Query 026307
Match_columns 240
No_of_seqs 107 out of 131
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 06:19:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026307.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026307hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02058 lin0512_fam conserve 100.0 1.4E-56 3.1E-61 361.3 11.9 115 121-239 1-116 (116)
2 PF09585 Lin0512_fam: Conserve 100.0 3.4E-56 7.4E-61 357.5 11.3 113 121-239 1-113 (113)
3 PF02682 AHS1: Allophanate hyd 67.6 6.5 0.00014 34.2 3.5 61 121-195 9-69 (202)
4 PF05681 Fumerase: Fumarate hy 59.1 16 0.00034 33.8 4.5 38 116-154 59-96 (271)
5 PF11876 DUF3396: Protein of u 55.6 13 0.00028 32.6 3.2 39 188-228 123-161 (208)
6 smart00463 SMR Small MutS-rela 50.6 15 0.00033 26.5 2.5 22 131-153 4-25 (80)
7 PF01713 Smr: Smr domain; Int 49.9 15 0.00032 26.7 2.3 22 131-153 1-22 (83)
8 TIGR01659 sex-lethal sex-letha 47.1 45 0.00097 31.3 5.5 26 183-208 201-227 (346)
9 cd06479 ACD_HspB7_like Alpha c 44.5 14 0.0003 28.0 1.5 23 183-206 56-79 (81)
10 PF08502 LeuA_dimer: LeuA allo 44.0 23 0.0005 28.2 2.8 23 127-152 109-131 (133)
11 smart00796 AHS1 Allophanate hy 39.9 70 0.0015 27.9 5.3 60 121-194 9-68 (201)
12 cd06498 ACD_alphaB-crystallin_ 39.9 19 0.00042 27.1 1.6 23 183-206 58-81 (84)
13 cd00853 NifX NifX belongs to a 39.7 23 0.00049 26.7 2.0 20 6-25 11-32 (102)
14 PF07551 DUF1534: Protein of u 39.4 12 0.00027 27.1 0.5 14 144-157 10-23 (48)
15 PF02579 Nitro_FeMo-Co: Dinitr 39.1 29 0.00064 24.8 2.4 19 6-24 4-24 (94)
16 PLN03134 glycine-rich RNA-bind 37.6 36 0.00078 27.8 3.0 26 183-208 42-68 (144)
17 cd06478 ACD_HspB4-5-6 Alpha-cr 36.7 21 0.00046 26.6 1.4 23 183-206 58-81 (83)
18 cd06497 ACD_alphaA-crystallin_ 35.7 23 0.00051 26.6 1.5 23 183-206 61-84 (86)
19 cd00562 NifX_NifB This CD repr 35.3 26 0.00056 25.4 1.7 19 6-24 11-31 (102)
20 PF05697 Trigger_N: Bacterial 33.5 36 0.00079 27.2 2.4 29 133-161 19-47 (145)
21 cd06481 ACD_HspB9_like Alpha c 31.5 27 0.00059 26.3 1.3 23 183-206 62-85 (87)
22 cd00852 NifB NifB belongs to a 29.9 38 0.00082 25.6 1.8 19 6-24 11-31 (106)
23 PRK06246 fumarate hydratase; P 27.0 1E+02 0.0022 28.8 4.5 38 116-153 67-104 (280)
24 PF13742 tRNA_anti_2: OB-fold 25.6 42 0.0009 25.9 1.4 36 2-38 28-63 (99)
25 TIGR02663 nifX nitrogen fixati 25.6 52 0.0011 25.8 2.0 24 137-160 94-117 (119)
26 cd06475 ACD_HspB1_like Alpha c 25.1 48 0.001 25.0 1.6 23 183-206 61-84 (86)
27 PF00076 RRM_1: RNA recognitio 24.9 66 0.0014 20.9 2.1 27 183-209 6-33 (70)
28 PLN02862 2-C-methyl-D-erythrit 24.9 48 0.001 30.3 1.9 12 125-136 60-71 (216)
29 PF00011 HSP20: Hsp20/alpha cr 24.8 43 0.00093 24.7 1.3 26 183-209 63-88 (102)
30 PF02772 S-AdoMet_synt_M: S-ad 24.7 60 0.0013 26.9 2.2 18 22-39 2-19 (120)
31 cd06476 ACD_HspB2_like Alpha c 24.4 44 0.00095 25.2 1.3 23 183-206 58-81 (83)
32 PF06169 DUF982: Protein of un 24.1 54 0.0012 24.4 1.7 16 138-153 38-53 (76)
33 PRK14866 hypothetical protein; 22.4 70 0.0015 31.9 2.6 120 32-151 48-179 (451)
34 PF08683 CAMSAP_CKK: Microtubu 21.7 59 0.0013 27.0 1.7 20 139-158 10-29 (123)
35 PLN02541 uracil phosphoribosyl 21.7 1.8E+02 0.0039 26.5 4.8 57 165-229 184-240 (244)
36 PRK08230 tartrate dehydratase 21.6 1.5E+02 0.0032 28.3 4.4 37 116-153 68-104 (299)
37 TIGR00722 ttdA_fumA_fumB hydro 21.4 1.5E+02 0.0033 27.7 4.4 39 116-155 59-97 (273)
38 PRK15389 fumarate hydratase; P 20.8 1.5E+02 0.0032 30.4 4.5 37 116-153 105-141 (536)
39 cd01434 EFG_mtEFG1_IV EFG_mtEF 20.3 1.6E+02 0.0034 22.7 3.6 38 136-181 54-91 (116)
No 1
>TIGR02058 lin0512_fam conserved hypothetical protein. This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N-terminus.
Probab=100.00 E-value=1.4e-56 Score=361.30 Aligned_cols=115 Identities=56% Similarity=0.882 Sum_probs=108.8
Q ss_pred eEEEEEeeccccCCCCCHHHHHHHHHHhHHhhCCccccccCccCCCCCCCeEEEEEEeecCCCc-ccccHHHHhhhcCCC
Q 026307 121 KLLFVEMGVGYDQHGQDVTAAAMRACRDAISSNSIPAFRRGSIPGVSFEQMKLLIKLGVPHSLQ-QLLDIERVKSVFPYG 199 (240)
Q Consensus 121 KRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hNSIp~~~~~~IpG~d~~~MkV~VkIGVP~~~P-e~VD~eaVkavfPYG 199 (240)
||||||||||+|||||||||||+|||||||||||||++++ .+++.++++|+|+|+||||+ | |+||+|+|+++||||
T Consensus 1 krl~iEmGmG~DlhGqD~TkAA~RAvrDAI~hnsipg~~~-~~~~~~~~~M~v~V~igVp~--p~e~vD~e~v~~~~PyG 77 (116)
T TIGR02058 1 KILFIEMGMGVDQHGQNITKAAMRAVRNAIASNSMPGIWE-SLPDSSLNEMIVEVKLAVPY--DLDQLDEDKVKAIIPYG 77 (116)
T ss_pred CeEEEEecccccccCccHHHHHHHHHHHHHhhccchhHHH-hcCCCChhheEEEEEEECCC--chHhcCHHHHHHhCCCC
Confidence 7999999999999999999999999999999999998885 44443459999999999999 8 999999999999999
Q ss_pred ceeeEEEEcCCcccccCceeccCCCCCCcEEEEEEEEEEe
Q 026307 200 KILDVEVVDGGLICSSGVHVAELGDKNDDCYIVNAAVYVG 239 (240)
Q Consensus 200 ~v~tVeVV~GGL~v~sGI~ipe~GDknD~~vIAnAAV~Vg 239 (240)
++ +|+|++|||+++|||+||++||+||+||||||||+||
T Consensus 78 ~~-~v~vv~GGL~v~sGi~i~~~~d~~d~~~Ia~AaV~Vg 116 (116)
T TIGR02058 78 TV-TVEVEDGGMITSSGIALEEKNDKNDLMYIVNAAVEVG 116 (116)
T ss_pred ee-EEEEEcCCeEcccCccccCCCCCCCcEEEEEEEEEeC
Confidence 97 9999999999999999999999999999999999997
No 2
>PF09585 Lin0512_fam: Conserved hypothetical protein (Lin0512_fam); InterPro: IPR011719 This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N terminus.
