Query 039232
Match_columns 165
No_of_seqs 80 out of 82
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 07:38:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039232.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039232hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01693 Cauli_VI: Caulimoviru 99.7 1.3E-18 2.9E-23 111.6 4.2 44 86-133 1-44 (44)
2 COG3341 Predicted double-stran 99.7 3.3E-17 7.2E-22 138.2 4.6 48 85-136 5-52 (225)
3 KOG3752 Ribonuclease H [Replic 98.9 9.3E-10 2E-14 98.6 3.7 52 80-135 21-72 (371)
4 PF00017 SH2: SH2 domain; Int 77.3 2.1 4.6E-05 28.4 2.2 32 121-153 2-33 (77)
5 PF15138 Syncollin: Syncollin 76.9 2 4.2E-05 34.0 2.2 41 55-106 63-105 (112)
6 PF01071 GARS_A: Phosphoribosy 65.8 5.7 0.00012 33.0 2.7 33 115-149 14-46 (194)
7 PF05573 NosL: NosL; InterPro 64.2 9 0.0002 29.7 3.4 37 115-155 112-148 (149)
8 PF14657 Integrase_AP2: AP2-li 64.1 5.3 0.00012 25.4 1.7 15 122-136 22-36 (46)
9 cd03418 GRX_GRXb_1_3_like Glut 58.4 6.9 0.00015 25.2 1.6 41 124-164 10-56 (75)
10 KOG0237 Glycinamide ribonucleo 51.5 12 0.00025 37.5 2.5 34 115-150 120-153 (788)
11 smart00252 SH2 Src homology 2 51.0 18 0.00039 24.2 2.7 30 120-151 3-32 (84)
12 PF05406 WGR: WGR domain; Int 50.5 14 0.0003 25.7 2.1 48 80-135 14-63 (81)
13 PF11964 SpoIIAA-like: SpoIIAA 50.0 7 0.00015 27.0 0.6 33 100-135 74-108 (109)
14 cd03413 CbiK_C Anaerobic cobal 47.6 17 0.00038 26.7 2.4 36 123-158 40-79 (103)
15 smart00441 FF Contains two con 44.3 21 0.00045 22.6 2.1 33 98-136 19-51 (55)
16 cd01896 DRG The developmentall 40.6 15 0.00034 29.8 1.3 39 125-163 136-178 (233)
17 COG3254 Uncharacterized conser 38.8 23 0.00051 27.7 2.0 30 128-159 27-56 (105)
18 PF03243 MerB: Alkylmercury ly 37.9 19 0.00042 27.4 1.4 34 124-158 90-126 (127)
19 cd00173 SH2 Src homology 2 dom 36.6 40 0.00088 22.5 2.7 29 121-151 3-31 (94)
20 PF10281 Ish1: Putative stress 36.3 31 0.00068 21.2 1.9 26 127-156 6-31 (38)
21 KOG0235 Phosphoglycerate mutas 34.7 27 0.00058 29.7 1.9 69 82-162 3-100 (214)
22 PF08063 PADR1: PADR1 (NUC008) 34.0 13 0.00028 25.4 -0.1 9 155-163 10-18 (55)
23 PF01846 FF: FF domain; Inter 32.9 44 0.00096 20.9 2.3 33 98-136 17-50 (51)
24 smart00773 WGR Proposed nuclei 31.5 1.4E+02 0.0029 20.7 4.7 44 83-135 18-66 (84)
25 cd07996 WGR_MMR_like WGR domai 30.0 1.6E+02 0.0035 19.7 4.8 45 83-135 12-60 (74)
26 PF12558 DUF3744: ATP-binding 28.6 21 0.00046 25.1 0.3 14 132-145 3-16 (74)
27 COG0151 PurD Phosphoribosylami 26.6 71 0.0015 30.2 3.3 26 115-140 115-140 (428)
28 PF09260 DUF1966: Domain of un 25.7 60 0.0013 23.8 2.2 20 85-104 6-29 (91)
29 PRK00509 argininosuccinate syn 21.9 80 0.0017 29.0 2.7 26 123-148 148-178 (399)
30 PF12286 DUF3622: Protein of u 21.9 54 0.0012 24.2 1.3 13 122-134 38-50 (71)
31 PRK10638 glutaredoxin 3; Provi 21.2 48 0.001 22.4 0.9 30 126-155 14-44 (83)
32 cd07994 WGR WGR domain. The WG 20.7 2.1E+02 0.0046 19.8 4.1 46 81-134 8-59 (73)
33 PF08803 ydhR: Putative mono-o 20.5 18 0.0004 27.7 -1.4 40 116-158 46-85 (97)
34 TIGR02194 GlrX_NrdH Glutaredox 20.4 81 0.0017 20.7 1.8 23 126-148 11-33 (72)
35 PF00462 Glutaredoxin: Glutare 20.3 65 0.0014 20.3 1.3 29 127-155 12-41 (60)
No 1
>PF01693 Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR011320 This entry represents the N-terminal domain of RNase HI, which has a 3-layer alpha/beta/alpha structure []. This domain is lacking in retroviral and prokaryotic enzymes, but shows a striking structural similarity to the ribosomal protein L9 N-terminal domain, and may function as a regulatory RNA-binding module. However, the topology of this domain differs from structures of known RNA binding domains such as the double-stranded RNA binding domain (dsRBD), the hnRNP K homology (KH) domain and the RNP motif. Eukaryotic RNases HI possess either one or two copies of this small N-terminal domain, in addition to the well-conserved catalytic RNase H domain. RNase HI belongs to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. ; PDB: 1QHK_A 3BSU_C.
