Query 048445
Match_columns 138
No_of_seqs 57 out of 59
Neff 2.4
Searched_HMMs 46136
Date Fri Mar 29 09:36:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048445.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048445hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13668 hypothetical protein; 78.9 1.8 3.8E-05 37.0 2.7 47 57-106 7-54 (267)
2 PF03816 LytR_cpsA_psr: Cell e 64.1 5.1 0.00011 29.8 1.9 20 81-100 6-25 (149)
3 TIGR00350 lytR_cpsA_psr cell e 54.5 9.5 0.00021 28.8 2.0 22 80-101 6-27 (152)
4 PF07927 YcfA: YcfA-like prote 53.9 20 0.00044 22.1 3.1 16 57-72 1-16 (56)
5 KOG0675 Calnexin [Posttranslat 50.2 15 0.00033 34.7 2.9 26 98-123 197-225 (558)
6 smart00391 MBD Methyl-CpG bind 49.8 29 0.00064 24.1 3.7 28 41-68 27-54 (77)
7 cd06410 PB1_UP2 Uncharacterize 49.3 48 0.001 24.0 4.9 48 43-100 24-72 (97)
8 cd00122 MBD MeCP2, MBD1, MBD2, 42.3 53 0.0011 21.4 3.8 28 41-68 24-51 (62)
9 PF07285 DUF1444: Protein of u 40.9 20 0.00043 29.7 2.0 46 58-106 8-54 (265)
10 PF07723 LRR_2: Leucine Rich R 39.9 15 0.00033 20.8 0.8 19 103-121 1-19 (26)
11 cd01396 MeCP2_MBD MeCP2, MBD1, 38.8 62 0.0014 22.5 3.9 28 41-68 25-52 (77)
12 PF11629 Mst1_SARAH: C termina 38.4 23 0.00049 23.9 1.6 14 55-68 8-21 (49)
13 COG4004 Uncharacterized protei 35.7 26 0.00057 26.5 1.8 16 55-70 12-27 (96)
14 PF15590 Imm15: Immunity prote 35.6 20 0.00043 25.7 1.0 9 67-75 23-31 (69)
15 PF02589 DUF162: Uncharacteris 34.7 74 0.0016 23.7 4.1 46 9-66 98-143 (189)
16 TIGR01436 glu_cys_lig_pln glut 34.5 53 0.0011 29.6 3.7 50 41-97 28-83 (446)
17 PRK09379 membrane-bound transc 32.9 29 0.00063 29.3 1.8 24 78-101 79-102 (303)
18 PF13382 Adenine_deam_C: Adeni 32.7 17 0.00037 28.8 0.4 22 49-70 116-137 (171)
19 PLN02367 lactoylglutathione ly 29.6 1.8E+02 0.0039 24.3 5.9 61 4-71 134-194 (233)
20 PF07404 TEBP_beta: Telomere-b 28.5 4.9 0.00011 35.6 -3.6 22 47-68 98-119 (379)
21 cd06587 Glo_EDI_BRP_like This 26.3 1.5E+02 0.0033 17.7 5.8 63 55-117 7-72 (112)
22 TIGR00354 polC DNA polymerase, 25.4 76 0.0017 32.4 3.4 58 3-88 704-763 (1095)
23 KOG3606 Cell polarity protein 25.2 36 0.00078 30.6 1.1 27 90-116 132-158 (358)
24 PF00472 RF-1: RF-1 domain; I 25.0 50 0.0011 24.0 1.7 14 43-56 36-49 (113)
25 PRK05298 excinuclease ABC subu 24.9 1.2E+02 0.0026 28.1 4.4 82 42-129 155-245 (652)
26 cd01518 RHOD_YceA Member of th 24.8 86 0.0019 20.8 2.7 30 41-73 61-90 (101)
27 PRK11783 rlmL 23S rRNA m(2)G24 24.4 49 0.0011 30.8 1.8 33 42-75 55-87 (702)
28 PF12690 BsuPI: Intracellular 23.5 48 0.001 23.0 1.3 20 103-122 19-38 (82)
29 cd07245 Glo_EDI_BRP_like_9 Thi 23.3 1.9E+02 0.0041 17.7 6.7 52 3-70 36-88 (114)
30 cd01395 HMT_MBD Methyl-CpG bin 23.0 1E+02 0.0022 21.0 2.8 28 40-67 22-49 (60)
31 smart00850 LytTR LytTr DNA-bin 22.8 1.2E+02 0.0026 19.5 3.0 36 42-88 19-54 (96)
32 TIGR02254 YjjG/YfnB HAD superf 22.5 50 0.0011 24.2 1.2 28 44-74 113-140 (224)
33 PF14067 LssY_C: LssY C-termin 22.2 63 0.0014 25.6 1.9 20 53-72 30-49 (192)
34 TIGR02981 phageshock_pspE phag 22.2 1.3E+02 0.0029 21.1 3.4 31 41-74 58-88 (101)
35 PRK04023 DNA polymerase II lar 21.9 97 0.0021 31.8 3.4 59 2-88 728-788 (1121)
36 KOG3368 Transport protein part 21.8 47 0.001 26.6 1.1 16 3-18 5-20 (140)
37 smart00359 PUA Putative RNA-bi 21.6 1.2E+02 0.0026 19.1 2.7 15 2-17 15-29 (77)
38 PRK13958 N-(5'-phosphoribosyl) 21.2 1.5E+02 0.0033 23.4 3.8 32 41-88 53-84 (207)
39 TIGR01457 HAD-SF-IIA-hyp2 HAD- 21.0 49 0.0011 26.2 1.0 29 44-72 34-62 (249)
40 PF00697 PRAI: N-(5'phosphorib 20.2 92 0.002 24.1 2.4 53 42-110 50-102 (197)
41 cd02070 corrinoid_protein_B12- 20.2 83 0.0018 24.3 2.1 34 41-74 82-117 (201)
No 1
>PRK13668 hypothetical protein; Provisional
Probab=78.87 E-value=1.8 Score=36.99 Aligned_cols=47 Identities=23% Similarity=0.470 Sum_probs=35.8
Q ss_pred HHHHHHHHHhhcceeecCCCCCCcceeeeeecCCceee-eeccccccccce
Q 048445 57 YAELEQRLTELGWSRYHDNSSSSNRLLQFHKSEDSAHL-ISLPTNFANFRS 106 (138)
Q Consensus 57 Y~~LE~rL~~LGWeRYy~d~~~~~~l~QFHkrd~svdL-ISLPrDF~kfks 106 (138)
-+.||+||...||...|+.. .+.|++-+++..--+ |+||.-++++..