Probab=100.00 E-value=3.4e-56 Score=357.53 Aligned_cols=113 Identities=59% Similarity=0.935 Sum_probs=109.2
Q ss_pred eEEEEEeeccccCCCCCHHHHHHHHHHhHHhhCCccccccCccCCCCCCCeEEEEEEeecCCCcccccHHHHhhhcCCCc
Q 026307 121 KLLFVEMGVGYDQHGQDVTAAAMRACRDAISSNSIPAFRRGSIPGVSFEQMKLLIKLGVPHSLQQLLDIERVKSVFPYGK 200 (240)
Q Consensus 121 KRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hNSIp~~~~~~IpG~d~~~MkV~VkIGVP~~~Pe~VD~eaVkavfPYG~ 200 (240)
||||||||||+|||||||||||+|||||||||||||++++ ++|+++++|+|+|+||||+ ||+||+|+||++||||+
T Consensus 1 kr~~iE~GmG~DlhGqD~TkAA~RAv~DAI~~nslp~l~~--~~~~~~~~M~v~V~igVp~--pe~vD~e~v~~~~PyG~ 76 (113)
T PF09585_consen 1 KRLFIEMGMGNDLHGQDYTKAAVRAVRDAISHNSLPGLFE--ILGLDLDDMKVEVKIGVPR--PEKVDIEAVKAVFPYGQ 76 (113)
T ss_pred CeEEEEecccccccCCcHHHHHHHHHHHHHhhcchHHHHH--HcCCChHHEEEEEEEeCCC--ccccCHHHHHHhCCCCC
Confidence 7999999999999999999999999999999999999885 4666999999999999999 99999999999999999
Q ss_pred eeeEEEEcCCcccccCceeccCCCCCCcEEEEEEEEEEe
Q 026307 201 ILDVEVVDGGLICSSGVHVAELGDKNDDCYIVNAAVYVG 239 (240)
Q Consensus 201 v~tVeVV~GGL~v~sGI~ipe~GDknD~~vIAnAAV~Vg 239 (240)
+ +|+||+|||.+ +||.+|++||+||++|||||||+||
T Consensus 77 ~-~v~vv~GGl~~-sGi~i~~~~d~~d~~vIa~AaV~V~ 113 (113)
T PF09585_consen 77 V-TVEVVKGGLIT-SGIDIPEPGDKNDDIVIANAAVTVG 113 (113)
T ss_pred c-eEEEEcCCccc-cCcccCCCCCCCCcEEEEEEEEEeC
Confidence 5 99999999998 9999999999999999999999997
No 3
>PF02682 AHS1: Allophanate hydrolase subunit 1; InterPro: IPR003833 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 1 of allophanate hydrolase (AHS1), which is found in urea carboxylase.; PDB: 3VA7_A 3MML_H 3OEP_A 3OPF_C 3ORE_A 2ZP2_A 2KWA_A 2PHC_B.
Probab=67.55 E-value=6.5 Score=34.22 Aligned_cols=61 Identities=21% Similarity=0.290 Sum_probs=44.8
Q ss_pred eEEEEEeeccccCCCCCHHHHHHHHHHhHHhhCCccccccCccCCCCCCCeEEEEEEeecCCCcccccHHHHhhh
Q 026307 121 KLLFVEMGVGYDQHGQDVTAAAMRACRDAISSNSIPAFRRGSIPGVSFEQMKLLIKLGVPHSLQQLLDIERVKSV 195 (240)
Q Consensus 121 KRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hNSIp~~~~~~IpG~d~~~MkV~VkIGVP~~~Pe~VD~eaVkav 195 (240)
+-++||+|..+|+ -+.+.+.|..++|+...++++.+ .+|+. . .|-|..| |..+|.+++++.
T Consensus 9 ~allv~f~~~~~~----~~~~~v~al~~~l~~~~~~gi~e-~vp~~--~------sllV~fd-p~~~~~~~l~~~ 69 (202)
T PF02682_consen 9 SALLVEFGEEIDL----EINARVLALARALRAAPLPGIVE-VVPAY--R------SLLVHFD-PLRIDRAALRAA 69 (202)
T ss_dssp TEEEEEESSSS-H----HHHHHHHHHHHHHHHHT-TTEEE-EEEES--S------EEEEEES-TTTSHHHHHHHH
T ss_pred CEEEEEECCcCCH----HHHHHHHHHHHHHhcCCCCCeEE-eeccc--c------EEEEEEc-CCcCCHHHHHHH
Confidence 4689999988877 56788899999999999999988 77773 3 2333446 778887777654
No 4
>PF05681 Fumerase: Fumarate hydratase (Fumerase); InterPro: IPR004646 This entry represents various Fe-S type hydro-lyases, including the alpha subunit from both L-tartrate dehydratase (TtdA; 4.2.1.32 from EC) and class 1 fumarate hydratases (4.2.1.2 from EC), which includes both aerobic (FumA) and anaerobic (FumB) types []. A number of Fe-S cluster-containing hydro-lyases share a conserved motif, including argininosuccinate lyase, adenylosuccinate lyase, aspartase, class I fumarate hydratase (fumarase), and tartrate dehydratase (see IPR000362 from INTERPRO). Proteins in this group represent a subset of closely related proteins or modules, including the Escherichia coli tartrate dehydratase alpha chain and the N-terminal region of the class I fumarase (where the C-terminal region is homologous to the tartrate dehydratase beta chain). The activity of archaeal proteins in this group is unknown. Fumarate hydratase (also known as fumarase) is a component of the citric acid cycle. In facultative anaerobes such as E. coli, fumarase also engages in the reductive pathway from oxaloacetate to succinate during anaerobic growth. Three fumarases, FumA, FumB, and FumC, have been reported in E. coli. fumA and fumB genes are homologous and encode products of identical sizes which form thermolabile dimers of Mr 120,000. FumA and FumB are class I enzymes and are members of the iron-dependent hydrolases, which include aconitase and malate hydratase. The active FumA contains a 4Fe-4S centre, and it can be inactivated upon oxidation to give a 3Fe-4S centre [].; GO: 0016829 lyase activity
Probab=59.05 E-value=16 Score=33.85 Aligned_cols=38 Identities=24% Similarity=0.407 Sum_probs=32.6
Q ss_pred CCCCceEEEEEeeccccCCCCCHHHHHHHHHHhHHhhCC
Q 026307 116 SNPPMKLLFVEMGVGYDQHGQDVTAAAMRACRDAISSNS 154 (240)
Q Consensus 116 ~~~~mKRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hNS 154 (240)
+.-++-.+|+|+|.++-+-| +..+|-.+|||+|-..+-
T Consensus 59 QDTG~~~~fv~~G~~~~~~g-~l~~ai~~gv~~a~~~~~ 96 (271)
T PF05681_consen 59 QDTGIPVFFVEIGQDVPIEG-DLEEAINEGVRKAYKEGP 96 (271)
T ss_pred cCCCeEEEEEEECCCCCcCh-hHHHHHHHHHHHHHhcCC
Confidence 34567889999999999999 999999999999977553
No 5
>PF11876 DUF3396: Protein of unknown function (DUF3396); InterPro: IPR021815 This family of proteins are functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 302 to 382 amino acids in length.