Probab=99.74 E-value=1.3e-18 Score=111.60 Aligned_cols=44 Identities=30% Similarity=0.647 Sum_probs=38.9
Q ss_pred eeEEEEeCceeeeeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHH
Q 039232 86 EFFVVRKGDLVGVYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEY 133 (165)
Q Consensus 86 KfYAVRKGr~~GIYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeey 133 (165)
|||||..|+.+|||++|+||++||.| +||+.||+|.|.+||++|
T Consensus 1 k~YaV~~G~~~GIy~~W~~~~~~v~g----~~ga~~k~F~t~~eA~~~ 44 (44)
T PF01693_consen 1 KYYAVFNGRQPGIYTSWAECKKQVSG----YPGAIYKSFKTREEAEEF 44 (44)
T ss_dssp -EEEEECSSS-EEECCHHHHHHHCTT-----TT-EEEEESSHHHHHHH
T ss_pred CEEEEEeCCCCCeECCHHHHHHHhCC----CCCceECCcCCHHHHhhC
Confidence 79999999999999999999999995 999999999999999987
No 2
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=99.67 E-value=3.3e-17 Score=138.15 Aligned_cols=48 Identities=29% Similarity=0.596 Sum_probs=45.8
Q ss_pred CeeEEEEeCceeeeeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHHHHh
Q 039232 85 DEFFVVRKGDLVGVYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEYLAS 136 (165)
Q Consensus 85 dKfYAVRKGr~~GIYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeeyL~s 136 (165)
++|||||+||++|||+||+||.+||.| +|||.||+|.+.+||++||.+
T Consensus 5 ~nyYaVk~GR~tGIyktW~Ec~~qVkG----y~ga~YKsf~s~EeA~a~~~g 52 (225)
T COG3341 5 KNYYAVKKGRKTGIYKTWDECEKQVKG----YPGAKYKSFKSYEEAEAYCEG 52 (225)
T ss_pred cceeEEecccccceeccHHHHHHHhcC----CCcccccccccHHHHHHHhcc
Confidence 349999999999999999999999996 999999999999999999985
No 3
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair]
Probab=98.90 E-value=9.3e-10 Score=98.56 Aligned_cols=52 Identities=21% Similarity=0.509 Sum_probs=48.7
Q ss_pred cccCCCeeEEEEeCceeeeeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHHHH
Q 039232 80 MKQGKDEFFVVRKGDLVGVYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEYLA 135 (165)
Q Consensus 80 m~~~kdKfYAVRKGr~~GIYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeeyL~ 135 (165)
|.....+||+|..|+..|||.||+||..||.| |++++||-|.+.+||..|+.
T Consensus 21 ~~r~~~~fyava~gr~~Gvy~tw~e~k~qv~~----y~~~~~kkf~t~~eA~sf~~ 72 (371)
T KOG3752|consen 21 LSRSTRKFYAVARGRKTGVYSTWDECKEQVDG----YGNARYKKFTTEEEAQSFVR 72 (371)
T ss_pred hcccccceeeeecccccccccchHHHHHHHhh----cCccchhccccHHHHHHHhc
Confidence 55667889999999999999999999999996 99999999999999999985
No 4
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=77.34 E-value=2.1 Score=28.40 Aligned_cols=32 Identities=16% Similarity=0.319 Sum_probs=28.1
Q ss_pred eccCCChhhHHHHHHhcCCCcceeeeeccccch
Q 039232 121 YKGNALPKGTEEYLASHGLKNALYTIRAADLTE 153 (165)
Q Consensus 121 YKgF~t~kEAeeyL~s~Gl~na~y~i~a~d~~~ 153 (165)
|-|+.+++|||+.|.. |..+-.|-||.++-.+
T Consensus 2 ~~g~isr~~Ae~~L~~-~~~~G~FLvR~s~~~~ 33 (77)
T PF00017_consen 2 FHGFISRQEAERLLMQ-GKPDGTFLVRPSSSKP 33 (77)
T ss_dssp BEESSHHHHHHHHHHT-TSSTTEEEEEEESSST
T ss_pred cCCCCCHHHHHHHHHh-cCCCCeEEEEeccccc
Confidence 6688999999999999 9999999999987543
No 5
>PF15138 Syncollin: Syncollin
Probab=76.92 E-value=2 Score=34.02 Aligned_cols=41 Identities=22% Similarity=0.510 Sum_probs=31.8
Q ss_pred EEEeeeeeccCccccccccccC--ccccccCCCeeEEEEeCceeeeeeChHHHH
Q 039232 55 TRFRLQCYSSSAKKPRSRKLKT--EPQMKQGKDEFFVVRKGDLVGVYKSFTECQ 106 (165)
Q Consensus 55 ~~~~~~cyss~sk~~~~~~~~~--~~~m~~~kdKfYAVRKGr~~GIYktWsDCQ 106 (165)
.|+.+.-+|-+-|.+++|+-++ ...++|-++ |||-+|+|--
T Consensus 63 ~RCeLtVWS~~gK~G~trkFsaG~~prL~e~r~-----------GiFg~WndaI 105 (112)
T PF15138_consen 63 PRCELTVWSRSGKGGKTRKFSAGTYPRLEEYRR-----------GIFGDWNDAI 105 (112)
T ss_pred CceEEEEEeccCCCCCcceecCCccccHHHHhc-----------ccccchhhhh
Confidence 3889999999999999998765 334655443 8999999853
No 6
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=65.81 E-value=5.7 Score=33.00 Aligned_cols=33 Identities=27% Similarity=0.288 Sum_probs=24.8
Q ss_pred CCCcceeccCCChhhHHHHHHhcCCCcceeeeecc
Q 039232 115 HPPVSVYKGNALPKGTEEYLASHGLKNALYTIRAA 149 (165)
Q Consensus 115 g~pgAvYKgF~t~kEAeeyL~s~Gl~na~y~i~a~ 149 (165)
|-|.|.|+-|.+.+||++||.+++... .+|-|.