T Consensus 7 ~~~l~~rL~~~~~~~~~~r~---~d~Lri~~~~~~kgvti~L~~~~aky~~ 54 (267)
T PRK13668 7 RDKLKKRLSHPDWDFSFDRE---KETLRIERKDNKKGVTISLPPIVAKWEE 54 (267)
T ss_pred HHHHHHHHhCCCCeeEeccC---CceEEEEEccCCCceEEEcHHHHHHHHh
Confidence 36899999999999999832 677777555455555 899998887754
No 2
>PF03816 LytR_cpsA_psr: Cell envelope-related transcriptional attenuator domain; InterPro: IPR004474 This entry describes a domain of unknown function that is found in the predicted extracellular domain of a number of putative membrane-bound proteins. One of these is protein psr, described as a penicillin binding protein 5 (PDP-5) synthesis repressor. Another is Bacillus subtilis LytR, described as a transcriptional attenuator of itself and the LytABC operon, where LytC is N-acetylmuramoyl-L-alanine amidase. A third is CpsA, a putative regulatory protein involved in exocellular polysaccharide biosynthesis. These proteins share the property of having a short putative N-terminal cytoplasmic domain and transmembrane domain forming a signal-anchor.; PDB: 3PE5_B 3QFI_A 3NRO_B 3OKZ_B 3OWQ_C 3MEJ_A 4DE9_A 3TEP_A 3TEL_A 3TFL_A ....
Probab=64.13 E-value=5.1 Score=29.80 Aligned_cols=20 Identities=20% Similarity=0.474 Sum_probs=16.2
Q ss_pred ceeeeeecCCceeeeecccc
Q 048445 81 RLLQFHKSEDSAHLISLPTN 100 (138)
Q Consensus 81 ~l~QFHkrd~svdLISLPrD 100 (138)
-|+.++....++.+||+|||
T Consensus 6 ~l~~~~~~~~~~~~vsIPRD 25 (149)
T PF03816_consen 6 MLVSINPDTKKVTLVSIPRD 25 (149)
T ss_dssp EEEEEETTTTEEEEEEE-TT
T ss_pred EEEEEcCCCCEEEEEEEcCc
Confidence 46778887789999999997
No 3
>TIGR00350 lytR_cpsA_psr cell envelope-related function transcriptional attenuator common domain. This model describes a domain of unknown function that is found in the predicted extracellular domain of a number of putative membrane-bound proteins. One of these is proteins psr, described as a penicillin binding protein 5 (PDP-5) synthesis repressor. Another is Bacillus subtilis LytR, described as a transcriptional attenuator of itself and the LytABC operon, where LytC is N-acetylmuramoyl-L-alanine amidase. A third is CpsA, a putative regulatory protein involved in exocellular polysaccharide biosynthesis. Besides the region of strong similarily represented by this model, these proteins share the property of having a short putative N-terminal cytoplasmic domain and transmembrane domain forming a signal-anchor.
Probab=54.46 E-value=9.5 Score=28.84 Aligned_cols=22 Identities=14% Similarity=0.318 Sum_probs=17.1
Q ss_pred cceeeeeecCCceeeeeccccc
Q 048445 80 NRLLQFHKSEDSAHLISLPTNF 101 (138)
Q Consensus 80 ~~l~QFHkrd~svdLISLPrDF 101 (138)
--|+-+.+...++.+||+|||-
T Consensus 6 i~l~~i~~~~~~~~lisIPRDt 27 (152)
T TIGR00350 6 LMVVTLDPKRKTAVVVSIPRDT 27 (152)
T ss_pred EEEEEEcCCCCEEEEEEecCCc
Confidence 3466677776789999999985
No 4
>PF07927 YcfA: YcfA-like protein; InterPro: IPR012933 This entry represents UPF0395, which contains viral, archaeal and bacterial proteins. It includes YncN of Escherichia coli K12. Most of these proteins are hypothetical proteins of unknown function. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1WHZ_A.
Probab=53.93 E-value=20 Score=22.09 Aligned_cols=16 Identities=25% Similarity=0.445 Sum_probs=12.6
Q ss_pred HHHHHHHHHhhcceee
Q 048445 57 YAELEQRLTELGWSRY 72 (138)
Q Consensus 57 Y~~LE~rL~~LGWeRY 72 (138)
|.+|++.|..+||+--
T Consensus 1 ~~el~k~L~~~G~~~~ 16 (56)
T PF07927_consen 1 WRELIKLLEKAGFEEV 16 (56)
T ss_dssp -HHHHHHHHHTT-EEE
T ss_pred ChHHHHHHHHCCCEEe
Confidence 5789999999999865
No 5
>KOG0675 consensus Calnexin [Posttranslational modification, protein turnover, chaperones]
Probab=50.18 E-value=15 Score=34.72 Aligned_cols=26 Identities=31% Similarity=0.595 Sum_probs=22.0
Q ss_pred cccccccc---eeeeEeEEEecCCeeEEE
Q 048445 98 PTNFANFR---SIHMYDIVVKNRSFFEVR 123 (138)
Q Consensus 98 PrDF~kfk---svHMYDIVVKnrn~F~VR 123 (138)
|.++.++- .+|||-+|||+-|.|+||
T Consensus 197 p~~l~~~~~d~~tHLYTLvl~pd~sfeI~ 225 (558)
T KOG0675|consen 197 PSSLKKPFDDKLTHLYTLVLKPDNTFEIR 225 (558)
T ss_pred CcccccccccCCceeEEEEecCCCeEEEE
Confidence 55666655 899999999999999997
No 6
>smart00391 MBD Methyl-CpG binding domain. Methyl-CpG binding domain, also known as the TAM (TTF-IIP5, ARBP, MeCP1) domain
Probab=49.85 E-value=29 Score=24.06 Aligned_cols=28 Identities=29% Similarity=0.377 Sum_probs=25.2
Q ss_pred CCeEEEEccCccceecHHHHHHHHHhhc
Q 048445 41 RPRVLVFLPTNQVIRSYAELEQRLTELG 68 (138)
Q Consensus 41 rrKvLVh~psnEVisSY~~LE~rL~~LG 68 (138)
+.-|.-+.|+|.-++|+.+|.+-|.+-|
T Consensus 27 ~~dV~Y~sP~GkklRs~~ev~~YL~~~~ 54 (77)
T smart00391 27 KFDVYYISPCGKKLRSKSELARYLHKNG 54 (77)
T ss_pred cccEEEECCCCCeeeCHHHHHHHHHhCC
Confidence 4689999999999999999999988765
No 7
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=49.35 E-value=48 Score=24.04 Aligned_cols=48 Identities=23% Similarity=0.370 Sum_probs=33.7
Q ss_pred eEEEEccCccceecHHHHHHHHHhhcceeecCCCCCCcceeeeeecCCcee-eeecccc
Q 048445 43 RVLVFLPTNQVIRSYAELEQRLTELGWSRYHDNSSSSNRLLQFHKSEDSAH-LISLPTN 100 (138)
Q Consensus 43 KvLVh~psnEVisSY~~LE~rL~~LGWeRYy~d~~~~~~l~QFHkrd~svd-LISLPrD 100 (138)
.-.++++-+ .||++|-+||.++ ++-. . +-.++|+..+...| ||||=.|
T Consensus 24 tr~i~V~r~---~s~~el~~kl~~~-----~~~~-~-~~~lky~Lp~edld~Lisv~~D 72 (97)
T cd06410 24 TRIVSVDRS---ISFKELVSKLSEL-----FGAG-V-VVTLKYQLPDEDLDALISVSND 72 (97)
T ss_pred eEEEEEcCC---CCHHHHHHHHHHH-----hCCC-C-ceEEEEEcCCCCcceeEEecCc
Confidence 446788888 4999999999998 3320 0 13667776656667 9988765
No 8
>cd00122 MBD MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1. The MBDs present in putative chromatin remodelling subunit, BAZ2A, and putative histone methyltransferase, CLLD8, represent two phylogenetically distinct groups within the MBD protein family.