Probab=55.64 E-value=13 Score=32.64 Aligned_cols=39 Identities=26% Similarity=0.483 Sum_probs=34.7
Q ss_pred cHHHHhhhcCCCceeeEEEEcCCcccccCceeccCCCCCCc
Q 026307 188 DIERVKSVFPYGKILDVEVVDGGLICSSGVHVAELGDKNDD 228 (240)
Q Consensus 188 D~eaVkavfPYG~v~tVeVV~GGL~v~sGI~ipe~GDknD~ 228 (240)
-.++|++.+|.-.+ .++-..||+++.-|-. |+.||.++.
T Consensus 123 G~~~lr~~L~~~~~-~i~~~~~g~vI~aG~~-P~lGd~~~~ 161 (208)
T PF11876_consen 123 GEDALRSALPGPWI-RIHPYGGGVVIQAGEW-PELGDTEEG 161 (208)
T ss_pred cHHHHHhhCCCCce-EEEECCCcEEEEeCCC-CCCcCcCCC
Confidence 46889999999997 9999999999999988 999987764
No 6
>smart00463 SMR Small MutS-related domain.
Probab=50.63 E-value=15 Score=26.45 Aligned_cols=22 Identities=27% Similarity=0.388 Sum_probs=16.8
Q ss_pred ccCCCCCHHHHHHHHHHhHHhhC
Q 026307 131 YDQHGQDVTAAAMRACRDAISSN 153 (240)
Q Consensus 131 ~DlHGQD~TKAA~RAVrDAI~hN 153 (240)
.||||+... .|.+++++.|..-
T Consensus 4 lDLHG~~~~-eA~~~l~~~l~~~ 25 (80)
T smart00463 4 LDLHGLTVE-EALTALDKFLNNA 25 (80)
T ss_pred EEcCCCCHH-HHHHHHHHHHHHH
Confidence 599999876 6777777777653
No 7
>PF01713 Smr: Smr domain; InterPro: IPR002625 This family includes the Smr (Small MutS Related) proteins, and the C-terminal region of the MutS2 protein. It has been suggested that this domain interacts with the MutS1 (P23909 from SWISSPROT) protein in the case of Smr proteins and with the N-terminal MutS related region of MutS2, P94545 from SWISSPROT [].; PDB: 3QD7_X 2D9I_A 3FAU_A 2VKC_A 2ZQE_A.
Probab=49.91 E-value=15 Score=26.73 Aligned_cols=22 Identities=32% Similarity=0.478 Sum_probs=14.5
Q ss_pred ccCCCCCHHHHHHHHHHhHHhhC
Q 026307 131 YDQHGQDVTAAAMRACRDAISSN 153 (240)
Q Consensus 131 ~DlHGQD~TKAA~RAVrDAI~hN 153 (240)
+||||+...+ |.++++++|...
T Consensus 1 iDLHG~~~~e-A~~~l~~~l~~~ 22 (83)
T PF01713_consen 1 IDLHGLTVEE-ALRALEEFLDEA 22 (83)
T ss_dssp EE-TTS-HHH-HHHHHHHHHHHH
T ss_pred CCCCCCcHHH-HHHHHHHHHHHH
Confidence 5999998875 566777777553
No 8
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=47.14 E-value=45 Score=31.32 Aligned_cols=26 Identities=19% Similarity=0.602 Sum_probs=22.9
Q ss_pred CcccccHHHHhhhc-CCCceeeEEEEc
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEVVD 208 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeVV~ 208 (240)
||..++.|.|+++| .||+++.++++.
T Consensus 201 Lp~~vtee~L~~~F~~fG~V~~v~i~~ 227 (346)
T TIGR01659 201 LPRTITDDQLDTIFGKYGQIVQKNILR 227 (346)
T ss_pred CCCcccHHHHHHHHHhcCCEEEEEEee
Confidence 78899999999999 799987888773
No 9
>cd06479 ACD_HspB7_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB7, also known as cardiovascular small heat shock protein (cvHsp), and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB7 is a 25-kDa protein, preferentially expressed in heart and skeletal muscle. It binds the cytoskeleton protein alpha-filamin (also known as actin-binding protein 280). The expression of HspB7 is increased during rat muscle aging. Its expression is also modulated in obesity implicating this protein in this and related metabolic disorders. As the human gene encoding HspB7 is mapped to chromosome 1p36.23-p34.3 it is a positional candidate for several dystrophies and myopathies.
Probab=44.53 E-value=14 Score=28.00 Aligned_cols=23 Identities=26% Similarity=0.343 Sum_probs=20.5
Q ss_pred CcccccHHHHhhhc-CCCceeeEEE
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEV 206 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeV 206 (240)
||+.||.++|+|-| .-|. ++|++
T Consensus 56 LP~~vd~e~v~A~l~~~Gv-L~I~~ 79 (81)
T cd06479 56 LPEDVDPTSVSSSLGEDGT-LTIKA 79 (81)
T ss_pred CCCCcCHHHeEEEecCCCE-EEEEe
Confidence 69999999999997 9998 68876
No 10
>PF08502 LeuA_dimer: LeuA allosteric (dimerisation) domain; InterPro: IPR013709 This is the C-terminal regulatory (R) domain of alpha-isopropylmalate synthase, which catalyses the first committed step in the leucine biosynthetic pathway []. This domain, is an internally duplicated structure with a novel fold []. It comprises two similar units that are arranged such that the two -helices pack together in the centre, crossing at an angle of 34 degrees, sandwiched between the two three-stranded, antiparallel beta-sheets. The overall domain is thus constructed as a beta-alpha-beta three-layer sandwich []. ; GO: 0003852 2-isopropylmalate synthase activity, 0009098 leucine biosynthetic process; PDB: 3HQ1_A 3HPZ_B 1SR9_A 3FIG_B 3HPS_A 3F6G_A 3F6H_A.