T Consensus 14 ~IPTa~~~~f~~~~~A~~~l~~~~~p~--~ViKad 46 (194)
T PF01071_consen 14 GIPTAKYKVFTDYEEALEYLEEQGYPY--VVIKAD 46 (194)
T ss_dssp T-SB--EEEESSHHHHHHHHHHHSSSE--EEEEES
T ss_pred CCCCCCeeEECCHHHHHHHHHhcCCCc--eEEccC
Confidence 589999999999999999999997654 455544
No 7
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=64.24 E-value=9 Score=29.69 Aligned_cols=37 Identities=27% Similarity=0.298 Sum_probs=25.6
Q ss_pred CCCcceeccCCChhhHHHHHHhcCCCcceeeeeccccchhh
Q 039232 115 HPPVSVYKGNALPKGTEEYLASHGLKNALYTIRAADLTEDL 155 (165)
Q Consensus 115 g~pgAvYKgF~t~kEAeeyL~s~Gl~na~y~i~a~d~~~dl 155 (165)
|+-|.-.=.|.++++|++|...+|=+ .+...||.+||
T Consensus 112 ~pMg~~~~aF~~~~~A~~F~~~~GG~----v~~f~ev~~~~ 148 (149)
T PF05573_consen 112 GPMGPDLIAFASKEDAEAFAKEHGGK----VLTFDEVTEDL 148 (149)
T ss_dssp -TTS--EEEES-HHHHHHHHHHTEEE----EEEGGG--HHH
T ss_pred CCCCCcccccCCHHHHHHHHHHcCCE----EeeHHHCCHhh
Confidence 46677778899999999999999844 56677888776
No 8
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=64.12 E-value=5.3 Score=25.39 Aligned_cols=15 Identities=33% Similarity=0.357 Sum_probs=12.9
Q ss_pred ccCCChhhHHHHHHh
Q 039232 122 KGNALPKGTEEYLAS 136 (165)
Q Consensus 122 KgF~t~kEAeeyL~s 136 (165)
.||.|.+||++++..
T Consensus 22 ~GF~TkkeA~~~~~~ 36 (46)
T PF14657_consen 22 RGFKTKKEAEKALAK 36 (46)
T ss_pred CCCCcHHHHHHHHHH
Confidence 469999999999954
No 9
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=58.43 E-value=6.9 Score=25.25 Aligned_cols=41 Identities=15% Similarity=0.247 Sum_probs=29.8
Q ss_pred CCChhhHHHHHHhcCCCcceeeeec-cccchhh---hcC--CccccC
Q 039232 124 NALPKGTEEYLASHGLKNALYTIRA-ADLTEDL---FGS--LMPCTL 164 (165)
Q Consensus 124 F~t~kEAeeyL~s~Gl~na~y~i~a-~d~~~dl---fg~--L~PC~f 164 (165)
-+.-..|++||.++|+.-..+.|.. .++++++ .|. -+|+.|
T Consensus 10 Cp~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~~~~vP~v~ 56 (75)
T cd03418 10 CPYCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGGRRTVPQIF 56 (75)
T ss_pred ChHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCCCccCEEE
Confidence 3456789999999999888887765 3566665 354 588765
No 10
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=51.54 E-value=12 Score=37.50 Aligned_cols=34 Identities=24% Similarity=0.343 Sum_probs=27.7
Q ss_pred CCCcceeccCCChhhHHHHHHhcCCCcceeeeeccc
Q 039232 115 HPPVSVYKGNALPKGTEEYLASHGLKNALYTIRAAD 150 (165)
Q Consensus 115 g~pgAvYKgF~t~kEAeeyL~s~Gl~na~y~i~a~d 150 (165)
|-|-|.||.|++++||..|+.+++-++ .+|-|+-
T Consensus 120 ~IPTA~y~~ft~~e~a~sfi~~~~~~~--~ViKAdG 153 (788)
T KOG0237|consen 120 NIPTAKYKTFTDPEEAKSFIQSATDKA--LVIKADG 153 (788)
T ss_pred CCCcceeeeeCCHHHHHHHHHhCCCcc--eEEeecc
Confidence 689999999999999999999988654 4455543
No 11
>smart00252 SH2 Src homology 2 domains. Src homology 2 domains bind phosphotyrosine-containing polypeptides via 2 surface pockets. Specificity is provided via interaction with residues that are distinct from the phosphotyrosine. Only a single occurrence of a SH2 domain has been found in S. cerevisiae.
Probab=51.05 E-value=18 Score=24.23 Aligned_cols=30 Identities=20% Similarity=0.385 Sum_probs=24.9
Q ss_pred eeccCCChhhHHHHHHhcCCCcceeeeecccc
Q 039232 120 VYKGNALPKGTEEYLASHGLKNALYTIRAADL 151 (165)
Q Consensus 120 vYKgF~t~kEAeeyL~s~Gl~na~y~i~a~d~ 151 (165)
-|-|..+++|||+.|...+ +=.|-||.++-
T Consensus 3 w~~g~i~r~~Ae~lL~~~~--~G~FLvR~s~~ 32 (84)
T smart00252 3 WYHGFISREEAEKLLKNEG--DGDFLVRDSES 32 (84)
T ss_pred eecccCCHHHHHHHHhcCC--CcEEEEEcCCC
Confidence 3789999999999998865 66888888764
No 12
>PF05406 WGR: WGR domain; InterPro: IPR008893 This domain is named after the most conserved central motif of the domain. It is found in a variety of polyA polymerases as well as the Escherichia coli molybdate metabolism regulator P33345 from SWISSPROT and other proteins of unknown function.The domain is found in isolation in proteins such as Q9JN21 from SWISSPROT and is between 70 and 80 residues in length. ; PDB: 2EOC_A 2RA8_A 4DQY_C 2CR9_A.
Probab=50.54 E-value=14 Score=25.68 Aligned_cols=48 Identities=8% Similarity=0.066 Sum_probs=37.1
Q ss_pred cccCCCeeEEEEeCc--eeeeeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHHHH
Q 039232 80 MKQGKDEFFVVRKGD--LVGVYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEYLA 135 (165)
Q Consensus 80 m~~~kdKfYAVRKGr--~~GIYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeeyL~ 135 (165)
.+...++||.|.-.. ..-|+..| |.|...+...-+.|.+.+||.+.+.