Probab=42.34 E-value=53 Score=21.42 Aligned_cols=28 Identities=25% Similarity=0.439 Sum_probs=25.1
Q ss_pred CCeEEEEccCccceecHHHHHHHHHhhc
Q 048445 41 RPRVLVFLPTNQVIRSYAELEQRLTELG 68 (138)
Q Consensus 41 rrKvLVh~psnEVisSY~~LE~rL~~LG 68 (138)
+.-|.-+.|+|+.++|+.++++-|.+-|
T Consensus 24 k~dv~Y~sP~Gk~~Rs~~ev~~yL~~~~ 51 (62)
T cd00122 24 KGDVYYYSPCGKKLRSKPEVARYLEKTG 51 (62)
T ss_pred cceEEEECCCCceecCHHHHHHHHHhCC
Confidence 5578889999999999999999998766
No 9
>PF07285 DUF1444: Protein of unknown function (DUF1444); InterPro: IPR010838 This family contains several hypothetical bacterial proteins of unknown function that are approximately 250 residues long.
Probab=40.88 E-value=20 Score=29.65 Aligned_cols=46 Identities=20% Similarity=0.335 Sum_probs=33.0
Q ss_pred HHHHHHHHhhcceeecCCCCCCcceeeeeecCCcee-eeeccccccccce
Q 048445 58 AELEQRLTELGWSRYHDNSSSSNRLLQFHKSEDSAH-LISLPTNFANFRS 106 (138)
Q Consensus 58 ~~LE~rL~~LGWeRYy~d~~~~~~l~QFHkrd~svd-LISLPrDF~kfks 106 (138)
+.||++|...+|.--|+.. .+.+..+.+|..-. -|+||.-++++..
T Consensus 8 ~~l~~~L~~~~~~~~~~~~---~~~l~i~~~~~~~~vti~L~~ly~~y~~ 54 (265)
T PF07285_consen 8 EKLEERLKHENVTFSFDRE---KDTLRIEHKDNGKGVTINLDNLYAKYQE 54 (265)
T ss_pred HHHHHHhCcCCCeEEEecC---CCEEEEEEecCCCeEEEEhHHHHHHHHh
Confidence 5799999999999888732 56666655434333 3899988887654
No 10
>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].
Probab=39.88 E-value=15 Score=20.81 Aligned_cols=19 Identities=16% Similarity=0.510 Sum_probs=15.7
Q ss_pred ccceeeeEeEEEecCCeeE
Q 048445 103 NFRSIHMYDIVVKNRSFFE 121 (138)
Q Consensus 103 kfksvHMYDIVVKnrn~F~ 121 (138)
.+|+.|..+|+.+|...|+
T Consensus 1 sLKtL~L~~v~f~~~~~l~ 19 (26)
T PF07723_consen 1 SLKTLHLDSVVFSDEDSLE 19 (26)
T ss_pred CCeEEEeeEEEECChhHHH
Confidence 3689999999998887765
No 11
>cd01396 MeCP2_MBD MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family that share the methyl-CpG-binding domain (MBD). The MBD, consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1.
Probab=38.80 E-value=62 Score=22.49 Aligned_cols=28 Identities=32% Similarity=0.382 Sum_probs=25.3
Q ss_pred CCeEEEEccCccceecHHHHHHHHHhhc
Q 048445 41 RPRVLVFLPTNQVIRSYAELEQRLTELG 68 (138)
Q Consensus 41 rrKvLVh~psnEVisSY~~LE~rL~~LG 68 (138)
+.-|.-+.|+|+-++|..+|++-|.+.|
T Consensus 25 k~DvyY~sP~Gkk~RS~~ev~~yL~~~~ 52 (77)
T cd01396 25 KFDVYYISPTGKKFRSKVELARYLEKNG 52 (77)
T ss_pred cceEEEECCCCCEEECHHHHHHHHHhCC
Confidence 4578889999999999999999999877
No 12
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=38.35 E-value=23 Score=23.90 Aligned_cols=14 Identities=57% Similarity=0.795 Sum_probs=11.0
Q ss_pred ecHHHHHHHHHhhc
Q 048445 55 RSYAELEQRLTELG 68 (138)
Q Consensus 55 sSY~~LE~rL~~LG 68 (138)
-||++|++||.+|-
T Consensus 8 ls~~eL~~rl~~LD 21 (49)
T PF11629_consen 8 LSYEELQQRLASLD 21 (49)
T ss_dssp S-HHHHHHHHHHHH
T ss_pred CCHHHHHHHHHhCC
Confidence 38999999999874
No 13
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=35.66 E-value=26 Score=26.47 Aligned_cols=16 Identities=31% Similarity=0.694 Sum_probs=14.4
Q ss_pred ecHHHHHHHHHhhcce
Q 048445 55 RSYAELEQRLTELGWS 70 (138)
Q Consensus 55 sSY~~LE~rL~~LGWe 70 (138)
..++.|+|.|.+|||+
T Consensus 12 ~~~dri~~~l~e~g~~ 27 (96)
T COG4004 12 PDPDRIMRGLSELGWT 27 (96)
T ss_pred CCHHHHHHHHHHhCee
Confidence 3589999999999998
No 14
>PF15590 Imm15: Immunity protein 15
Probab=35.59 E-value=20 Score=25.69 Aligned_cols=9 Identities=22% Similarity=0.656 Sum_probs=8.1
Q ss_pred hcceeecCC
Q 048445 67 LGWSRYHDN 75 (138)
Q Consensus 67 LGWeRYy~d 75 (138)
-|||++|.|
T Consensus 23 d~We~~y~D 31 (69)
T PF15590_consen 23 DGWETLYQD 31 (69)
T ss_pred cchhhhccC
Confidence 399999998
No 15
>PF02589 DUF162: Uncharacterised ACR, YkgG family COG1556; InterPro: IPR003741 This entry represents a domain found in lactate utilization proteins B (LutB) and C (LutC), as well as several uncharacterised proteins. Lactate utilization proteins B and C are involved in L-lactate degradation and allows cells to grow with lactate as the sole carbon source. LutB probably has a role as an electron transporter during oxidation of L-lactate.; PDB: 2G40_A.