Probab=44.03 E-value=23 Score=28.23 Aligned_cols=23 Identities=39% Similarity=0.634 Sum_probs=19.5
Q ss_pred eeccccCCCCCHHHHHHHHHHhHHhh
Q 026307 127 MGVGYDQHGQDVTAAAMRACRDAISS 152 (240)
Q Consensus 127 mGMG~DlHGQD~TKAA~RAVrDAI~h 152 (240)
.|.|+| .|++.|+.||+-+||-+
T Consensus 109 ~G~g~~---~Di~~As~~A~~~AiNr 131 (133)
T PF08502_consen 109 WGVGID---TDIVEASLKAYLSAINR 131 (133)
T ss_dssp EEEEEE---SSHHHHHHHHHHHHHHH
T ss_pred EEEEEC---CCHHHHHHHHHHHHHHh
Confidence 466766 79999999999999864
No 11
>smart00796 AHS1 Allophanate hydrolase subunit 1. This domain represents subunit 1 of allophanate hydrolase (AHS1).
Probab=39.93 E-value=70 Score=27.88 Aligned_cols=60 Identities=18% Similarity=0.345 Sum_probs=41.4
Q ss_pred eEEEEEeeccccCCCCCHHHHHHHHHHhHHhhCCccccccCccCCCCCCCeEEEEEEeecCCCcccccHHHHhh
Q 026307 121 KLLFVEMGVGYDQHGQDVTAAAMRACRDAISSNSIPAFRRGSIPGVSFEQMKLLIKLGVPHSLQQLLDIERVKS 194 (240)
Q Consensus 121 KRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hNSIp~~~~~~IpG~d~~~MkV~VkIGVP~~~Pe~VD~eaVka 194 (240)
+-++||+|-.+|+ -+...+.|..++|..+-++++.+ .+|+ ++.+.|+- | |..+|..++++
T Consensus 9 ~allv~~~~~~~~----~~~~~v~~l~~~l~~~~~~gi~e-~vp~--~~sllv~f------d-p~~~~~~~l~~ 68 (201)
T smart00796 9 RALLVEFGDEIDL----ALNRRVLALARALRAAPLPGVVE-LVPG--YRSLLVHF------D-PLVIDPAALLA 68 (201)
T ss_pred cEEEEEECCcCCH----HHHHHHHHHHHHHHhcCCCCeEE-cccc--ceEEEEEE------c-CCCCCHHHHHH
Confidence 4588999876653 44567789999999998999998 7777 44444443 3 55566555444
No 12
>cd06498 ACD_alphaB-crystallin_HspB5 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaB-crystallin (HspB5, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. HspB4 does not belong to this group. HspB5 shows increased synthesis in response to stress. HspB5 is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. Its functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its oligomerization and anti-apoptotic activ
Probab=39.90 E-value=19 Score=27.07 Aligned_cols=23 Identities=26% Similarity=0.241 Sum_probs=19.8
Q ss_pred CcccccHHHHhhhc-CCCceeeEEE
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEV 206 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeV 206 (240)
||+.||.++|+|-| .=|- ++|++
T Consensus 58 LP~~vd~~~i~A~~~~dGv-L~I~l 81 (84)
T cd06498 58 IPADVDPLTITSSLSPDGV-LTVCG 81 (84)
T ss_pred CCCCCChHHcEEEeCCCCE-EEEEE
Confidence 68999999999999 7998 57765
No 13
>cd00853 NifX NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein is part of the nitrogen fixation gene cluster in nitrogen-fixing bacteria and has sequence similarity to other members of the cluster.
Probab=39.69 E-value=23 Score=26.72 Aligned_cols=20 Identities=30% Similarity=0.730 Sum_probs=16.4
Q ss_pred cccccccc--eEEEEEecCCCC
Q 026307 6 DIEGHFGQ--YVSIFDVKDDTA 25 (240)
Q Consensus 6 ~~~~~~~~--~~~~~~~~~~~~ 25 (240)
.|..|||. |.-|||++++..
T Consensus 11 ~V~~HFG~a~~F~Iydv~~~~~ 32 (102)
T cd00853 11 RVDAHFGSARRFAIYEVSPEGA 32 (102)
T ss_pred EeccccccCCEEEEEEEcCCcE
Confidence 47899995 899999988753
No 14
>PF07551 DUF1534: Protein of unknown function (DUF1534); InterPro: IPR011433 This family is found in a group of small bacterial proteins. Its function is not known.
Probab=39.42 E-value=12 Score=27.10 Aligned_cols=14 Identities=43% Similarity=0.610 Sum_probs=12.3
Q ss_pred HHHHhHHhhCCccc
Q 026307 144 RACRDAISSNSIPA 157 (240)
Q Consensus 144 RAVrDAI~hNSIp~ 157 (240)
-|++||++|.|.|-
T Consensus 10 nA~~DA~RH~sapr 23 (48)
T PF07551_consen 10 NAVRDALRHRSAPR 23 (48)
T ss_pred chhhhhhhcccccc
Confidence 38999999999985
No 15
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=39.13 E-value=29 Score=24.82 Aligned_cols=19 Identities=42% Similarity=0.901 Sum_probs=15.1
Q ss_pred cccccccc--eEEEEEecCCC
Q 026307 6 DIEGHFGQ--YVSIFDVKDDT 24 (240)
Q Consensus 6 ~~~~~~~~--~~~~~~~~~~~ 24 (240)
.|.+|||. |..|||+.++.
T Consensus 4 ~v~~hFg~a~~f~I~d~~~~~ 24 (94)
T PF02579_consen 4 RVSPHFGRAPYFLIYDVEDGE 24 (94)
T ss_dssp BB-SBCTT-SEEEEEEEESSC
T ss_pred eeeHHHCCCCEEEEEEEeCCe
Confidence 47899995 99999999874
No 16
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=37.61 E-value=36 Score=27.84 Aligned_cols=26 Identities=23% Similarity=0.440 Sum_probs=23.1
Q ss_pred CcccccHHHHhhhc-CCCceeeEEEEc
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEVVD 208 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeVV~ 208 (240)
||..++.+.|+++| +||++..++++.
