for oligomeric forms of PH1704.
Probab=31.62 E-value=38 Score=24.35 Aligned_cols=27 Identities=26% Similarity=0.303 Sum_probs=19.6
Q ss_pred hhccceeEEecCC--CceecCCce--eeeee
Q 031843 114 IREGFEVKVVTSE--NYTKRDSGL--IYRDF 140 (152)
Q Consensus 114 IREGfdVKVv~~d--~Yv~~dsGL--IYkDf 140 (152)
-+.||+|++++++ +.++...|+ |.-|.
T Consensus 23 ~~a~~~v~~vs~~~~~~v~~~~g~~~i~~d~ 53 (165)
T cd03134 23 REAGAEVVVAGPEAGGEIQGKHGYDTVTVDL 53 (165)
T ss_pred HHCCCEEEEEccCCCcccccCcCceeecCCC
Confidence 3568999999988 467777776 44443
No 19
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=30.02 E-value=61 Score=29.13 Aligned_cols=46 Identities=17% Similarity=0.260 Sum_probs=37.9
Q ss_pred HHHHHHHhHhhhhhcCCCCCc------------chhhhcc--ceeEEecCCCceecCCce
Q 031843 90 EKRLLEQNKRMQKENSAPEGF------------PNFIREG--FEVKVVTSENYTKRDSGL 135 (152)
Q Consensus 90 EkrlL~~N~RIQ~~NnaP~DF------------P~FIREG--fdVKVv~~d~Yv~~dsGL 135 (152)
-+++|+-=++-++-|+.+.+- ..+.|+| |||-|+.|+.|....+++
T Consensus 249 S~~al~~a~~N~~LNg~~~~~~~~i~~Dvf~~l~~~~~~g~~fDlIilDPPsF~r~k~~~ 308 (393)
T COG1092 249 SKRALEWARENAELNGLDGDRHRFIVGDVFKWLRKAERRGEKFDLIILDPPSFARSKKQE 308 (393)
T ss_pred cHHHHHHHHHHHHhcCCCccceeeehhhHHHHHHHHHhcCCcccEEEECCcccccCcccc
Confidence 377888888888999987664 4455665 999999999999999988
No 20
>TIGR01382 PfpI intracellular protease, PfpI family. The member of this family from Pyrococcus horikoshii has been solved to 2 Angstrom resolution. It is an ATP-independent intracellular protease that crystallizes as a hexameric ring. Cys-101 is proposed as the active site residue in a catalytic triad with the adjacent His-102 and a Glu residue from an adjacent monomer. A member of this family from Bacillus subtilis, GSP18, has been shown to be expressed in response to several forms of stress. A role in the degradation of small peptides has been suggested. A closely related family consists of the thiamine biosynthesis protein ThiJ and its homologs.
Probab=28.76 E-value=61 Score=23.31 Aligned_cols=23 Identities=30% Similarity=0.339 Sum_probs=17.6
Q ss_pred hhccceeEEecCCC-ceecCCcee
Q 031843 114 IREGFEVKVVTSEN-YTKRDSGLI 136 (152)
Q Consensus 114 IREGfdVKVv~~d~-Yv~~dsGLI 136 (152)
.+.||+|.++++++ .++...|+.