Probab=34.69 E-value=74 Score=23.73 Aligned_cols=46 Identities=17% Similarity=0.281 Sum_probs=32.1
Q ss_pred eCCEEEEeeCCCcccccccCCCCCCCCCCCCCCCeEEEEccCccceecHHHHHHHHHh
Q 048445 9 KNGVARLIQNPTKESFERKEPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTE 66 (138)
Q Consensus 9 knGV~rLvenp~~~s~~~~~~~~~g~~~~~~~rrKvLVh~psnEVisSY~~LE~rL~~ 66 (138)
.+|-+=+.+++++. ...+- .++++++.++.++++.++++.-+++..
T Consensus 98 etGtlvl~~~~~~~-------r~~s~-----lP~~hi~vv~~~kIv~~l~ea~~~~~~ 143 (189)
T PF02589_consen 98 ETGTLVLSSGPGNR-------RAVSL-----LPPVHIVVVGASKIVPNLEEALERLRN 143 (189)
T ss_dssp TTTEEEE---TTT--------GGGGT-----SSSEEEEEEEGGGEESSHHHHHHHHHH
T ss_pred hCCeEEEeCCCCCh-------hhhhh-----CCCeEEEEEcHHHcCCCHHHHHHHHHh
Confidence 56777777776521 00111 268999999999999999999999988
No 16
>TIGR01436 glu_cys_lig_pln glutamate--cysteine ligase, plant type. This model represents one of two highly dissimilar forms of glutamate--cysteine ligase (gamma-glutamylcysteine synthetase), an enzyme of glutathione biosynthesis. The other type is modeled by TIGR01434. This type is found in plants (with a probable transit peptide), root nodule and other bacteria, but not E. coli and closely related species.
Probab=34.54 E-value=53 Score=29.60 Aligned_cols=50 Identities=14% Similarity=0.321 Sum_probs=34.8
Q ss_pred CCeEEEEccCccceecHH--HHHHHHH----hhcceeecCCCCCCcceeeeeecCCceeeeec
Q 048445 41 RPRVLVFLPTNQVIRSYA--ELEQRLT----ELGWSRYHDNSSSSNRLLQFHKSEDSAHLISL 97 (138)
Q Consensus 41 rrKvLVh~psnEVisSY~--~LE~rL~----~LGWeRYy~d~~~~~~l~QFHkrd~svdLISL 97 (138)
--|..++.++++-++-+. .++..|. ..||+.++++ .+++++-+. + .-|||
T Consensus 28 ~E~f~~~~~~~~~~~y~~~~gi~~~l~~l~~~~g~~~~~e~----g~~i~l~~~-~--~~itl 83 (446)
T TIGR01436 28 HEKFGFEKNTLRPMKYEQKGGIAELLNGIAERFGWQKVMEG----DKIIGLKQD-K--QSISL 83 (446)
T ss_pred eeeeeeecCCCCCCCCCCchhHHHHHHHHHhhcCCceeccC----CceeeecCC-C--CeEEE
Confidence 347778888888776553 2554444 5599999998 889999663 3 45555
No 17
>PRK09379 membrane-bound transcriptional regulator LytR; Provisional
Probab=32.91 E-value=29 Score=29.30 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=19.2
Q ss_pred CCcceeeeeecCCceeeeeccccc
Q 048445 78 SSNRLLQFHKSEDSAHLISLPTNF 101 (138)
Q Consensus 78 ~~~~l~QFHkrd~svdLISLPrDF 101 (138)
|.--|+.+.....++.+||+|||=
T Consensus 79 Dtiml~~in~~~~~~~~iSIPRDt 102 (303)
T PRK09379 79 DSLIVMTLNPKTNSMKMVSIPRDT 102 (303)
T ss_pred cEEEEEEEcCCCCeEEEEEecCcc
Confidence 445677887776899999999985
No 18
>PF13382 Adenine_deam_C: Adenine deaminase C-terminal domain; PDB: 3T8L_B 3T81_A 3NQB_A.
Probab=32.72 E-value=17 Score=28.78 Aligned_cols=22 Identities=45% Similarity=0.727 Sum_probs=18.7
Q ss_pred cCccceecHHHHHHHHHhhcce
Q 048445 49 PTNQVIRSYAELEQRLTELGWS 70 (138)
Q Consensus 49 psnEVisSY~~LE~rL~~LGWe 70 (138)
|..||+..++.|++.|++|||.
T Consensus 116 ~~eev~~~~~~l~~~~~~lG~~ 137 (171)
T PF13382_consen 116 PAEEVARQLEELEEALRELGCP 137 (171)
T ss_dssp -HHHHHHHHHHHHHHHHTTS-B
T ss_pred CHHHHHHHHHHHHHHHHHcCCC
Confidence 5678999999999999999998
No 19
>PLN02367 lactoylglutathione lyase
Probab=29.62 E-value=1.8e+02 Score=24.31 Aligned_cols=61 Identities=21% Similarity=0.275 Sum_probs=32.0
Q ss_pred eEEEeeCCEEEEeeCCCcccccccCCCCCCCCCCCCCCCeEEEEccCccceecHHHHHHHHHhhccee
Q 048445 4 VWVFDKNGVARLIQNPTKESFERKEPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWSR 71 (138)
Q Consensus 4 VWVF~knGV~rLvenp~~~s~~~~~~~~~g~~~~~~~rrKvLVh~psnEVisSY~~LE~rL~~LGWeR 71 (138)
.|.|...+++.|.+|.+.++..+..+-..|.+ .|.+-..+-+- |.+.+..-++|.++|++=
T Consensus 134 ~~~~~~~~~LELt~n~g~e~~~~~~~y~~gn~-~p~G~~HIaf~------VdDVdaa~erL~a~Gv~~ 194 (233)
T PLN02367 134 VWTFGQKATIELTHNWGTESDPDFKGYHNGNS-EPRGFGHIGIT------VDDVYKACERFEELGVEF 194 (233)
T ss_pred eeccCCCCEEEEecCCCCCccccchhcccCCC-CCCCceEEEEE------cCCHHHHHHHHHHCCCEE
Confidence 58884457999999986432110000000000 00001123332 247888888999999984
No 20
>PF07404 TEBP_beta: Telomere-binding protein beta subunit (TEBP beta); InterPro: IPR010874 Telomeres are specialised protein-DNA complexes that compose the ends of eukaryotic chromosomes. Telomeres protect chromosome termini from degradation and recombination and act together with telomerase to ensure complete genome replication. TEBP beta forms a complex with TEBP alpha and this complex is able to recognise and bind ssDNA to form a sequence-specific, telomeric nucleoprotein complex that caps the very 3' ends of chromosomes []. This family consists of several telomere-binding protein beta subunits, which appear to be specific to the Oxytrichidae. ; GO: 0042162 telomeric DNA binding, 0000781 chromosome, telomeric region; PDB: 1PH5_B 1PH1_B 1PH8_B 1PH4_B 1PH2_B 1OTC_B 2I0Q_B 1PH6_B 1PH3_B 1PH9_B ....