T Consensus 42 L~~~~te~~L~~~F~~~G~I~~v~i~~ 68 (144)
T PLN03134 42 LSWGTDDASLRDAFAHFGDVVDAKVIV 68 (144)
T ss_pred CCCCCCHHHHHHHHhcCCCeEEEEEEe
Confidence 68899999999999 799998888864
No 17
>cd06478 ACD_HspB4-5-6 Alpha-crystallin domain found in alphaA-crystallin (HspB4), alphaB-crystallin (HspB5), and the small heat shock protein (sHsp) HspB6, also known as Hsp20. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 on the other hand is also expressed constitutively in other tissues including brain, heart, and type I and type IIa skeletal muscle fibers, and in several cancers including gliomas, renal cell carcinomas, basal-like and metaplastic breast carcinomas, and head and neck cancer. HspB5's functions include effects on the apoptotic pathway and on metastasis. Phosphorylation of HspB5 reduces its ol
Probab=36.75 E-value=21 Score=26.57 Aligned_cols=23 Identities=22% Similarity=0.224 Sum_probs=19.6
Q ss_pred CcccccHHHHhhhc-CCCceeeEEE
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEV 206 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeV 206 (240)
||+.||.++|+|.+ .=|- ++|++
T Consensus 58 LP~~vd~~~i~A~~~~dGv-L~I~~ 81 (83)
T cd06478 58 LPPGVDPAAITSSLSADGV-LTISG 81 (83)
T ss_pred CCCCcChHHeEEEECCCCE-EEEEe
Confidence 58899999999998 7888 57765
No 18
>cd06497 ACD_alphaA-crystallin_HspB4 Alpha-crystallin domain found in the small heat shock protein (sHsp) alphaA-crystallin (HspB4, 20kDa). sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Alpha crystallin, an abundant protein in the mammalian lens, is a large (700 kDa) heteropolymer composed of HspB4 and HspB5, generally in a molar ratio of HspB4:HspB5 of 3:1. Only trace amounts of HspB4 are found in tissues other than the lens. HspB5 does not belong to this group. Mutations inHspB4 have been associated with Autosomal Dominant Congenital Cataract (ADCC). The chaperone-like functions of HspB4 are considered important for maintaining lens transparency and preventing cataract.
Probab=35.73 E-value=23 Score=26.65 Aligned_cols=23 Identities=17% Similarity=0.193 Sum_probs=19.7
Q ss_pred CcccccHHHHhhhc-CCCceeeEEE
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEV 206 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeV 206 (240)
||+.||.++|+|.| .=|- ++|++
T Consensus 61 LP~~Vd~~~i~A~~~~dGv-L~I~~ 84 (86)
T cd06497 61 LPSNVDQSAITCSLSADGM-LTFSG 84 (86)
T ss_pred CCCCCChHHeEEEeCCCCE-EEEEe
Confidence 68999999999999 7888 57765
No 19
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=35.25 E-value=26 Score=25.39 Aligned_cols=19 Identities=26% Similarity=0.625 Sum_probs=15.7
Q ss_pred cccccccc--eEEEEEecCCC
Q 026307 6 DIEGHFGQ--YVSIFDVKDDT 24 (240)
Q Consensus 6 ~~~~~~~~--~~~~~~~~~~~ 24 (240)
-|.+|||+ |.-|||+.|+.
T Consensus 11 ~v~~hFg~A~~f~I~d~~~~~ 31 (102)
T cd00562 11 RVDQHFGRAPEFLIYEVEPGG 31 (102)
T ss_pred EehhhcCCCCeEEEEEEcCCc
Confidence 37899995 89999998874
No 20
>PF05697 Trigger_N: Bacterial trigger factor protein (TF); InterPro: IPR008881 In the Escherichia coli cytosol, a fraction of the newly synthesised proteins requires the activity of molecular chaperones for folding to the native state. The major chaperones implicated in this folding process are the ribosome-associated Trigger Factor (TF), and the DnaK and GroEL chaperones with their respective co-chaperones. Trigger Factor is an ATP-independent chaperone and displays chaperone and peptidyl-prolyl-cis-trans-isomerase (PPIase) activities in vitro. It is composed of at least three domains, an N-terminal domain which mediates association with the large ribosomal subunit, a central substrate binding and PPIase domain with homology to FKBP proteins, and a C-terminal domain of unknown function. The positioning of TF at the peptide exit channel, together with its ability to interact with nascent chains as short as 57 residues renders TF a prime candidate for being the first chaperone that binds to the nascent polypeptide chains []. This group of sequences contain the ribosomal subunit association domain.; GO: 0006457 protein folding, 0015031 protein transport; PDB: 2D3O_1 1W26_A 1P9Y_A 1OMS_C 1T11_A 3GU0_A 2NSB_A 2NSC_A 3GTY_X.
Probab=33.49 E-value=36 Score=27.19 Aligned_cols=29 Identities=28% Similarity=0.479 Sum_probs=23.5
Q ss_pred CCCCCHHHHHHHHHHhHHhhCCccccccC
Q 026307 133 QHGQDVTAAAMRACRDAISSNSIPAFRRG 161 (240)
Q Consensus 133 lHGQD~TKAA~RAVrDAI~hNSIp~~~~~ 161 (240)
+=+.++.++=.+|+++.-.+-.|||||.|
T Consensus 19 v~~~~~~~~~~~~l~~~~k~~~ipGFRkG 47 (145)
T PF05697_consen 19 VPAEEVEKAYEKALKELAKKVKIPGFRKG 47 (145)
T ss_dssp E-HHHHHHHHHHHHHHHHTTTTBTTS-TT
T ss_pred ECHHHHHHHHHHHHHHHHhhCCCCCCCCC
Confidence 34567889999999999999999999964
No 21
>cd06481 ACD_HspB9_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB9 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Human (h) HspB9 is expressed exclusively in the normal testis and in various tumor samples and is a cancer/testis antigen. hHspB9 interacts with TCTEL1 (T-complex testis expressed protein -1), a subunit of dynein. hHspB9 and TCTEL1 are co-expressed in similar cells within the testis and in tumor cells. Included in this group is Xenopus Hsp30, a developmentally-regulated heat-inducible molecular chaperone.
Probab=31.47 E-value=27 Score=26.35 Aligned_cols=23 Identities=30% Similarity=0.522 Sum_probs=19.2
Q ss_pred CcccccHHHHhhhc-CCCceeeEEE
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEV 206 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeV 206 (240)
||+.||.++|.|.+ .-|- ++|++
T Consensus 62 LP~~Vd~~~i~A~~~~dGv-L~I~~ 85 (87)
T cd06481 62 LPEHVDPEAVTCSLSPSGH-LHIRA 85 (87)
T ss_pred CCCCcChHHeEEEeCCCce-EEEEc
Confidence 58899999999999 8888 57654
No 22
>cd00852 NifB NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of nitrogen fixation in bacteria. This domain is sometimes found fused to a N-terminal domain (the Radical SAM domain) in nifB-like proteins.
Probab=29.92 E-value=38 Score=25.60 Aligned_cols=19 Identities=26% Similarity=0.630 Sum_probs=15.5
Q ss_pred cccccccc--eEEEEEecCCC
Q 026307 6 DIEGHFGQ--YVSIFDVKDDT 24 (240)
Q Consensus 6 ~~~~~~~~--~~~~~~~~~~~ 24 (240)
.+.+|||. |.-|||+.++.