T Consensus 14 ~~~n~~kfY~iql~~~~~~~v~~~w--------GRiG~~gq~~~~~f~s~~eA~~~f~ 63 (81)
T PF05406_consen 14 PEKNSNKFYRIQLLPDLEWVVFRRW--------GRIGSKGQTRIKPFDSEEEAIKEFE 63 (81)
T ss_dssp TTTTEEEEEEEEEEEETTEEEEEEE--------EETTSSEEEEEEEESSHHHHHHHHH
T ss_pred cCCCcEEEEEEEEEeCCCeEEEEEE--------CCCCCcCcEEEEeCCCHHHHHHHHH
Confidence 455668999998742 25677888 6666677888899999999998874
No 13
>PF11964 SpoIIAA-like: SpoIIAA-like; InterPro: IPR021866 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 120 to 132 amino acids in length. This protein has a single completely conserved residue A that may be functionally important. ; PDB: 2Q3L_B 2OOK_A 3BL4_A.
Probab=50.05 E-value=7 Score=26.99 Aligned_cols=33 Identities=9% Similarity=-0.038 Sum_probs=26.1
Q ss_pred eChHHHHHHhcCcCCCCCcceeccC--CChhhHHHHHH
Q 039232 100 KSFTECQAQLGSSICHPPVSVYKGN--ALPKGTEEYLA 135 (165)
Q Consensus 100 ktWsDCQaQV~gsv~g~pgAvYKgF--~t~kEAeeyL~ 135 (165)
..|......+-+ .+++...|-| .+++||.+||.
T Consensus 74 ~~~~~~~~~~~~---~~~~~~~~~F~~~~~~~A~~WL~ 108 (109)
T PF11964_consen 74 SEWIRMIANFFA---AFPPIEVRYFPPDEEEEALAWLR 108 (109)
T ss_dssp SCCCHHHHHHHH---HH-SSEEEEE--SSHHHHHHHHC
T ss_pred cHHHHHHHHHHH---hcCCCceEEECCCCHHHHHHHHc
Confidence 668888776654 2478899999 99999999996
No 14
>cd03413 CbiK_C Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases, and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=47.63 E-value=17 Score=26.73 Aligned_cols=36 Identities=19% Similarity=0.265 Sum_probs=32.6
Q ss_pred cCCChhhHHHHHHhcCCCc----ceeeeeccccchhhhcC
Q 039232 123 GNALPKGTEEYLASHGLKN----ALYTIRAADLTEDLFGS 158 (165)
Q Consensus 123 gF~t~kEAeeyL~s~Gl~n----a~y~i~a~d~~~dlfg~ 158 (165)
+.++.+|+-+-|...|.++ |++.+...++++||.|.
T Consensus 40 ~~P~i~~~l~~l~~~G~~~i~lvPl~L~~G~H~~~Dipge 79 (103)
T cd03413 40 GYPGLDDVLAKLKKAGIKKVTLMPLMLVAGDHAHNDMAGD 79 (103)
T ss_pred CCCCHHHHHHHHHHcCCCEEEEEehhheecccchhcCCCC
Confidence 6788999999999999997 88999999999999885
No 15
>smart00441 FF Contains two conserved F residues. A novel motif that often accompanies WW domains. Often contains two conserved Phe (F) residues.
Probab=44.33 E-value=21 Score=22.58 Aligned_cols=33 Identities=15% Similarity=0.201 Sum_probs=27.2
Q ss_pred eeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHHHHh
Q 039232 98 VYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEYLAS 136 (165)
Q Consensus 98 IYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeeyL~s 136 (165)
-+.+|++.+..+.+ ...|+......+.++.+..
T Consensus 19 ~~~~W~~~~~~~~~------d~ry~~l~~~~~r~~lF~~ 51 (55)
T smart00441 19 PDTTWSEARKKLKN------DPRYKALLSESEREQLFED 51 (55)
T ss_pred CCCcHHHHHHHHhc------ChHHHHhcChHHHHHHHHH
Confidence 57999999999987 7789888888888776654
No 16
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=40.58 E-value=15 Score=29.78 Aligned_cols=39 Identities=23% Similarity=0.155 Sum_probs=31.7
Q ss_pred CChhhHHHHHHhcCCCcceeeee----ccccchhhhcCCcccc
Q 039232 125 ALPKGTEEYLASHGLKNALYTIR----AADLTEDLFGSLMPCT 163 (165)
Q Consensus 125 ~t~kEAeeyL~s~Gl~na~y~i~----a~d~~~dlfg~L~PC~ 163 (165)
.+.++.++.|.+.|+.||...|+ ..|+.|-+||..+-+|
T Consensus 136 ~~~~~v~~~l~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~y~p 178 (233)
T cd01896 136 LDEKTIKAILREYKIHNADVLIREDITVDDLIDVIEGNRVYIP 178 (233)
T ss_pred CCHHHHHHHHHHhCeeeEEEEEccCCCHHHHHHHHhCCceEee
Confidence 37899999999999999999885 5678888898774433
No 17
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=38.84 E-value=23 Score=27.68 Aligned_cols=30 Identities=27% Similarity=0.376 Sum_probs=25.4
Q ss_pred hhHHHHHHhcCCCcceeeeeccccchhhhcCC
Q 039232 128 KGTEEYLASHGLKNALYTIRAADLTEDLFGSL 159 (165)
Q Consensus 128 kEAeeyL~s~Gl~na~y~i~a~d~~~dlfg~L 159 (165)
.|-.+-|..+|++| |||--.+-.+.|||-+
T Consensus 27 PE~~a~lk~agi~n--YSIfLde~~n~lFgy~ 56 (105)
T COG3254 27 PELLALLKEAGIRN--YSIFLDEEENLLFGYW 56 (105)
T ss_pred HHHHHHHHHcCCce--eEEEecCCcccEEEEE
Confidence 35667789999999 9999999999999853
No 18
>PF03243 MerB: Alkylmercury lyase; InterPro: IPR004927 Mercury is a highly toxic metal. Toxicity can result from three different mercurial forms: elemental, inorganic ion and organomercurial compounds. The ability of bacteria to detoxify mercurial compounds by reduction and volatilisation is conferred by the Mer genes, which are usually plasmid encoded (although chromosome resistance determinants have also occasionally been identified) []. Organomercurial lyase (MerB), also known as alkylmercury lyase, mediates the first of the two steps in the microbial detoxification of organomercurial salts (the other catalysed by mercuric reductase). Organomercurial lyase catalyses the protonolysis of the C-Hg bond in a wide range of organomercurial salts (primary, secondary, tertiary, alkyl, vinyl, allyl and aryl) to Hg(II) and the respective organic compound []: RHg(+) + H(+) = RH + Hg(2+) Hg(II) is subsequently detoxified by mercuric reductase. The enzyme has been purified to homogeneity in Escherichia coli and has been found to be a 22.4kDa monomer with no detectable cofactors or metal ions.; GO: 0018836 alkylmercury lyase activity, 0046413 organomercury catabolic process; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=37.87 E-value=19 Score=27.42 Aligned_cols=34 Identities=26% Similarity=0.410 Sum_probs=23.5
Q ss_pred CCChhhHHHHHHhcCCCcceeeeecc---ccchhhhcC
Q 039232 124 NALPKGTEEYLASHGLKNALYTIRAA---DLTEDLFGS 158 (165)
Q Consensus 124 F~t~kEAeeyL~s~Gl~na~y~i~a~---d~~~dlfg~ 158 (165)
|.++++|++|+..|+ .-..+.+..+ +|-.+|||.
