Query 024782
Match_columns 262
No_of_seqs 20 out of 22
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 07:23:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024782.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024782hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00072 chlL photochlorophyll 68.1 36 0.00078 30.6 8.4 114 82-202 145-272 (290)
2 PF01788 PsbJ: PsbJ; InterPro 63.4 5.8 0.00013 28.2 1.9 28 234-261 6-33 (40)
3 PF12007 DUF3501: Protein of u 54.9 10 0.00022 33.9 2.5 27 111-137 83-113 (192)
4 PF10076 DUF2313: Uncharacteri 54.5 33 0.00072 28.4 5.3 52 130-182 59-110 (179)
5 PRK11200 grxA glutaredoxin 1; 47.9 44 0.00096 24.0 4.5 27 91-117 12-39 (85)
6 PF05225 HTH_psq: helix-turn-h 47.5 20 0.00043 24.6 2.5 19 141-159 1-19 (45)
7 cd08064 MPN_eIF3f Mpr1p, Pad1p 43.9 42 0.00091 30.0 4.6 75 106-180 138-232 (265)
8 CHL00108 psbJ photosystem II p 42.8 4.6 0.0001 28.7 -1.2 28 234-261 6-33 (40)
9 PRK02565 photosystem II reacti 41.9 6.2 0.00013 28.0 -0.7 28 234-261 5-32 (39)
10 TIGR02194 GlrX_NrdH Glutaredox 39.7 47 0.001 23.2 3.5 36 91-133 10-45 (72)
11 PRK11177 phosphoenolpyruvate-p 36.2 70 0.0015 32.3 5.3 70 85-155 394-466 (575)
12 PF11491 DUF3213: Protein of u 36.1 15 0.00031 29.9 0.5 45 133-177 40-84 (88)
13 PF01596 Methyltransf_3: O-met 35.1 15 0.00031 32.1 0.4 18 228-245 51-68 (205)
14 COG3443 Predicted periplasmic 33.4 24 0.00052 32.0 1.5 12 165-176 164-175 (193)
15 PF13034 DUF3895: Protein of u 29.9 46 0.001 26.4 2.3 31 130-162 7-39 (78)
16 smart00709 Zpr1 Duplicated dom 29.0 81 0.0018 27.0 3.9 33 86-124 121-153 (160)
17 PRK10329 glutaredoxin-like pro 28.6 76 0.0017 23.5 3.2 36 91-133 12-47 (81)
18 cd04765 HTH_MlrA-like_sg2 Heli 28.5 81 0.0018 24.5 3.5 51 85-153 39-89 (99)
19 TIGR01828 pyru_phos_dikin pyru 28.3 90 0.002 33.2 4.8 87 85-172 704-811 (856)
20 PRK08045 cystathionine gamma-s 27.6 84 0.0018 29.3 4.0 13 143-155 374-386 (386)
21 cd08062 MPN_RPN7_8 Mpr1p, Pad1 27.2 1.1E+02 0.0024 28.1 4.7 75 107-181 144-237 (280)
22 PF14610 DUF4448: Protein of u 26.7 29 0.00064 29.3 0.8 23 236-258 156-178 (189)
23 PF03328 HpcH_HpaI: HpcH/HpaI 26.2 57 0.0012 27.6 2.4 42 87-128 93-134 (221)
24 PF12606 RELT: Tumour necrosis 26.1 32 0.00069 25.1 0.8 20 241-260 4-23 (50)
25 TIGR01417 PTS_I_fam phosphoeno 25.8 1.3E+02 0.0028 30.3 5.2 43 86-129 394-438 (565)
26 PRK11061 fused phosphoenolpyru 25.1 1.2E+02 0.0025 31.6 4.8 83 85-168 560-652 (748)
27 PLN02589 caffeoyl-CoA O-methyl 24.8 25 0.00055 31.6 0.1 20 227-246 84-103 (247)