T Consensus 23 ~~ag~~v~~vs~~~~~v~~~~g~~ 46 (166)
T TIGR01382 23 REAGHEVDTVSKEAGTTVGKHGYS 46 (166)
T ss_pred HHCCCEEEEEecCCCceeccCCce
Confidence 35689999998764 677788863
No 21
>COG5066 SCS2 VAMP-associated protein involved in inositol metabolism [Intracellular trafficking and secretion]
Probab=27.74 E-value=43 Score=29.18 Aligned_cols=29 Identities=41% Similarity=0.740 Sum_probs=23.6
Q ss_pred hhcCCCCCcchhhhccceeEEecCCCceecCC-cee
Q 031843 102 KENSAPEGFPNFIREGFEVKVVTSENYTKRDS-GLI 136 (152)
Q Consensus 102 ~~NnaP~DFP~FIREGfdVKVv~~d~Yv~~ds-GLI 136 (152)
-+||+|+- =||.||--+|-.|.+|++ |+|
T Consensus 25 v~Nnspep------vgfKVKTTaPK~YcVRPN~g~I 54 (242)
T COG5066 25 VQNNSPEP------VGFKVKTTAPKDYCVRPNMGLI 54 (242)
T ss_pred eecCCCCc------eeEEeeccCCcceeEcCCCcee
Confidence 36888875 499999999999999986 454
No 22
>PF13477 Glyco_trans_4_2: Glycosyl transferase 4-like
Probab=27.57 E-value=43 Score=22.79 Aligned_cols=16 Identities=25% Similarity=0.665 Sum_probs=12.2
Q ss_pred hhhccceeEEecCCCc
Q 031843 113 FIREGFEVKVVTSENY 128 (152)
Q Consensus 113 FIREGfdVKVv~~d~Y 128 (152)
+..+||||.|++.++-
T Consensus 20 L~~~g~~V~ii~~~~~ 35 (139)
T PF13477_consen 20 LKKRGYDVHIITPRND 35 (139)
T ss_pred HHHCCCEEEEEEcCCC
Confidence 4455999999998554
No 23
>cd03132 GATase1_catalase Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases. Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases. Catalase catalyzes the dismutation of hydrogen peroxide (H2O2) to water and oxygen. This group includes the large catalases: Neurospora crassa Catalase-1 and Catalase-3 and, Escherichia coli HP-II. This GATase1-like domain has an essential role in HP-II catalase activity. However, it lacks enzymatic activity and the catalytic triad typical of GATase1 domains. Catalase-1 and -3 are homotetrameric, HP-II is homohexameric. It has been proposed that this domain may facilitate the folding and oligomerization process. The interface between this GATase1-like domain of HP-II and the core of the subunit forms part of a channel which provides access to the deeply buried catalase active sites of HPII. Catalase-1 is associated with non-growing cells; C
Probab=27.52 E-value=70 Score=22.63 Aligned_cols=22 Identities=27% Similarity=0.226 Sum_probs=16.5
Q ss_pred hccceeEEecCCC-ceecCCcee
Q 031843 115 REGFEVKVVTSEN-YTKRDSGLI 136 (152)
Q Consensus 115 REGfdVKVv~~d~-Yv~~dsGLI 136 (152)
+.||+|.++++++ .++.+.|+.
T Consensus 26 ~a~~~v~vvs~~~~~v~s~~g~~ 48 (142)
T cd03132 26 AAGANVKVVAPTLGGVVDSDGKT 48 (142)
T ss_pred HCCCEEEEEecCcCceecCCCcE
Confidence 3469999999875 577777764
No 24
>PF08201 BssC_TutF: BssC/TutF protein; InterPro: IPR013161 BssC short protein (57 amino acids) has been described as the gamma-subunit of benzylsuccinate synthase from Thauera aromatica strain K172 []. TutF has been identified and described as highly similar to BssC in T. aromatica strain T1 [].