T Consensus 11 ~V~~HFG~a~~F~Iydv~~~~ 31 (106)
T cd00852 11 RVNQHFGHATEFQIYEVSGSG 31 (106)
T ss_pred EehhhccCCCEEEEEEEcCCc
Confidence 46799995 89999998764
No 23
>PRK06246 fumarate hydratase; Provisional
Probab=27.03 E-value=1e+02 Score=28.84 Aligned_cols=38 Identities=24% Similarity=0.402 Sum_probs=32.0
Q ss_pred CCCCceEEEEEeeccccCCCCCHHHHHHHHHHhHHhhC
Q 026307 116 SNPPMKLLFVEMGVGYDQHGQDVTAAAMRACRDAISSN 153 (240)
Q Consensus 116 ~~~~mKRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hN 153 (240)
+.-++-.+|+|+|.++-+-|.+..+|-.+||++|-..+
T Consensus 67 QDTG~~~~fv~iG~~v~~~~~~l~~ai~egv~~a~~~~ 104 (280)
T PRK06246 67 QDTGMAVVFVEIGQDVHIEGGDLEDAINEGVRKGYEEG 104 (280)
T ss_pred cCCCcEEEEEEeCCCcccCCccHHHHHHHHHHHHhccC
Confidence 35568899999999887778789999999999996655
No 24
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=25.63 E-value=42 Score=25.87 Aligned_cols=36 Identities=28% Similarity=0.495 Sum_probs=25.9
Q ss_pred CccccccccccceEEEEEecCCCCCceeeEeeeeecc
Q 026307 2 GELFDIEGHFGQYVSIFDVKDDTAGLSTTVFGYRCKE 38 (240)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 38 (240)
||+.++..|.+ ----|++||+.|-++.+.|..+-+.
T Consensus 28 GEIs~~~~~~~-gh~YftLkD~~a~i~~~~~~~~~~~ 63 (99)
T PF13742_consen 28 GEISNLKRHSS-GHVYFTLKDEEASISCVIFRSRARR 63 (99)
T ss_pred EEEeecEECCC-ceEEEEEEcCCcEEEEEEEHHHHhh
Confidence 56666666633 3357899999999999998766443
No 25
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=25.60 E-value=52 Score=25.80 Aligned_cols=24 Identities=13% Similarity=0.303 Sum_probs=17.7
Q ss_pred CHHHHHHHHHHhHHhhCCcccccc
Q 026307 137 DVTAAAMRACRDAISSNSIPAFRR 160 (240)
Q Consensus 137 D~TKAA~RAVrDAI~hNSIp~~~~ 160 (240)
..=+.|.+..++.++++--|.++.
T Consensus 94 ~~v~eal~~l~~~~~~~~~~w~~~ 117 (119)
T TIGR02663 94 ESISELLERLQKMLKGNPPPWLRK 117 (119)
T ss_pred ccHHHHHHHHHHHHcCCCCHHHHh
Confidence 345788889999998886666553
No 26
>cd06475 ACD_HspB1_like Alpha crystallin domain (ACD) found in mammalian small (s)heat shock protein (Hsp)-27 (also denoted HspB1 in human) and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Hsp27 shows enhanced synthesis in response to stress. It is a molecular chaperone which interacts with a large number of different proteins. It is found in many types of human cells including breast, uterus, cervix, platelets and cancer cells. Hsp27 has diverse cellular functions including, chaperoning, regulation of actin polymerization, keratinocyte differentiation, regulation of inflammatory pathways in keratinocytes, and protection from oxidative stress through modulating glutathione levels. It is also a subunit of AUF1-containing protein complexes. It has been linked to several transduction pathways regulating cellular functions including differentiat
Probab=25.07 E-value=48 Score=24.98 Aligned_cols=23 Identities=39% Similarity=0.429 Sum_probs=18.6
Q ss_pred CcccccHHHHhhhc-CCCceeeEEE
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEV 206 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeV 206 (240)
+|+.||.++|+|.+ +=|- ++|++
T Consensus 61 LP~~vd~~~v~A~~~~dGv-L~I~l 84 (86)
T cd06475 61 LPPGVDPTAVTSSLSPDGI-LTVEA 84 (86)
T ss_pred CCCCCCHHHcEEEECCCCe-EEEEe
Confidence 58899999999999 5887 56654
No 27
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=24.92 E-value=66 Score=20.94 Aligned_cols=27 Identities=26% Similarity=0.509 Sum_probs=23.2
Q ss_pred CcccccHHHHhhhcC-CCceeeEEEEcC
Q 026307 183 LQQLLDIERVKSVFP-YGKILDVEVVDG 209 (240)
Q Consensus 183 ~Pe~VD~eaVkavfP-YG~v~tVeVV~G 209 (240)
+|..++.+.|++.|. ||.+..+.+..-
T Consensus 6 lp~~~t~~~l~~~f~~~g~i~~~~~~~~ 33 (70)
T PF00076_consen 6 LPPDVTEEELRDFFSQFGKIESIKVMRN 33 (70)
T ss_dssp ETTTSSHHHHHHHHHTTSTEEEEEEEEE
T ss_pred CCCcCCHHHHHHHHHHhhhccccccccc
Confidence 688999999999997 999878888774
No 28
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Probab=24.90 E-value=48 Score=30.30 Aligned_cols=12 Identities=33% Similarity=0.692 Sum_probs=10.0
Q ss_pred EEeeccccCCCC
Q 026307 125 VEMGVGYDQHGQ 136 (240)
Q Consensus 125 IEmGMG~DlHGQ 136 (240)
+=.|.|+|.|.-
T Consensus 60 ~RvG~G~DvH~~ 71 (216)
T PLN02862 60 FRVGHGFDLHRL 71 (216)
T ss_pred eeEEEeEEcccc
Confidence 567999999974
No 29
>PF00011 HSP20: Hsp20/alpha crystallin family This prints entry is a subset of the Pfam entry.; InterPro: IPR002068 Prokaryotic and eukaryotic organisms respond to heat shock or other environmental stress by inducing the synthesis of proteins collectively known as heat-shock proteins (hsp) []. Amongst them is a family of proteins with an average molecular weight of 20 Kd, known as the hsp20 proteins []. These seem to act as chaperones that can protect other proteins against heat-induced denaturation and aggregation. Hsp20 proteins seem to form large heterooligomeric aggregates. Structurally, this family is characterised by the presence of a conserved C-terminal domain of about 100 residues.; PDB: 2BOL_B 3N3E_B 2H50_P 2H53_F 2BYU_L 1GME_D 3VQM_J 3VQK_E 3VQL_A 3AAC_A ....
Probab=24.84 E-value=43 Score=24.67 Aligned_cols=26 Identities=19% Similarity=0.424 Sum_probs=19.0
Q ss_pred CcccccHHHHhhhcCCCceeeEEEEcC
Q 026307 183 LQQLLDIERVKSVFPYGKILDVEVVDG 209 (240)
Q Consensus 183 ~Pe~VD~eaVkavfPYG~v~tVeVV~G 209 (240)
+|+.+|.++++|.+.-|. ++|++-+-
T Consensus 63 lP~~vd~~~i~a~~~~Gv-L~I~~pk~ 88 (102)
T PF00011_consen 63 LPEDVDPDKIKASYENGV-LTITIPKK 88 (102)
T ss_dssp -STTB-GGG-EEEETTSE-EEEEEEBS
T ss_pred CCCcCCcceEEEEecCCE-EEEEEEcc
Confidence 588999999999998887 58876543
No 30
>PF02772 S-AdoMet_synt_M: S-adenosylmethionine synthetase, central domain; InterPro: IPR022629 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the central domain and is found in association with PF00438 from PFAM and PF02773 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3S82_B 2OBV_A 3RV2_A 1FUG_A 1RG9_D 1XRA_A 1P7L_C 1XRB_A 1MXA_A 1MXB_A ....