28 PLN03246 26S proteasome regula 24.4 1.3E+02 0.0029 28.1 4.6 75 107-181 150-243 (303)
29 COG4122 Predicted O-methyltran 24.2 29 0.00062 31.2 0.3 18 228-245 65-82 (219)
30 PTZ00087 thrombosponding-relat 24.1 41 0.00089 32.7 1.3 18 240-257 299-316 (340)
31 TIGR00340 zpr1_rel ZPR1-relate 23.6 1.2E+02 0.0026 26.2 4.0 28 94-124 121-148 (163)
32 PF08047 His_leader: Histidine 22.8 37 0.00081 20.2 0.5 7 22-28 9-15 (16)
33 TIGR02808 short_TIGR02808 cons 22.5 55 0.0012 23.6 1.4 21 232-258 11-36 (42)
34 PRK09458 pspB phage shock prot 22.2 56 0.0012 25.8 1.5 22 239-260 3-28 (75)
35 PF04546 Sigma70_ner: Sigma-70 22.0 73 0.0016 27.4 2.4 37 110-147 118-167 (211)
36 TIGR02190 GlrX-dom Glutaredoxi 21.9 1.3E+02 0.0029 21.5 3.3 23 91-117 19-41 (79)
37 PF10717 ODV-E18: Occlusion-de 21.7 59 0.0013 26.4 1.6 13 248-260 34-46 (85)
38 PF03367 zf-ZPR1: ZPR1 zinc-fi 21.6 1.3E+02 0.0028 25.7 3.7 29 93-124 126-154 (161)
39 COG4478 Predicted membrane pro 21.1 57 0.0012 30.1 1.6 18 240-257 128-145 (210)
40 TIGR00310 ZPR1_znf ZPR1 zinc f 21.0 1.4E+02 0.0031 26.4 3.9 27 95-124 125-151 (192)
41 TIGR01588 citE citrate lyase, 20.7 1.9E+02 0.0042 26.1 4.9 41 85-128 95-135 (288)
No 1
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=68.07 E-value=36 Score=30.56 Aligned_cols=114 Identities=11% Similarity=0.111 Sum_probs=65.4
Q ss_pred hccCChHhHHHHHHHHHHHHHHHhhccccccceEEEEEecCcHHH--HHHHhhCCCCCCCCChH-HHHHHHHHhhcCCC-
Q 024782 82 EEEATPEDLENIAQVKRVLELLRKNRDMLFSEVKLTIMIEDPREV--ERRRLLGIEDSNAPTRD-DLAEALEQVNEGKV- 157 (262)
Q Consensus 82 ~~e~~p~dl~~v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR~~--Errr~lGIED~~g~srd-dla~AL~eV~eGri- 157 (262)
.-.|++.+++-+..+.+.++.++++++..+.-|=++ +. +.|.. +-.+.+|+.=..-+.++ .+.+| ...|+.
T Consensus 145 p~~p~~~sl~~~~~l~~~i~~~~~~~~l~~~gvv~n-~~-~~~~~~~~~~~~~~~~vl~~Ip~~~~v~~A---~~~g~pv 219 (290)
T CHL00072 145 ITDNGFDALFAANRIAASVREKARTHPLRLAGLVGN-RT-SKRDLIDKYVEACPMPVLEVLPLIEDIRVS---RVKGKTL 219 (290)
T ss_pred EecCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEe-CC-CchhHHHHHHHHcCCceEEECCCChHHHHH---HhCCCce
Confidence 345888899999889888888876544322111111 12 12221 11233454322234333 34444 334432
Q ss_pred ----Cch------HHHHHHHHHHHhcCCCcchhhcccCCChhhhHhhhccCCChH
Q 024782 158 ----PKN------RVALRMLAEEMVQWPNLEVEATKQKPSKSLYAKVTDTGIDPE 202 (262)
Q Consensus 158 ----P~d------r~AL~~L~eEm~~WP~LE~ea~k~kPskS~YAkatdTGIdP~ 202 (262)
|+. ..+.+.|++|+..++.- ..|+.-|+..+..-+.+-||+|.