Probab=28.47 E-value=4.9 Score=35.60 Aligned_cols=22 Identities=36% Similarity=0.459 Sum_probs=14.9
Q ss_pred EccCccceecHHHHHHHHHhhc
Q 048445 47 FLPTNQVIRSYAELEQRLTELG 68 (138)
Q Consensus 47 h~psnEVisSY~~LE~rL~~LG 68 (138)
-+.+-||.|||+-||.||.-.-
T Consensus 98 rvnsaevftsyanlearlivhs 119 (379)
T PF07404_consen 98 RVNSAEVFTSYANLEARLIVHS 119 (379)
T ss_dssp E--TTT-SS-BTTEEEEEEEEE
T ss_pred ecchHhHhHhhhchhhheehhh
Confidence 4789999999999999986443
No 21
>cd06587 Glo_EDI_BRP_like This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins. This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). Type I extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into aromatic substrates, which results in the cleavage of aromatic rings. They are key enzymes in the degradation of aromatic compounds. Type I extradiol dioxygenases include class I and class II enzymes. Class I and II enzymes show sequence similarity; the two-domain clas
Probab=26.34 E-value=1.5e+02 Score=17.70 Aligned_cols=63 Identities=10% Similarity=-0.003 Sum_probs=35.4
Q ss_pred ecHHHHHHHHHh-hcceeecCCCCCCcceeeeeecCCceeeeecccccc--ccceeeeEeEEEecC
Q 048445 55 RSYAELEQRLTE-LGWSRYHDNSSSSNRLLQFHKSEDSAHLISLPTNFA--NFRSIHMYDIVVKNR 117 (138)
Q Consensus 55 sSY~~LE~rL~~-LGWeRYy~d~~~~~~l~QFHkrd~svdLISLPrDF~--kfksvHMYDIVVKnr 117 (138)
.+.+..-+-+.+ |||+.......+......|..-+..+.|...|.... .-..+|..-+.|.|-
T Consensus 7 ~d~~~~~~fy~~~lg~~~~~~~~~~~~~~~~~~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~v~~~ 72 (112)
T cd06587 7 SDLEAAVAFYEEVLGFEVLFRNGNGGAEFAVLGLGGTRLELFEGDEPAPAPSGGGGVHLAFEVDDV 72 (112)
T ss_pred CCHHHHHHHHHhccCCEEEEeeccCCEEEEEEecCCceEEEecCCCCCCcccCCCeeEEEEECCCH
Confidence 345555555665 899877654111235556654445677777666543 344455555666553
No 22
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=25.43 E-value=76 Score=32.41 Aligned_cols=58 Identities=26% Similarity=0.454 Sum_probs=40.5
Q ss_pred ceEEEeeCCEEEEeeCCCcccccccCCCCCCCCCCCCCCCeEEEEccCccceecHHHHHHHHHhhcceeec-C-CCCCCc
Q 048445 3 GVWVFDKNGVARLIQNPTKESFERKEPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWSRYH-D-NSSSSN 80 (138)
Q Consensus 3 GVWVF~knGV~rLvenp~~~s~~~~~~~~~g~~~~~~~rrKvLVh~psnEVisSY~~LE~rL~~LGWeRYy-~-d~~~~~ 80 (138)
||.|| |||-+|---.. =-|-|.-..|+=.|.+ ||++||.++=+ + .+++..
T Consensus 704 ~v~vF-KDGTiRfD~tD-----------------------~PlTHfrp~Eigvsve----klreLGY~~Di~G~pL~~~d 755 (1095)
T TIGR00354 704 GVYVF-KDGTARFDATD-----------------------LPITHFKPAEIGVSVE----KLRELGYERDYYGAELKDEN 755 (1095)
T ss_pred CeeEe-cCCceeccCcC-----------------------CCcccccHHHcCCCHH----HHHHcCCccccCCCCCCCcc
Confidence 89999 99999974321 1144666667777764 78999998754 3 444557
Q ss_pred ceeeeeec
Q 048445 81 RLLQFHKS 88 (138)
Q Consensus 81 ~l~QFHkr 88 (138)
.+++++..
T Consensus 756 QivELk~Q 763 (1095)
T TIGR00354 756 QIVELKPQ 763 (1095)
T ss_pred ceEEeecc
Confidence 78888766
No 23
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=25.24 E-value=36 Score=30.57 Aligned_cols=27 Identities=37% Similarity=0.423 Sum_probs=23.3
Q ss_pred CceeeeeccccccccceeeeEeEEEec
Q 048445 90 DSAHLISLPTNFANFRSIHMYDIVVKN 116 (138)
Q Consensus 90 ~svdLISLPrDF~kfksvHMYDIVVKn 116 (138)
--.-.||||.||..-.+|==-|||-.+
T Consensus 132 r~~~~Is~P~DFRqVSsIIDVDivPEt 158 (358)
T KOG3606|consen 132 RPHLSISLPQDFRQVSSIIDVDIVPET 158 (358)
T ss_pred CCCccccCccccceeceeeeecccchh
Confidence 355679999999999999999999765
No 24
>PF00472 RF-1: RF-1 domain; InterPro: IPR000352 Peptide chain release factors (RFs) are required for the termination of protein biosynthesis []. At present two classes of RFs can be distinguished. Class I RFs bind to ribosomes that have encountered a stop codon at their decoding site and induce release of the nascent polypeptide. Class II RFs are GTP-binding proteins that interact with class I RFs and enhance class I RF activity. In prokaryotes there are two class I RFs that act in a codon specific manner []: RF-1 (gene prfA) mediates UAA and UAG-dependent termination while RF-2 (gene prfB) mediates UAA and UGA-dependent termination. RF-1 and RF-2 are structurally and evolutionary related proteins which have been shown to be part of a larger family [].; GO: 0003747 translation release factor activity, 0006415 translational termination; PDB: 2JY9_A 1ZBT_A 1GQE_A 3F1G_X 3F1E_X 1RQ0_C 4DH9_Y 2JVA_A 1J26_A 3D5A_X ....