T Consensus 90 F~s~~~a~~W~~~~p-~~~g~il~v~ea~~l~~~~~~~ 126 (127)
T PF03243_consen 90 FASEEAAEAWLAEHP-DEGGQILSVEEAFELARALFGA 126 (127)
T ss_dssp ESSHHHHHHHHHTTT-STT-EEEEHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHCC-CCCeEEEeHHHHHHHHHHHHhc
Confidence 889999999999999 4445555544 344555554
No 19
>cd00173 SH2 Src homology 2 domains; Signal transduction, involved in recognition of phosphorylated tyrosine (pTyr). SH2 domains typically bind pTyr-containing ligands via two surface pockets, a pTyr and hydrophobic binding pocket, allowing proteins with SH2 domains to localize to tyrosine phosphorylated sites.
Probab=36.64 E-value=40 Score=22.55 Aligned_cols=29 Identities=21% Similarity=0.391 Sum_probs=23.8
Q ss_pred eccCCChhhHHHHHHhcCCCcceeeeecccc
Q 039232 121 YKGNALPKGTEEYLASHGLKNALYTIRAADL 151 (165)
Q Consensus 121 YKgF~t~kEAeeyL~s~Gl~na~y~i~a~d~ 151 (165)
|-|..+++|||+-|.. ..+=.|-||.++-
T Consensus 3 ~~g~i~r~~Ae~~L~~--~~~G~FLiR~s~~ 31 (94)
T cd00173 3 YHGPISREEAEELLKK--KPDGTFLVRDSES 31 (94)
T ss_pred cccCCCHHHHHHHHhc--CCCceEEEEecCC
Confidence 7789999999999986 4566788888763
No 20
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=36.31 E-value=31 Score=21.24 Aligned_cols=26 Identities=19% Similarity=0.378 Sum_probs=18.1
Q ss_pred hhhHHHHHHhcCCCcceeeeeccccchhhh
Q 039232 127 PKGTEEYLASHGLKNALYTIRAADLTEDLF 156 (165)
Q Consensus 127 ~kEAeeyL~s~Gl~na~y~i~a~d~~~dlf 156 (165)
..+-++||.+||+.-+-=. .=||+|.
T Consensus 6 ~~~L~~wL~~~gi~~~~~~----~~rd~Ll 31 (38)
T PF10281_consen 6 DSDLKSWLKSHGIPVPKSA----KTRDELL 31 (38)
T ss_pred HHHHHHHHHHcCCCCCCCC----CCHHHHH
Confidence 3678999999999865322 3466654
No 21
>KOG0235 consensus Phosphoglycerate mutase [Carbohydrate transport and metabolism]
Probab=34.67 E-value=27 Score=29.68 Aligned_cols=69 Identities=17% Similarity=0.315 Sum_probs=44.1
Q ss_pred cCCCeeEEEEeCcee----eeeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHHHHhcCCCccee-------------
Q 039232 82 QGKDEFFVVRKGDLV----GVYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEYLASHGLKNALY------------- 144 (165)
Q Consensus 82 ~~kdKfYAVRKGr~~----GIYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeeyL~s~Gl~na~y------------- 144 (165)
....+...||.|+-. |||..|-|-. +. =||+.-.+-+.++|...++..+.+
T Consensus 3 ~~~~~lvlvRHGes~wN~e~~~~G~~D~~--Lt----------e~G~~qA~~~~~~l~~~~~~~~~~~tS~l~RakqT~~ 70 (214)
T KOG0235|consen 3 SNTFRLVLVRHGESEWNKENIFQGWIDAP--LT----------EKGEEQAKAAAQRLKDLNIEFDVCYTSDLKRAKQTAE 70 (214)
T ss_pred CcceEEEEEecCchhhhhhCcccccccCc--cC----------hhhHHHHHHHHHHHHhcCCcccEEecCHHHHHHHHHH
Confidence 345678999999964 8888887751 11 034444455555666666665555
Q ss_pred ------------eeeccccchhhhcCCccc
Q 039232 145 ------------TIRAADLTEDLFGSLMPC 162 (165)
Q Consensus 145 ------------~i~a~d~~~dlfg~L~PC 162 (165)
++..-+|+|..+|.|-=+
T Consensus 71 ~il~~~~~~~~pv~~~~~L~ER~yG~l~Gl 100 (214)
T KOG0235|consen 71 LILEELKQKKVPVLYTWRLNERHYGDLQGL 100 (214)
T ss_pred HHHHhhccCCcceEechhhchhhhccccCc
Confidence 456677888888877533
No 22
>PF08063 PADR1: PADR1 (NUC008) domain; InterPro: IPR012982 This domain is found in poly(ADP-ribose)-synthetases []. The function of this domain is unknown.; GO: 0003950 NAD+ ADP-ribosyltransferase activity, 0005634 nucleus; PDB: 2JVN_A 4DQY_E 2RIQ_A.