Probab=26.70 E-value=25 Score=24.83 Aligned_cols=11 Identities=55% Similarity=0.884 Sum_probs=9.2
Q ss_pred eeeccccCCCC
Q 031843 138 RDFEVGKGNFP 148 (152)
Q Consensus 138 kDf~~G~G~~P 148 (152)
-|||.|.|||=
T Consensus 18 dD~e~gKGDCV 28 (57)
T PF08201_consen 18 DDFEPGKGDCV 28 (57)
T ss_pred ccccCCCCCee
Confidence 38999999983
No 25
>COG0403 GcvP Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]
Probab=25.79 E-value=47 Score=31.08 Aligned_cols=31 Identities=29% Similarity=0.507 Sum_probs=28.1
Q ss_pred CchhHHHHHHHhHhhhhhcCCCCCcchhhhccce
Q 031843 86 NPYDEKRLLEQNKRMQKENSAPEGFPNFIREGFE 119 (152)
Q Consensus 86 ~pydEkrlL~~N~RIQ~~NnaP~DFP~FIREGfd 119 (152)
.|..|..+|..=++|-..|. ++++||-.||=
T Consensus 55 ~~~sE~e~l~~l~~ia~kN~---~~~sfiG~GyY 85 (450)
T COG0403 55 KPLSEYEALAELKEIASKNK---VFTSFIGAGYY 85 (450)
T ss_pred CCCCHHHHHHHHHHHHhcCc---hhhhhccCccc
Confidence 46689999999999999999 99999999974
No 26
>KOG3350 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.29 E-value=48 Score=28.45 Aligned_cols=58 Identities=22% Similarity=0.431 Sum_probs=38.7
Q ss_pred ccccccccccC-CCchhHHHHHHHhHhhhhh--------cCCCCCcchhhhccceeEEecCCCceecC
Q 031843 74 PTLSASGKTKS-KNPYDEKRLLEQNKRMQKE--------NSAPEGFPNFIREGFEVKVVTSENYTKRD 132 (152)
Q Consensus 74 ~~lss~~ktks-~~pydEkrlL~~N~RIQ~~--------NnaP~DFP~FIREGfdVKVv~~d~Yv~~d 132 (152)
|++-.|-|+.. .-|-+.-.++|-.+|-..+ =|-|.|+|.-|.+-||+.|..|+ |.-.+
T Consensus 83 Psly~y~k~re~~~~~~~v~lfEfDkRFe~yg~eFvfYDyN~p~dlp~~lk~~fdiivaDPP-fL~~e 149 (217)
T KOG3350|consen 83 PSLYVYQKKREIEIPHDQVYLFEFDKRFELYGTEFVFYDYNCPLDLPDELKAHFDIIVADPP-FLSEE 149 (217)
T ss_pred chHHhhhhhhhccCCceeEEEEEehhhHHhccceeEEeccCCCCCCHHHHHhcccEEEeCCc-cccch
Confidence 33335555544 2344444456677776654 36799999999999999998766 75443
No 27
>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=24.73 E-value=20 Score=26.33 Aligned_cols=15 Identities=20% Similarity=0.466 Sum_probs=9.7
Q ss_pred HHhHhhhhhcCCCCC
Q 031843 95 EQNKRMQKENSAPEG 109 (152)
Q Consensus 95 ~~N~RIQ~~NnaP~D 109 (152)
+++.+.++.|.+.++
T Consensus 29 ~~~~~~~~~~~v~~~ 43 (95)
T PF07172_consen 29 EETEKEEEENEVQDD 43 (95)
T ss_pred hhccccccCCCCCcc
Confidence 566667777766554
No 28
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=23.95 E-value=65 Score=21.16 Aligned_cols=30 Identities=27% Similarity=0.389 Sum_probs=16.8
Q ss_pred hhhhccceeEEecCCCceecC----Cceeeeeec
Q 031843 112 NFIREGFEVKVVTSENYTKRD----SGLIYRDFE 141 (152)
Q Consensus 112 ~FIREGfdVKVv~~d~Yv~~d----sGLIYkDf~ 141 (152)
.+.+.|++|.|+++......+ .|+-+..+.