Probab=24.97 E-value=50 Score=24.02 Aligned_cols=14 Identities=29% Similarity=0.444 Sum_probs=11.6
Q ss_pred eEEEEccCccceec
Q 048445 43 RVLVFLPTNQVIRS 56 (138)
Q Consensus 43 KvLVh~psnEVisS 56 (138)
=.|.|.|||-+|.+
T Consensus 36 V~l~h~ptgi~v~~ 49 (113)
T PF00472_consen 36 VRLRHIPTGIVVKC 49 (113)
T ss_dssp EEEEETTTTEEEEE
T ss_pred EEEEEecccEEEEE
Confidence 34899999988876
No 25
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=24.92 E-value=1.2e+02 Score=28.10 Aligned_cols=82 Identities=20% Similarity=0.278 Sum_probs=57.1
Q ss_pred CeEEEEccCccceecHHHHHHHHHhhcceeecCCCCCCcceeeeeecCCceeeeec-----cc--cc--cccceeeeEeE
Q 048445 42 PRVLVFLPTNQVIRSYAELEQRLTELGWSRYHDNSSSSNRLLQFHKSEDSAHLISL-----PT--NF--ANFRSIHMYDI 112 (138)
Q Consensus 42 rKvLVh~psnEVisSY~~LE~rL~~LGWeRYy~d~~~~~~l~QFHkrd~svdLISL-----Pr--DF--~kfksvHMYDI 112 (138)
.+.-+++-.|+.|. .+.|.++|.++|.+|---- ..-=||-.|.+-+|+.+. |- +| ...-||+-+|+
T Consensus 155 ~~~~~~l~~G~~i~-~~~l~~~L~~~GY~r~~~v----~~~GeFsvRG~IiDIfp~~~~~~PvRIeffgdeIesIr~Fd~ 229 (652)
T PRK05298 155 LKMVLSLRVGQEID-RRELLRRLVDLQYERNDID----FQRGTFRVRGDVIEIFPAYYEERAIRIEFFGDEIERISEFDP 229 (652)
T ss_pred HhceEEEeCCCCcC-HHHHHHHHHHcCCcccCcc----CCCceEEEECCEEEEeCCCCCCccEEEEEECCEEeEEEEECC
Confidence 45667888888875 8999999999999998543 455679999778899887 32 12 34578888886
Q ss_pred EEecCCeeEEEEeeeCC
Q 048445 113 VVKNRSFFEVRDLIMSP 129 (138)
Q Consensus 113 VVKnrn~F~VRD~~~~~ 129 (138)
.=+ |+.=++-.+...|
T Consensus 230 ~tQ-rs~~~~~~~~i~P 245 (652)
T PRK05298 230 LTG-EVLGELDRVTIYP 245 (652)
T ss_pred CCC-CCcCccceEEEEC
Confidence 544 4443443343334
No 26
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=24.83 E-value=86 Score=20.75 Aligned_cols=30 Identities=23% Similarity=0.309 Sum_probs=22.7
Q ss_pred CCeEEEEccCccceecHHHHHHHHHhhcceeec
Q 048445 41 RPRVLVFLPTNQVIRSYAELEQRLTELGWSRYH 73 (138)
Q Consensus 41 rrKvLVh~psnEVisSY~~LE~rL~~LGWeRYy 73 (138)
.++++||-.+| .+|....+ .|..+|.++.|
T Consensus 61 ~~~ivvyC~~G--~rs~~a~~-~L~~~G~~~v~ 90 (101)
T cd01518 61 GKKVLMYCTGG--IRCEKASA-YLKERGFKNVY 90 (101)
T ss_pred CCEEEEECCCc--hhHHHHHH-HHHHhCCccee
Confidence 35899999988 56666655 68999987654
No 27
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=24.44 E-value=49 Score=30.76 Aligned_cols=33 Identities=21% Similarity=0.337 Sum_probs=29.7
Q ss_pred CeEEEEccCccceecHHHHHHHHHhhcceeecCC
Q 048445 42 PRVLVFLPTNQVIRSYAELEQRLTELGWSRYHDN 75 (138)
Q Consensus 42 rKvLVh~psnEVisSY~~LE~rL~~LGWeRYy~d 75 (138)
.+||+.+...++- +++.|.+.+.++-|++|+..
T Consensus 55 ~RVll~l~~f~a~-~~~~Ly~~v~~i~W~~~l~~ 87 (702)
T PRK11783 55 SRILLPLAEFKVY-SDLDLYLGVQAIDWTEHFSP 87 (702)
T ss_pred hheEEEeeeeecC-CHHHHHHHHHcCCHHHhCCC
Confidence 5899999998864 89999999999999999874
No 28
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=23.53 E-value=48 Score=23.00 Aligned_cols=20 Identities=45% Similarity=0.519 Sum_probs=11.8
Q ss_pred ccceeeeEeEEEecCCeeEE
Q 048445 103 NFRSIHMYDIVVKNRSFFEV 122 (138)
Q Consensus 103 kfksvHMYDIVVKnrn~F~V 122 (138)
.|.|-+-||++|||++-=+|
T Consensus 19 ~f~sgq~~D~~v~d~~g~~v 38 (82)
T PF12690_consen 19 QFPSGQRYDFVVKDKEGKEV 38 (82)
T ss_dssp EESSS--EEEEEE-TT--EE
T ss_pred EeCCCCEEEEEEECCCCCEE
Confidence 47788999999998765443
No 29
>cd07245 Glo_EDI_BRP_like_9 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases.
Probab=23.33 E-value=1.9e+02 Score=17.75 Aligned_cols=52 Identities=21% Similarity=0.517 Sum_probs=29.8
Q ss_pred ceEEEeeCC-EEEEeeCCCcccccccCCCCCCCCCCCCCCCeEEEEccCccceecHHHHHHHHHhhcce
Q 048445 3 GVWVFDKNG-VARLIQNPTKESFERKEPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWS 70 (138)
Q Consensus 3 GVWVF~knG-V~rLvenp~~~s~~~~~~~~~g~~~~~~~rrKvLVh~psnEVisSY~~LE~rL~~LGWe 70 (138)
+.|....++ .+.+..+|..+.. +..++ ....+-+.++ +++.+.++|.++|.+
T Consensus 36 ~~~~~~~~~~~i~l~~~~~~~~~----~~~~~------~~~~~~~~v~------d~~~~~~~l~~~g~~ 88 (114)
T cd07245 36 GAWLYAGDGPQLHLIEEDPPDAL----PEGPG------RDDHIAFRVD------DLDAFRARLKAAGVP 88 (114)
T ss_pred ceEEEeCCCcEEEEEecCCCccc----cCCCc------ccceEEEEeC------CHHHHHHHHHHcCCC
Confidence 467654455 7778777642110 11111 1123444443 489999999999997
No 30
>cd01395 HMT_MBD Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated transcriptional repression. SETDB1 and other proteins in this group have a similar domain architecture. SETDB1 is a novel KAP-1-associated histone H3, lysine 9-specific methyltransferase that contributes to HP1-mediated silencing of euchromatic genes by KRAB zinc-finger proteins.
Probab=23.03 E-value=1e+02 Score=21.02 Aligned_cols=28 Identities=21% Similarity=0.386 Sum_probs=24.0
Q ss_pred CCCeEEEEccCccceecHHHHHHHHHhh
Q 048445 40 ARPRVLVFLPTNQVIRSYAELEQRLTEL 67 (138)
Q Consensus 40 ~rrKvLVh~psnEVisSY~~LE~rL~~L 67 (138)
.++-|.-+.|.|...++|++.++-|.+-
T Consensus 22 ~k~~V~Y~aPCGr~Lr~~~EV~~YL~~t 49 (60)
T cd01395 22 VKKHVIYKAPCGRSLRNMSEVHRYLRET 49 (60)
T ss_pred cccceEEECCcchhhhcHHHHHHHHHhc
Confidence 3567888899999999999999988763
No 31
>smart00850 LytTR LytTr DNA-binding domain. This domain is found in a variety of bacterial transcriptional regulators. The domain binds to a specific DNA sequence pattern.