Probab=33.98 E-value=13 Score=25.35 Aligned_cols=9 Identities=67% Similarity=1.475 Sum_probs=5.6
Q ss_pred hhcCCcccc
Q 039232 155 LFGSLMPCT 163 (165)
Q Consensus 155 lfg~L~PC~ 163 (165)
+||.|-|||
T Consensus 10 ~fGal~~Cp 18 (55)
T PF08063_consen 10 LFGALEPCP 18 (55)
T ss_dssp HHTEE---S
T ss_pred HhcCCCCCC
Confidence 799999998
No 23
>PF01846 FF: FF domain; InterPro: IPR002713 The FF domain may be involved in protein-protein interaction []. It often occurs as multiple copies and often accompanies WW domains IPR001202 from INTERPRO. PRP40 from yeast encodes a novel, essential splicing component that associates with the yeast U1 small nuclear ribonucleoprotein particle [].; PDB: 3HFH_B 2KIS_A 2DOD_A 2JUC_A 2LKS_A 1UZC_A 2KZG_A 2L9V_A 2DOF_A 2KFD_A ....
Probab=32.93 E-value=44 Score=20.94 Aligned_cols=33 Identities=21% Similarity=0.301 Sum_probs=26.2
Q ss_pred eeeChHHHHHHhcCcCCCCCcceeccC-CChhhHHHHHHh
Q 039232 98 VYKSFTECQAQLGSSICHPPVSVYKGN-ALPKGTEEYLAS 136 (165)
Q Consensus 98 IYktWsDCQaQV~gsv~g~pgAvYKgF-~t~kEAeeyL~s 136 (165)
-+.+|++++..+.+ -..|+.- .+..+.++.+..
T Consensus 17 ~~s~W~~~~~~l~~------dpry~~i~~~~~~R~~lF~e 50 (51)
T PF01846_consen 17 PYSSWEEVKPKLSK------DPRYKAIGDSESERESLFEE 50 (51)
T ss_dssp TTSSHHHHHHHHTT------SCHHHHSTSCHHHHHHHHHH
T ss_pred CCCcHHHHHHHHcc------CHHHHHhcCCHHHHHHHHHh
Confidence 45799999999987 6788888 777777776654
No 24
>smart00773 WGR Proposed nucleic acid binding domain. This domain is named after its most conserved central motif. It is found in a variety of polyA polymerases as well as in molybdate metabolism regulators (e.g. in E.coli) and other proteins of unknown function. The domain is found in isolation in some proteins and is between 70 and 80 residues in length. It is proposed that it may be a nucleic acid binding domain.
Probab=31.49 E-value=1.4e+02 Score=20.74 Aligned_cols=44 Identities=9% Similarity=0.191 Sum_probs=31.1
Q ss_pred CCCeeEEEEe-----CceeeeeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHHHH
Q 039232 83 GKDEFFVVRK-----GDLVGVYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEYLA 135 (165)
Q Consensus 83 ~kdKfYAVRK-----Gr~~GIYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeeyL~ 135 (165)
..++||.|.- |+ -.|+..|- -|..-....-+.|.+.+||..-+.
T Consensus 18 n~nkfy~iql~~~~~~~-~~v~~~wG--------RiG~~g~~~~~~~~s~~~A~~~f~ 66 (84)
T smart00773 18 NNNKFYRIQLLEDDFGG-YSVWRRWG--------RIGTNGQTKLETFDSLEDAIKEFE 66 (84)
T ss_pred CCeeEEEEEEEEcCCCC-EEEEEEee--------ecCCCCceeeEcCCCHHHHHHHHH
Confidence 3488999875 43 67778883 333345677788999999987764
No 25
>cd07996 WGR_MMR_like WGR domain of molybdate metabolism regulator and related proteins. The WGR domain is found in the putative Escherichia coli molybdate metabolism regulator and related bacterial proteins, as well as in various other bacterial proteins of unknown function. It has been called WGR after the most conserved central motif of the domain. The domain appears to occur in single-domain proteins and in a variety of domain architectures, together with ATP-dependent DNA ligase domains, WD40 repeats, leucine-rich repeats, and other domains. It has been proposed to function as a nucleic acid binding domain.
Probab=30.01 E-value=1.6e+02 Score=19.67 Aligned_cols=45 Identities=9% Similarity=0.008 Sum_probs=33.3
Q ss_pred CCCeeEEEEeCce----eeeeeChHHHHHHhcCcCCCCCcceeccCCChhhHHHHHH
Q 039232 83 GKDEFFVVRKGDL----VGVYKSFTECQAQLGSSICHPPVSVYKGNALPKGTEEYLA 135 (165)
Q Consensus 83 ~kdKfYAVRKGr~----~GIYktWsDCQaQV~gsv~g~pgAvYKgF~t~kEAeeyL~ 135 (165)
..++||.|.--+. .-+...| |-|.......=+.|.+.+||+..+.