T Consensus 13 ~L~~~G~~V~v~~~~~~~~~~~~~~~~~~~~~~~ 46 (160)
T PF13579_consen 13 ALAARGHEVTVVTPQPDPEDDEEEEDGVRVHRLP 46 (160)
T ss_dssp HHHHTT-EEEEEEE---GGG-SEEETTEEEEEE-
T ss_pred HHHHCCCEEEEEecCCCCcccccccCCceEEecc
Confidence 467889999999976554443 555555444
No 29
>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional
Probab=23.73 E-value=1.4e+02 Score=26.00 Aligned_cols=83 Identities=22% Similarity=0.339 Sum_probs=46.0
Q ss_pred cccceeEeecCCCccccccchhhhhhhhhhhHhhhhc-----Cccccccccccc-----cCCCchhHHHHHHHhHhhhhh
Q 031843 34 QKKHIVRCSSSHNLKDNGFHCKVKLKRRVVPFLLFSS-----GLFPTLSASGKT-----KSKNPYDEKRLLEQNKRMQKE 103 (152)
Q Consensus 34 ~~k~~~~c~~~~~~kd~~~~~~~~lrrr~~l~~l~ss-----~~~~~lss~~kt-----ks~~pydEkrlL~~N~RIQ~~ 103 (152)
.+...+.|..- +.+ +..+.||.+|.+++.+ -+.|+-.+||-. |-++
T Consensus 33 ~~~~~~~~~~~-~~~------~~~~srr~~l~~~~ga~a~~~~~~pa~aay~~~anvfg~~k~----------------- 88 (260)
T PLN00042 33 SRPSQVVCRAQ-EED------NSAVSRRAALALLAGAAAAGAKVSPANAAYGESANVFGKPKT----------------- 88 (260)
T ss_pred CCCcceeeecc-ccc------cccccHHHHHHHHHHHHHhhcccCchhhhhcchhhccCCCCC-----------------
Confidence 34455666552 223 3457788777777655 277887787643 1111
Q ss_pred cCCCCCcchhhhccceeEEecCCCceec------CCceeeeeeccccC
Q 031843 104 NSAPEGFPNFIREGFEVKVVTSENYTKR------DSGLIYRDFEVGKG 145 (152)
Q Consensus 104 NnaP~DFP~FIREGfdVKVv~~d~Yv~~------dsGLIYkDf~~G~G 145 (152)
+.+|=.|-..||...+ |.||+-. .--+.|+|--.++.
T Consensus 89 ---~~gF~~y~~dgY~Fly--P~~W~~~ke~~~~G~dv~f~D~~~~~e 131 (260)
T PLN00042 89 ---NTGFLPYNGDGFKLLV--PSKWNPSKEREFPGQVLRFEDNFDATS 131 (260)
T ss_pred ---CCCCeEeeCCCeEEec--CCCCccccccccCCceEEeeccccccc
Confidence 2455555567776654 5666511 11367777655544
No 30
>PF09266 VirDNA-topo-I_N: Viral DNA topoisomerase I, N-terminal; InterPro: IPR015346 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents a domain foundpredominantly found in viral DNA topoisomerase I, a type IB enzyme. This domain assumes a beta(2)-alpha-beta-alpha-beta(2) fold, with a left-handed crossover between strands beta2 and beta3 []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change; PDB: 3IGC_A 2H7G_X 2H7F_X 1VCC_A.
Probab=22.58 E-value=49 Score=23.29 Aligned_cols=19 Identities=32% Similarity=0.546 Sum_probs=16.0
Q ss_pred ceeEEecCCCceecCCceee
Q 031843 118 FEVKVVTSENYTKRDSGLIY 137 (152)
Q Consensus 118 fdVKVv~~d~Yv~~dsGLIY 137 (152)
-||.|+. -+|-.+++||||
T Consensus 38 tdV~vye-qt~Eea~~gLIf 56 (58)
T PF09266_consen 38 TDVIVYE-QTYEEALNGLIF 56 (58)
T ss_dssp EEEEEES-S-HHHHTTSEEE
T ss_pred ceEEEee-eeHHHhhcccee
Confidence 4899996 679999999998
No 31
>PHA02057 ADP-ribosylation superfamily-like protein
Probab=21.30 E-value=32 Score=30.98 Aligned_cols=68 Identities=21% Similarity=0.181 Sum_probs=42.4
Q ss_pred hhhHhhhhcCccccccccccccCCCchhHHHHHHHhHhhhhhcCCCCCcchhhhc------cceeEEecCCCceec----
Q 031843 62 VVPFLLFSSGLFPTLSASGKTKSKNPYDEKRLLEQNKRMQKENSAPEGFPNFIRE------GFEVKVVTSENYTKR---- 131 (152)
Q Consensus 62 ~~l~~l~ss~~~~~lss~~ktks~~pydEkrlL~~N~RIQ~~NnaP~DFP~FIRE------GfdVKVv~~d~Yv~~---- 131 (152)
+.+.=+||+.+.|-+=+||++ |.|-|.-|+-.|-.-..|. ||.|.-. |.+||||-| |.+.-
T Consensus 200 FyFkNFVSTSl~PiIFg~Gi~-------e~r~l~~d~~~egv~~~~~-~~~~~V~IGmvIdg~kVkvI~P-G~LS~~p~E 270 (319)
T PHA02057 200 ILFKNFVSTSIAPIMYNHGIV-------ECRNLHINKPTQVVRYNGD-FPNRQIKINMHIDCSGIKHIVP-AKITGYPEE 270 (319)
T ss_pred EEEEeeeeccccceeeccccc-------ccccccccccccceeecCc-ccceeEEEeEEEecccccEEee-cCCCCCCcc
Confidence 333446788888988778886 4445544444443333333 7776655 899999975 55443
Q ss_pred -----CCceeee
Q 031843 132 -----DSGLIYR 138 (152)
Q Consensus 132 -----dsGLIYk 138 (152)
+-|++.+
T Consensus 271 ~EVILPRGtllK 282 (319)
T PHA02057 271 CEIILDRNTVIV 282 (319)
T ss_pred ceEEecCCcEEE
Confidence 5666654
No 32
>PF07879 PHB_acc_N: PHB/PHA accumulation regulator DNA-binding domain; InterPro: IPR012909 This domain is found at the N terminus of the polyhydroxyalkanoate (PHA) synthesis regulators. These regulators have been shown to directly bind DNA and PHA []. The invariant nature of this domain compared to the C-terminal IPR007897 from INTERPRO domain(s) suggests that it contains the DNA-binding function.