Probab=22.79 E-value=1.2e+02 Score=19.53 Aligned_cols=36 Identities=14% Similarity=0.229 Sum_probs=21.8
Q ss_pred CeEEEEccCccceecHHHHHHHHHhhcceeecCCCCCCcceeeeeec
Q 048445 42 PRVLVFLPTNQVIRSYAELEQRLTELGWSRYHDNSSSSNRLLQFHKS 88 (138)
Q Consensus 42 rKvLVh~psnEVisSY~~LE~rL~~LGWeRYy~d~~~~~~l~QFHkr 88 (138)
+++.+|+.+++.. .+..|.+-...|. + +..+|-|++
T Consensus 19 ~~~~i~~~~~~~~-~~~~l~~~~~~L~------~----~~F~r~hrs 54 (96)
T smart00850 19 NYVTIHTKDGTYL-VRGTLKELEEKLD------P----TNFFRIHRS 54 (96)
T ss_pred CEEEEEECCcEEE-ehhhHHHHHhhCC------C----CceEEechh
Confidence 6899999877643 3444444333331 2 457888887
No 32
>TIGR02254 YjjG/YfnB HAD superfamily (subfamily IA) hydrolase, TIGR02254. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549). Most likely, these enzymes are phosphatases.
Probab=22.48 E-value=50 Score=24.17 Aligned_cols=28 Identities=21% Similarity=0.298 Sum_probs=21.9
Q ss_pred EEEEccCccceecHHHHHHHHHhhcceeecC
Q 048445 44 VLVFLPTNQVIRSYAELEQRLTELGWSRYHD 74 (138)
Q Consensus 44 vLVh~psnEVisSY~~LE~rL~~LGWeRYy~ 74 (138)
..+.+-||- +.+.++.+|..+||.+||+
T Consensus 113 ~~~~i~Sn~---~~~~~~~~l~~~~l~~~fd 140 (224)
T TIGR02254 113 FRLYIVTNG---VRETQYKRLRKSGLFPFFD 140 (224)
T ss_pred CcEEEEeCC---chHHHHHHHHHCCcHhhcC
Confidence 455566663 4688899999999999987
No 33
>PF14067 LssY_C: LssY C-terminus
Probab=22.24 E-value=63 Score=25.62 Aligned_cols=20 Identities=35% Similarity=0.581 Sum_probs=16.9
Q ss_pred ceecHHHHHHHHHhhcceee
Q 048445 53 VIRSYAELEQRLTELGWSRY 72 (138)
Q Consensus 53 VisSY~~LE~rL~~LGWeRY 72 (138)
.+-+-+.|.+.|.++||.+.
T Consensus 30 ~~G~~~~l~~~l~~~GW~~a 49 (192)
T PF14067_consen 30 LIGSLDQLRQALEAAGWIEA 49 (192)
T ss_pred EecCHHHHHHHHHHcCCccC
Confidence 34567899999999999977
No 34
>TIGR02981 phageshock_pspE phage shock operon rhodanese PspE. Members of this very narrowly defined protein family are proteins active as rhodanese (EC 2.8.1.1) and found in the extended variants of the phage shock protein (psp operon) in Escherichia coli and a few closely related species. Note that the designation phage shock protein PspE has been applied, incorrectly, in many instances where the genome lacks the phage shock regulon entirely.
Probab=22.20 E-value=1.3e+02 Score=21.06 Aligned_cols=31 Identities=13% Similarity=0.265 Sum_probs=23.6
Q ss_pred CCeEEEEccCccceecHHHHHHHHHhhcceeecC
Q 048445 41 RPRVLVFLPTNQVIRSYAELEQRLTELGWSRYHD 74 (138)
Q Consensus 41 rrKvLVh~psnEVisSY~~LE~rL~~LGWeRYy~ 74 (138)
.++++||..+|. +|.... +.|..+|+++++.
T Consensus 58 ~~~vvlyC~~G~--rS~~aa-~~L~~~G~~~v~~ 88 (101)
T TIGR02981 58 NDTVKLYCNAGR--QSGMAK-DILLDMGYTHAEN 88 (101)
T ss_pred CCeEEEEeCCCH--HHHHHH-HHHHHcCCCeEEe
Confidence 468999999996 555554 5888999988754
No 35
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.95 E-value=97 Score=31.79 Aligned_cols=59 Identities=22% Similarity=0.358 Sum_probs=40.7
Q ss_pred cceEEEeeCCEEEEeeCCCcccccccCCCCCCCCCCCCCCCeEEEEccCccceecHHHHHHHHHhhcceee-cC-CCCCC
Q 048445 2 SGVWVFDKNGVARLIQNPTKESFERKEPVQPGTATAPGARPRVLVFLPTNQVIRSYAELEQRLTELGWSRY-HD-NSSSS 79 (138)
Q Consensus 2 SGVWVF~knGV~rLvenp~~~s~~~~~~~~~g~~~~~~~rrKvLVh~psnEVisSY~~LE~rL~~LGWeRY-y~-d~~~~ 79 (138)
-||.|| |||-+|---.. =-|-|.--.|+=+|.+ ||++||.+.= |+ .+++.
T Consensus 728 ~~v~vF-KDGTiR~D~tD-----------------------~PlTHfrp~Eigvsve----klreLGY~~Di~G~pL~~~ 779 (1121)
T PRK04023 728 HDVYVF-KDGTVRYDMTD-----------------------LPLTHFRPREIGVSVE----KLRELGYTHDIYGNPLESE 779 (1121)
T ss_pred cCeeEe-cCcceeccCcC-----------------------CCcccccHHHcCCCHH----HHHHcCCccccCCCCCCCc
Confidence 389999 99999974321 1144666667777764 7899999884 44 44455
Q ss_pred cceeeeeec
Q 048445 80 NRLLQFHKS 88 (138)
Q Consensus 80 ~~l~QFHkr 88 (138)
..++++...
T Consensus 780 dQivELk~Q 788 (1121)
T PRK04023 780 DQIVELKVQ 788 (1121)
T ss_pred cceEEeecc
Confidence 778888766
No 36
>KOG3368 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.84 E-value=47 Score=26.56 Aligned_cols=16 Identities=31% Similarity=0.789 Sum_probs=12.8
Q ss_pred ceEEEeeCCEEEEeeC
Q 048445 3 GVWVFDKNGVARLIQN 18 (138)
Q Consensus 3 GVWVF~knGV~rLven 18 (138)
++|+||++|+--.-..
T Consensus 5 ~~yIFdR~g~Cl~y~E 20 (140)
T KOG3368|consen 5 NFYIFDRNGVCLFYRE 20 (140)
T ss_pred EEEEEcCCccEEEehh
Confidence 6899999999866543
No 37
>smart00359 PUA Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase.