Probab=24.68 E-value=60 Score=26.94 Aligned_cols=18 Identities=39% Similarity=0.717 Sum_probs=14.4
Q ss_pred CCCCCceeeEeeeeeccc
Q 026307 22 DDTAGLSTTVFGYRCKEM 39 (240)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~ 39 (240)
+..||=-..+|||-|.|-
T Consensus 2 ~~GAGDQGimfGYA~~ET 19 (120)
T PF02772_consen 2 EIGAGDQGIMFGYACDET 19 (120)
T ss_dssp CCSBSS-EEEEEEEETTS
T ss_pred CcCcCcceEEEeeEcCCC
Confidence 567888899999999983
No 31
>cd06476 ACD_HspB2_like Alpha crystallin domain (ACD) found in mammalian small heat shock protein (sHsp) HspB2/heat shock 27kDa protein 2 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. HspB2 is preferentially and constitutively expressed in skeletal muscle and heart. HspB2 shows homooligomeric activity and forms aggregates in muscle cytosol. Although its expression is not induced by heat shock, it redistributes to the insoluble fraction in response to heat shock. In the mouse heart, HspB2 plays a role in maintaining energetic balance, by protecting cardiac energetics during ischemia/reperfusion, and allowing for increased work during acute inotropic challenge. hHspB2 [previously also known as myotonic dystrophy protein kinase (DMPK) binding protein (MKBP)] is selectively up-regulated in skeletal muscles from myotonic dystrophy patients.
Probab=24.35 E-value=44 Score=25.23 Aligned_cols=23 Identities=22% Similarity=0.179 Sum_probs=19.1
Q ss_pred CcccccHHHHhhhc-CCCceeeEEE
Q 026307 183 LQQLLDIERVKSVF-PYGKILDVEV 206 (240)
Q Consensus 183 ~Pe~VD~eaVkavf-PYG~v~tVeV 206 (240)
||+.||.++|+|.| .=|. ++|++
T Consensus 58 LP~~vd~~~v~A~~~~dGv-L~I~~ 81 (83)
T cd06476 58 LPMDVDPLLVRASLSHDGI-LCIQA 81 (83)
T ss_pred CCCCCChhhEEEEecCCCE-EEEEe
Confidence 68899999999999 5887 57765
No 32
>PF06169 DUF982: Protein of unknown function (DUF982); InterPro: IPR010385 This family consists of several hypothetical proteins from Rhizobium meliloti (Sinorhizobium meliloti), Rhizobium loti (Mesorhizobium loti) and Agrobacterium tumefaciens. The function of this family is unknown.; PDB: 2KPQ_A.
Probab=24.07 E-value=54 Score=24.40 Aligned_cols=16 Identities=44% Similarity=0.721 Sum_probs=12.5
Q ss_pred HHHHHHHHHHhHHhhC
Q 026307 138 VTAAAMRACRDAISSN 153 (240)
Q Consensus 138 ~TKAA~RAVrDAI~hN 153 (240)
.=.+|.|||++|+..-
T Consensus 38 ~y~~A~~aC~~Al~g~ 53 (76)
T PF06169_consen 38 AYRAALRACRAALDGR 53 (76)
T ss_dssp HHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHcCC
Confidence 3468999999999764
No 33
>PRK14866 hypothetical protein; Provisional
Probab=22.37 E-value=70 Score=31.88 Aligned_cols=120 Identities=19% Similarity=0.140 Sum_probs=67.2
Q ss_pred eeeeecccccceeeeeeecc--cc-cccccCCCccccccCCCcCCCCCCCccccccCCcccc--------cccccchhhh
Q 026307 32 FGYRCKEMSRTGCGSWSLNL--PS-TALKSNHPSVNILKSNTLYSPDRLVSGSYLRASPRFC--------GQIKAPATAA 100 (240)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~ 100 (240)
|-.+.-+.....+-.+.-.+ |. .-+.|+|.|.+...+.+--.+-++....+=-++..+| .+.++=+.-.
T Consensus 48 ~~l~~~~~~~i~~D~ld~~~~~~d~iIf~SRH~s~~~~p~LTvH~tGN~~~a~~GG~p~~la~a~P~~~~~lL~~l~~~~ 127 (451)
T PRK14866 48 FELREFDERHIHLDGIAEAFFDPDLLIFASRHSSVDTGPLLTAHFTGNFGPAEYGGEPGSLAPAAPNAMKAVLEALAEHA 127 (451)
T ss_pred EEEEEechhheeccchhhccCCCCEEEEEecccCCCCCceEEEECCCCCChhhcCCCCCccccCCHHHHHHHHHHHHHhC
Confidence 34445555555565554444 22 3345999998877777766666654322222222221 1222111101
Q ss_pred hhhhhhcCCccCCCCCCCCceEEEEEeeccccCCC-CCHHHHHHHHHHhHHh
Q 026307 101 AMEAEQSGGTATNSISNPPMKLLFVEMGVGYDQHG-QDVTAAAMRACRDAIS 151 (240)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~~mKRlfIEmGMG~DlHG-QD~TKAA~RAVrDAI~ 151 (240)
..+-+-+.+.++-|-..-..--+|||+|-.=+.-. ++.-+|..||+-+++.
T Consensus 128 ~~~yevt~EaTHHGPt~l~~Ps~FvEIGSte~eW~d~~a~~~vA~ail~~~~ 179 (451)
T PRK14866 128 PEGYDVSMECTHHGPTDVGVPSLFVELGSTEKEWDDPDAARAVARAILDLRG 179 (451)
T ss_pred cCCcEEEEEccccCCCCCCCceEEEEeCCCHHHhCCcHHHHHHHHHHHHHhc
Confidence 01234455666665444466789999998877654 6777788888888876
No 34
>PF08683 CAMSAP_CKK: Microtubule-binding calmodulin-regulated spectrin-associated; InterPro: IPR014797 This is the C-terminal domain of a family of eumetazoan proteins collectively defined as calmodulin-regulated spectrin-associated, or CAMSAP, proteins. CAMSAP proteins carry an N-terminal region that includes the CH domain, a central region including a predicted coiled-coil and this C-terminal, or CKK, domain - defined as being present in CAMSAP, KIAA1078 and KIAA1543, The C-terminal domain is the part of the CAMSAP proteins that binds to microtubules. The domain appears to act by producing inhibition of neurite extension, probably by blocking microtubule function. CKK represents a domain that has evolved with the metazoa []. The structure of a murine hypothetical protein from RIKEN cDNA has shown the domain to adopt a mainly beta barrel structure with an associated alpha-helical hairpin. ; PDB: 1UGJ_A.