Probab=21.13 E-value=35 Score=24.34 Aligned_cols=17 Identities=41% Similarity=0.679 Sum_probs=14.0
Q ss_pred CCcchhhhccceeEEec
Q 031843 108 EGFPNFIREGFEVKVVT 124 (152)
Q Consensus 108 ~DFP~FIREGfdVKVv~ 124 (152)
+|--.+||+|.+|+|+.
T Consensus 23 ~di~~lV~~g~~~~V~D 39 (64)
T PF07879_consen 23 EDIAQLVREGEDFKVVD 39 (64)
T ss_pred HHHHHHHHCCCeEEEEE
Confidence 34567899999999995
No 33
>PF03873 RseA_C: Anti sigma-E protein RseA, C-terminal domain; InterPro: IPR005573 Sigma-E is important for the induction of proteins involved in heat shock response. RseA binds sigma-E via its N-terminal domain, sequestering sigma-E and preventing transcription from heat-shock promoters []. The C-terminal domain is located in the periplasm, and may interact with other protein that signal periplasmic stress.; PDB: 3M4W_E.
Probab=21.13 E-value=39 Score=22.83 Aligned_cols=19 Identities=26% Similarity=0.452 Sum_probs=5.4
Q ss_pred CCchhHHHHHHHhHhhhhh
Q 031843 85 KNPYDEKRLLEQNKRMQKE 103 (152)
Q Consensus 85 ~~pydEkrlL~~N~RIQ~~ 103 (152)
.+...+.++.++|+||..+
T Consensus 25 ~~~~~~~q~~eq~rRina~ 43 (53)
T PF03873_consen 25 KNSVTQEQVQEQRRRINAM 43 (53)
T ss_dssp ------------TTTHHHH
T ss_pred CCCccHHHHHHHHHHHHHH
Confidence 4555677899999999653
No 34
>PRK08105 flavodoxin; Provisional
Probab=20.69 E-value=75 Score=23.81 Aligned_cols=37 Identities=19% Similarity=0.323 Sum_probs=22.3
Q ss_pred hccceeEEecCCCceec----CCceeeeeeccccCCCCCCC
Q 031843 115 REGFEVKVVTSENYTKR----DSGLIYRDFEVGKGNFPLYW 151 (152)
Q Consensus 115 REGfdVKVv~~d~Yv~~----dsGLIYkDf~~G~G~~Pk~w 151 (152)
+.|++|+|+..+.+..- .+-+|.==.--|.|+.|.+|
T Consensus 28 ~~g~~~~~~~~~~~~~~~~~~~~~vi~~~sT~G~Ge~p~~~ 68 (149)
T PRK08105 28 AQGHEVTLFEDPELSDWQPYQDELVLVVTSTTGQGDLPDSI 68 (149)
T ss_pred hCCCceEEechhhCCchhcccCCeEEEEECCCCCCCCChhH
Confidence 56788888765544211 13344433445999999876
Done!