T Consensus 12 n~~kfy~i~l~~~lfg~~~v~~~w--------GRiG~~Gq~~~~~~~s~~~A~~~~~ 60 (74)
T cd07996 12 NSARFYEIELEGDLFGEWSLVRRW--------GRIGTKGQSRTKTFDSEEEALKAAE 60 (74)
T ss_pred CCCcEEEEEEcccCCCCEEEEEEE--------CCCCCCCceEEEECCCHHHHHHHHH
Confidence 5688998875543 4566778 5555566777889999999998874
No 26
>PF12558 DUF3744: ATP-binding cassette cobalt transporter; InterPro: IPR022216 This domain family is found in bacteria, and is approximately 70 amino acids in length. The family is found in association with PF00005 from PFAM. There is a conserved REP sequence motif. There is a single completely conserved residue P that may be functionally important. The proteins in this family are frequently annotated as ABC Cobalt transporters however there is little accompanying literature to confirm this. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances
Probab=28.64 E-value=21 Score=25.06 Aligned_cols=14 Identities=29% Similarity=0.776 Sum_probs=12.1
Q ss_pred HHHHhcCCCcceee
Q 039232 132 EYLASHGLKNALYT 145 (165)
Q Consensus 132 eyL~s~Gl~na~y~ 145 (165)
+-|..+|||-|||.
T Consensus 3 ~lL~~~GIREPLYi 16 (74)
T PF12558_consen 3 DLLEQNGIREPLYI 16 (74)
T ss_pred chHhhcCCCccHHH
Confidence 46899999999994
No 27
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=26.61 E-value=71 Score=30.20 Aligned_cols=26 Identities=19% Similarity=0.357 Sum_probs=23.6
Q ss_pred CCCcceeccCCChhhHHHHHHhcCCC
Q 039232 115 HPPVSVYKGNALPKGTEEYLASHGLK 140 (165)
Q Consensus 115 g~pgAvYKgF~t~kEAeeyL~s~Gl~ 140 (165)
|-|-+.|+-|.+.+||.+|+...|-.
T Consensus 115 ~IPta~y~~f~~~e~a~ayi~~~g~p 140 (428)
T COG0151 115 GIPTAEYEVFTDPEEAKAYIDEKGAP 140 (428)
T ss_pred CCCcccccccCCHHHHHHHHHHcCCC
Confidence 57899999999999999999998864
No 28
>PF09260 DUF1966: Domain of unknown function (DUF1966); InterPro: IPR015340 Alpha-amylase is classified as family 13 of the glycosyl hydrolases and is present in archaea, bacteria, plants and animals. Alpha-amylase is an essential enzyme in alpha-glucan metabolism, acting to catalyse the hydrolysis of alpha-1,4-glucosidic bonds of glycogen, starch and related polysaccharides. Although all alpha-amylases possess the same catalytic function, they can vary with respect to sequence. In general, they are composed of three domains: a TIM barrel containing the active site residues and chloride ion-binding site (domain A), a long loop region inserted between the third beta strand and the alpha-helix of domain A that contains calcium-binding site(s) (domain B), and a C-terminal beta-sheet domain that appears to show some variability in sequence and length between amylases (domain C) []. Amylases have at least one conserved calcium-binding site, as calcium is essential for the stability of the enzyme. The chloride-binding functions to activate the enzyme, which acts by a two-step mechanism involving a catalytic nucleophile base (usually an Asp) and a catalytic proton donor (usually a Glu) that are responsible for the formation of the beta-linked glycosyl-enzyme intermediate. This domain is found in various fungal alpha-amylase proteins. Its exact function has not, as yet, been defined []. ; GO: 0004556 alpha-amylase activity, 0005509 calcium ion binding, 0016052 carbohydrate catabolic process; PDB: 2AAA_A 2GUY_A 2TAA_B 6TAA_A 2GVY_B 7TAA_A 3KWX_A.
Probab=25.74 E-value=60 Score=23.85 Aligned_cols=20 Identities=25% Similarity=0.338 Sum_probs=15.8
Q ss_pred CeeEEEEeCc----eeeeeeChHH
Q 039232 85 DEFFVVRKGD----LVGVYKSFTE 104 (165)
Q Consensus 85 dKfYAVRKGr----~~GIYktWsD 104 (165)
|-.||+|||. ++.++.+.-.
T Consensus 6 ~~~~a~rKG~~g~qvi~vltN~Gs 29 (91)
T PF09260_consen 6 DSTIAFRKGPDGSQVIVVLTNQGS 29 (91)
T ss_dssp TTEEEEEESSTTT-EEEEEE-S-T
T ss_pred CcEEEEEeCCCCCEEEEEEeCCCc
Confidence 4589999999 9999998754
No 29
>PRK00509 argininosuccinate synthase; Provisional
Probab=21.87 E-value=80 Score=28.99 Aligned_cols=26 Identities=23% Similarity=0.287 Sum_probs=21.6
Q ss_pred cCCChhhHHHHHHhcCCCcc-----eeeeec
Q 039232 123 GNALPKGTEEYLASHGLKNA-----LYTIRA 148 (165)
Q Consensus 123 gF~t~kEAeeyL~s~Gl~na-----~y~i~a 148 (165)
+|.+++|-.+|+..+||..+ -|||+.
T Consensus 148 ~~~tK~eir~~A~~~Gipv~~~~~~~yS~d~ 178 (399)
T PRK00509 148 DLKSREELIAYAEEHGIPIPVTKKSPYSIDA 178 (399)
T ss_pred CCCCHHHHHHHHHHcCCCCCCCCCCCCcccc
Confidence 46699999999999999875 388764
No 30
>PF12286 DUF3622: Protein of unknown function (DUF3622); InterPro: IPR022069 This family of proteins is found in bacteria. Proteins in this family are typically between 72 and 107 amino acids in length. There is a conserved VSK sequence motif.