Probab=21.71 E-value=59 Score=27.03 Aligned_cols=20 Identities=15% Similarity=0.172 Sum_probs=13.2
Q ss_pred HHHHHHHHHhHHhhCCcccc
Q 026307 139 TAAAMRACRDAISSNSIPAF 158 (240)
Q Consensus 139 TKAA~RAVrDAI~hNSIp~~ 158 (240)
+|-=++.++|||.|.||||-
T Consensus 10 ~kSNr~iI~nAL~~~~LaG~ 29 (123)
T PF08683_consen 10 AKSNRRIIHNALSHCCLAGP 29 (123)
T ss_dssp ----HHHHHHHHHHTTT-SS
T ss_pred CCChHHHHHHHHHHhcCCCc
Confidence 34456789999999999873
No 35
>PLN02541 uracil phosphoribosyltransferase
Probab=21.67 E-value=1.8e+02 Score=26.50 Aligned_cols=57 Identities=25% Similarity=0.473 Sum_probs=43.9
Q ss_pred CCCCCCeEEEEEEeecCCCcccccHHHHhhhcCCCceeeEEEEcCCcccccCceeccCCCCCCcE
Q 026307 165 GVSFEQMKLLIKLGVPHSLQQLLDIERVKSVFPYGKILDVEVVDGGLICSSGVHVAELGDKNDDC 229 (240)
Q Consensus 165 G~d~~~MkV~VkIGVP~~~Pe~VD~eaVkavfPYG~v~tVeVV~GGL~v~sGI~ipe~GDknD~~ 229 (240)
|...++.++=.-|+.|.. +++|.+.||-=++ -+-.++=+|+ ..|-.+|-.||-.|..
T Consensus 184 Gv~~~~I~~v~~ias~~G------l~~i~~~fP~v~I-~ta~ID~~Ln-e~~yIvPGlGDaGDR~ 240 (244)
T PLN02541 184 GASVEQIRVVCAVAAPPA------LKKLSEKFPGLHV-YAGIIDEEVN-EKGYIVPGLGDAGDRS 240 (244)
T ss_pred CCCcccEEEEEEEECHHH------HHHHHHHCcCCEE-EEEEECcccc-CCCcCcCCCCCccccc
Confidence 444567777777888763 7899999997664 6777888998 6888899999877654
No 36
>PRK08230 tartrate dehydratase subunit alpha; Validated
Probab=21.55 E-value=1.5e+02 Score=28.25 Aligned_cols=37 Identities=16% Similarity=0.324 Sum_probs=28.5
Q ss_pred CCCCceEEEEEeeccccCCCCCHHHHHHHHHHhHHhhC
Q 026307 116 SNPPMKLLFVEMGVGYDQHGQDVTAAAMRACRDAISSN 153 (240)
Q Consensus 116 ~~~~mKRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hN 153 (240)
+.-++-.+|+|+|..+=+-| +..+|-.+|||+|-..+
T Consensus 68 QDTG~~~~fv~iG~~v~~~g-~l~~aI~egVr~a~~~~ 104 (299)
T PRK08230 68 QDTGVIQFFVKVGARFPLLG-ELESILKEAVEEATVKA 104 (299)
T ss_pred cCCCcEEEEEEeCCCcccCc-hHHHHHHHHHHHHhccC
Confidence 34568899999987655434 49999999999996554
No 37
>TIGR00722 ttdA_fumA_fumB hydro-lyases, Fe-S type, tartrate/fumarate subfamily, alpha region. A number of Fe-S cluster-containing hydro-lyases share a conserved motif, including argininosuccinate lyase, adenylosuccinate lyase, aspartase, class I fumarate hydratase (fumarase), and tartrate dehydratase. This model represents a subset of closely related proteins or modules, including the E. coli tartrate dehydratase alpha chain and the N-terminal region of the class I fumarase (where the C-terminal region is homologous to the tartrate dehydratase beta chain). The activity of archaeal proteins in this subfamily has not been established.
Probab=21.40 E-value=1.5e+02 Score=27.66 Aligned_cols=39 Identities=13% Similarity=0.245 Sum_probs=29.5
Q ss_pred CCCCceEEEEEeeccccCCCCCHHHHHHHHHHhHHhhCCc
Q 026307 116 SNPPMKLLFVEMGVGYDQHGQDVTAAAMRACRDAISSNSI 155 (240)
Q Consensus 116 ~~~~mKRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hNSI 155 (240)
+.-+|-.+|+|+|....+ +.+..+|-.+|||+|-..+-|
T Consensus 59 QDTG~~~~fv~iG~~~~~-~~~l~~ai~egV~~a~~~~~L 97 (273)
T TIGR00722 59 QDTGVPIFFVKVGSRFVL-IGKLYEAIKQGVEEATEEVPL 97 (273)
T ss_pred cCCCcEEEEEEECCeecC-CchHHHHHHHHHHHHhccCCC
Confidence 345688999999975443 445999999999999766544
No 38
>PRK15389 fumarate hydratase; Provisional
Probab=20.82 E-value=1.5e+02 Score=30.38 Aligned_cols=37 Identities=16% Similarity=0.136 Sum_probs=30.2
Q ss_pred CCCCceEEEEEeeccccCCCCCHHHHHHHHHHhHHhhC
Q 026307 116 SNPPMKLLFVEMGVGYDQHGQDVTAAAMRACRDAISSN 153 (240)
Q Consensus 116 ~~~~mKRlfIEmGMG~DlHGQD~TKAA~RAVrDAI~hN 153 (240)
+.-++-.+|+|+|.++- -|.+...|-.+|||+|-..+
T Consensus 105 QDTG~~~vfv~iG~~v~-~g~~l~~aI~eGV~~ay~~~ 141 (536)
T PRK15389 105 QDTGTAIIMGKKGQRVW-TGGDDEEALSRGVYDTYTEL 141 (536)
T ss_pred cCCCcEEEEEEeCCCCC-CCchHHHHHHHHHHHHhccC
Confidence 45568899999998776 57789999999999995554
No 39
>cd01434 EFG_mtEFG1_IV EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provi
Probab=20.25 E-value=1.6e+02 Score=22.69 Aligned_cols=38 Identities=21% Similarity=0.389 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHHhHHhhCCccccccCccCCCCCCCeEEEEEEeecC
Q 026307 136 QDVTAAAMRACRDAISSNSIPAFRRGSIPGVSFEQMKLLIKLGVPH 181 (240)
Q Consensus 136 QD~TKAA~RAVrDAI~hNSIp~~~~~~IpG~d~~~MkV~VkIGVP~ 181 (240)
..+.+|..+++++|+.+ |.+.|.+..+++|++.=+..+
T Consensus 54 ~~~~~ai~~g~~~a~~~--------Gpl~G~pv~~v~V~l~~~~~~ 91 (116)
T cd01434 54 KEYIPAVEKGFREALEK--------GPLAGYPVVDVKVTLYDGSYH 91 (116)
T ss_pred HHHHHHHHHHHHHHHhc--------CcccCCccccEEEEEEeceee
Confidence 44555666666666444 344577889999999976655
Done!