Probab=21.63 E-value=1.2e+02 Score=19.07 Aligned_cols=15 Identities=27% Similarity=0.414 Sum_probs=11.2
Q ss_pred cceEEEeeCCEEEEee
Q 048445 2 SGVWVFDKNGVARLIQ 17 (138)
Q Consensus 2 SGVWVF~knGV~rLve 17 (138)
.|-|+| .+||.+...
T Consensus 15 ~g~~v~-~~~v~~~~~ 29 (77)
T smart00359 15 NGASLL-APGVVRVDG 29 (77)
T ss_pred cCCCcc-cceeEEEeC
Confidence 467999 999976543
No 38
>PRK13958 N-(5'-phosphoribosyl)anthranilate isomerase; Provisional
Probab=21.17 E-value=1.5e+02 Score=23.42 Aligned_cols=32 Identities=19% Similarity=0.291 Sum_probs=23.9
Q ss_pred CCeEEEEccCccceecHHHHHHHHHhhcceeecCCCCCCcceeeeeec
Q 048445 41 RPRVLVFLPTNQVIRSYAELEQRLTELGWSRYHDNSSSSNRLLQFHKS 88 (138)
Q Consensus 41 rrKvLVh~psnEVisSY~~LE~rL~~LGWeRYy~d~~~~~~l~QFHkr 88 (138)
-++|.|++.. +.+.+++.+..+| ++.+|+|-.
T Consensus 53 ~~~VgVf~~~-----~~~~i~~~~~~~~-----------~d~vQLHG~ 84 (207)
T PRK13958 53 IDKVCVVVNP-----DLTTIEHILSNTS-----------INTIQLHGT 84 (207)
T ss_pred CCEEEEEeCC-----CHHHHHHHHHhCC-----------CCEEEECCC
Confidence 3589998655 5677777776554 789999975
No 39
>TIGR01457 HAD-SF-IIA-hyp2 HAD-superfamily subfamily IIA hydrolase, TIGR01457. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram positive (low-GC) bacteria. Sequences found in this model are annotated variously as related to NagD or 4-nitrophenyl phosphatase, and this hypothetical equivalog, of all of those within the Class IIA subfamily, is most closely related to the E. coli NagD enzyme and the PGP_euk equivalog (TIGR01452). However, there is presently no evidence that this hypothetical equivalog has the same function of either those.
Probab=21.01 E-value=49 Score=26.16 Aligned_cols=29 Identities=14% Similarity=0.179 Sum_probs=21.3
Q ss_pred EEEEccCccceecHHHHHHHHHhhcceee
Q 048445 44 VLVFLPTNQVIRSYAELEQRLTELGWSRY 72 (138)
Q Consensus 44 vLVh~psnEVisSY~~LE~rL~~LGWeRY 72 (138)
+-|.+-||.--++++.+.++|..+|++--
T Consensus 34 ~~~~~~Tnn~~r~~~~~~~~l~~~g~~~~ 62 (249)
T TIGR01457 34 IPYLFVTNNSTRTPESVAEMLASFDIPAT 62 (249)
T ss_pred CeEEEEeCCCCCCHHHHHHHHHHcCCCCC
Confidence 44555677777788888888888888743
No 40
>PF00697 PRAI: N-(5'phosphoribosyl)anthranilate (PRA) isomerase; InterPro: IPR001240 Indole-3-glycerol phosphate synthase (IGPS) (see IPR001468 from INTERPRO) catalyzes the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyzes N-(5-phosphoribosyl)anthranilate isomerase (PRAI) activity, the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (GATase) N-terminal domain (see IPR000991 from INTERPRO). Phosphoribosylanthranilate isomerase (PRAI) is monomeric and labile in most mesophilic microorganisms, but dimeric and stable in the hyperthermophile Thermotoga maritima (tPRAI) []. The comparison to the known 2.0 A structure of PRAI from Escherichia coli (ePRAI) shows that tPRAI has the complete TIM- or (beta alp ha)8-barrel fold, whereas helix alpha5 in ePRAI is replaced by a loop. The subunits of tPRAI associate via the N-terminal faces of their central beta-barrels. Two long, symmetry-related loops that protrude reciprocally into cavities of the other subunit provide for multiple hydrophobic interactions. Moreover, the side chains of the N-terminal methionines and the C-terminal leucines of both subunits are immobilized in a hydrophobic cluster, and the number of salt bridges is increased in tPRAI. These features appear to be mainly responsible for the high thermostability of tPRAI []. ; GO: 0004640 phosphoribosylanthranilate isomerase activity, 0006568 tryptophan metabolic process; PDB: 1V5X_A 1PII_A 1JCM_P 2KZH_A 1LBM_A 1DL3_A 1NSJ_A.
Probab=20.23 E-value=92 Score=24.10 Aligned_cols=53 Identities=26% Similarity=0.343 Sum_probs=28.6
Q ss_pred CeEEEEccCccceecHHHHHHHHHhhcceeecCCCCCCcceeeeeecCCceeeeeccccccccceeeeE
Q 048445 42 PRVLVFLPTNQVIRSYAELEQRLTELGWSRYHDNSSSSNRLLQFHKSEDSAHLISLPTNFANFRSIHMY 110 (138)
Q Consensus 42 rKvLVh~psnEVisSY~~LE~rL~~LGWeRYy~d~~~~~~l~QFHkrd~svdLISLPrDF~kfksvHMY 110 (138)
+.|.|++.. +-+.+.+.+.+++ ++.+|+|-..+.-...-|+.++.-++.+|+.
T Consensus 50 ~~VgVf~~~-----~~~~I~~~~~~~~-----------ld~vQLHG~e~~e~~~~l~~~~~vi~~~~v~ 102 (197)
T PF00697_consen 50 KIVGVFVNQ-----SPEEILEIVEELG-----------LDVVQLHGDESPEYIKLLRAGLPVIKAIHVD 102 (197)
T ss_dssp SEEEEESSS------HHHHHHHHHHCT-----------ESEEEE-SGG-HHHHHHHHTTSEEEEEEEES
T ss_pred CEEEEEcCC-----CHHHHHHHHHHcC-----------CCEEEECCCCCHHHHHHhhcCceEEEEEEeC
Confidence 378888765 4455555555443 8999999884333333344444444444443
No 41
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=20.19 E-value=83 Score=24.30 Aligned_cols=34 Identities=9% Similarity=0.032 Sum_probs=25.7
Q ss_pred CCeEEEEccCccceec-HHHHHHHHHhhcce-eecC
Q 048445 41 RPRVLVFLPTNQVIRS-YAELEQRLTELGWS-RYHD 74 (138)
Q Consensus 41 rrKvLVh~psnEVisS-Y~~LE~rL~~LGWe-RYy~ 74 (138)
++|||+.++.||.=.= -.-+..-|+..||+ .|++
T Consensus 82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG 117 (201)
T cd02070 82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLG 117 (201)
T ss_pred CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECC
Confidence 4699999999986442 34567788999999 5555
Done!