Probab=21.85 E-value=54 Score=24.22 Aligned_cols=13 Identities=15% Similarity=0.120 Sum_probs=11.9
Q ss_pred ccCCChhhHHHHH
Q 039232 122 KGNALPKGTEEYL 134 (165)
Q Consensus 122 KgF~t~kEAeeyL 134 (165)
.||.+.+||++|-
T Consensus 38 ~GF~SEaeAq~W~ 50 (71)
T PF12286_consen 38 DGFASEAEAQAWG 50 (71)
T ss_pred cCcccHHHHHHHH
Confidence 6999999999985
No 31
>PRK10638 glutaredoxin 3; Provisional
Probab=21.15 E-value=48 Score=22.38 Aligned_cols=30 Identities=17% Similarity=0.213 Sum_probs=21.7
Q ss_pred ChhhHHHHHHhcCCCcceeeeeccc-cchhh
Q 039232 126 LPKGTEEYLASHGLKNALYTIRAAD-LTEDL 155 (165)
Q Consensus 126 t~kEAeeyL~s~Gl~na~y~i~a~d-~~~dl 155 (165)
.-..|.++|..+|+.-....|+..+ .++++
T Consensus 14 ~C~~a~~~L~~~gi~y~~~dv~~~~~~~~~l 44 (83)
T PRK10638 14 FCHRAKALLNSKGVSFQEIPIDGDAAKREEM 44 (83)
T ss_pred hHHHHHHHHHHcCCCcEEEECCCCHHHHHHH
Confidence 3467999999999987777775443 55553
No 32
>cd07994 WGR WGR domain. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs) as well as the putative Escherichia coli molybdate metabolism regulator and related bacterial proteins, a small family of bacterial DNA ligases, and various other bacterial proteins of unknown function. It has been called WGR after the most conserved central motif of the domain. The domain occurs in single-domain proteins and in a variety of domain architectures, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain.
Probab=20.66 E-value=2.1e+02 Score=19.82 Aligned_cols=46 Identities=11% Similarity=0.221 Sum_probs=31.9
Q ss_pred ccCCCeeEEEEe-----CceeeeeeChHHHHHHhcCcCCC-CCcceeccCCChhhHHHHH
Q 039232 81 KQGKDEFFVVRK-----GDLVGVYKSFTECQAQLGSSICH-PPVSVYKGNALPKGTEEYL 134 (165)
Q Consensus 81 ~~~kdKfYAVRK-----Gr~~GIYktWsDCQaQV~gsv~g-~pgAvYKgF~t~kEAeeyL 134 (165)
|...+|||.|.- ++.--++..| |-|.. -....-++|.+.++|+.=+
T Consensus 8 d~~~nKFy~iql~~~~~~~~~~v~~~W--------GRiGt~~Gq~~~~~~~s~~~A~~~f 59 (73)
T cd07994 8 DIGSNKYYKLQLLEDDKENRYWVFRSY--------GRVGTVIGSTKLEQMPSKEEAEEHF 59 (73)
T ss_pred ECCCceEEEEEEEeccCCCcEEEEEEE--------CCccCcCCceeeEcCCCHHHHHHHH
Confidence 446789998653 2346778888 54544 3466778899999997655
No 33
>PF08803 ydhR: Putative mono-oxygenase ydhR; InterPro: IPR014910 YdhR is a homodimeric protein that comprises of a central four-stranded beta sheet and four surrounding alpha helices []. It shows structural homology to the ActVA-Orf6 and YgiN proteins which indicates it could be a mono-oxygenase. ; PDB: 1WD6_B 2HIQ_B 2ASY_B.
Probab=20.45 E-value=18 Score=27.67 Aligned_cols=40 Identities=18% Similarity=0.275 Sum_probs=23.9
Q ss_pred CCcceeccCCChhhHHHHHHhcCCCcceeeeeccccchhhhcC
Q 039232 116 PPVSVYKGNALPKGTEEYLASHGLKNALYTIRAADLTEDLFGS 158 (165)
Q Consensus 116 ~pgAvYKgF~t~kEAeeyL~s~Gl~na~y~i~a~d~~~dlfg~ 158 (165)
-.|-+|= |.+++.|++||..|-- -|=.+-..+++-.+|+-
T Consensus 46 eaGGiYL-Fe~e~~A~aY~~~h~a--Rl~~~Gv~~i~~kiFdv 85 (97)
T PF08803_consen 46 EAGGIYL-FEDEASAEAYLEMHTA--RLAAFGVTEIRGKIFDV 85 (97)
T ss_dssp EEEEEEE-ESSHHHHHHHHHHHHH--HHGGGTSS--EEEEEEE
T ss_pred ccceEEE-ECCHHHHHHHHHHHHH--HHHhcCccceEEEEEec
Confidence 3455664 8999999999987722 22233455666655553
No 34
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=20.36 E-value=81 Score=20.69 Aligned_cols=23 Identities=26% Similarity=0.212 Sum_probs=15.7
Q ss_pred ChhhHHHHHHhcCCCcceeeeec
Q 039232 126 LPKGTEEYLASHGLKNALYTIRA 148 (165)
Q Consensus 126 t~kEAeeyL~s~Gl~na~y~i~a 148 (165)
.-..|++||..+|+.--..-|..
T Consensus 11 ~C~~ak~~L~~~~i~~~~~di~~ 33 (72)
T TIGR02194 11 QCKMTKKALEEHGIAFEEINIDE 33 (72)
T ss_pred HHHHHHHHHHHCCCceEEEECCC
Confidence 34578888888888655555543
No 35
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=20.30 E-value=65 Score=20.26 Aligned_cols=29 Identities=21% Similarity=0.365 Sum_probs=20.8
Q ss_pred hhhHHHHHHhcCCCcceeeeecc-ccchhh
Q 039232 127 PKGTEEYLASHGLKNALYTIRAA-DLTEDL 155 (165)
Q Consensus 127 ~kEAeeyL~s~Gl~na~y~i~a~-d~~~dl 155 (165)
=+.|+++|.++|+.=-.+.|... +++++|
T Consensus 12 C~~~~~~L~~~~i~y~~~dv~~~~~~~~~l 41 (60)
T PF00462_consen 12 CKKAKEFLDEKGIPYEEVDVDEDEEAREEL 41 (60)
T ss_dssp HHHHHHHHHHTTBEEEEEEGGGSHHHHHHH
T ss_pred HHHHHHHHHHcCCeeeEcccccchhHHHHH
Confidence 35689999999988666666655 555555
Done!