T Consensus 220 ~~~~p~s~~~~~~a~~y~~La~ell~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 272 (290)
T CHL00072 220 FEMVESEPSLNYVCDYYLNIADQLLSQPEG--VVPKEVPDRELFSLLSDFYLNPI 272 (290)
T ss_pred EEeCCCCcchhHHHHHHHHHHHHHHhCCCC--cCCCCCCHHHHHHHHHHhccCCC
Confidence 443 47789999999998543 35655666766666778999983
No 2
>PF01788 PsbJ: PsbJ; InterPro: IPR002682 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbJ found in PSII. PsbJ is one of the most hydrophobic proteins in the thylakoid membrane, and is located in a gene cluster with PsbE, PsbF and PsbL (PsbEFJL). Both PsbJ and PsbL (IPR003372 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbJ cause the light-harvesting antenna to remain detached from the PSII dimers []. In addition, both PsbJ and PsbL are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_J 3ARC_J 3A0B_J 3KZI_J 2AXT_J 3PRQ_J 4FBY_b 3BZ2_J 1S5L_j 3PRR_J ....
Probab=63.42 E-value=5.8 Score=28.23 Aligned_cols=28 Identities=36% Similarity=0.477 Sum_probs=23.0
Q ss_pred chhhhhhhcchhhHHHhHHHHHhhhccC
Q 024782 234 GYGALYLVTAFPVIIGISVVLILFYNSL 261 (262)
Q Consensus 234 GygaLYLVSa~PViI~I~vVlILFyNSL 261 (262)
|=-+|+||-.+-=+.+|++|.|.||-|-
T Consensus 6 GRIPLWlVgtv~G~~vi~lvglFfYGsY 33 (40)
T PF01788_consen 6 GRIPLWLVGTVAGIAVIGLVGLFFYGSY 33 (40)
T ss_dssp TSS-HHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred CcccchHHHHHHHHHHHHHHHHheeccc
Confidence 5567888888888999999999999874
No 3
>PF12007 DUF3501: Protein of unknown function (DUF3501); InterPro: IPR021890 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are about 200 amino acids in length. The structure of protein of unknown function (YP_111841.1) from B. pseudomallei has been solved. ; PDB: 3FJV_B.
Probab=54.87 E-value=10 Score=33.93 Aligned_cols=27 Identities=59% Similarity=0.730 Sum_probs=20.5
Q ss_pred ccceEEEEEecCcHHHHHHHh----hCCCCC
Q 024782 111 FSEVKLTIMIEDPREVERRRL----LGIEDS 137 (262)
Q Consensus 111 FnEVKLTi~IEDPR~~Errr~----lGIED~ 137 (262)
=++.|.|+|||=|...|||+. .||||.
T Consensus 83 ~~~l~ATl~IE~~d~~~r~~~L~~L~Gie~~ 113 (192)
T PF12007_consen 83 GGNLKATLMIEIPDEDERRRELARLVGIEDS 113 (192)
T ss_dssp SSEEEEEEEE--SSHHHHHHHHHHCTTGGGC
T ss_pred CCcEEEEEEEEcCCHHHHHHHHHHhcCccce
Confidence 378999999999999999864 588775
No 4
>PF10076 DUF2313: Uncharacterized protein conserved in bacteria (DUF2313); InterPro: IPR018755 Members of this family of proteins comprise various hypothetical and putative bacteriophage tail proteins, including Gp48 from Bacteriophage Mu and other Mu-like prophages such as FluMu.
Probab=54.54 E-value=33 Score=28.44 Aligned_cols=52 Identities=23% Similarity=0.297 Sum_probs=47.1
Q ss_pred HhhCCCCCCCCChHHHHHHHHHhhcCCCCchHHHHHHHHHHHhcCCCcchhhc
Q 024782 130 RLLGIEDSNAPTRDDLAEALEQVNEGKVPKNRVALRMLAEEMVQWPNLEVEAT 182 (262)
Q Consensus 130 r~lGIED~~g~srddla~AL~eV~eGriP~dr~AL~~L~eEm~~WP~LE~ea~ 182 (262)
+.|||.+..+.|-|+--.++..--.++.|-+...|+.+++.+ ++++.++...
T Consensus 59 ~~lgi~~~~~~tle~RR~~i~~k~~~~~~~T~~~l~~~a~~~-G~~~v~I~e~ 110 (179)
T PF10076_consen 59 RMLGIPPNPTDTLEERRARILAKLNSKGPYTIAYLEQLANSL-GYGNVEITEF 110 (179)
T ss_pred HHcCCCCCCCCCHHHHHHHHHHHHHccCCcCHHHHHHHHHHh-CCCCEEEEEe
Confidence 489999999999999999999988899999999999999999 9888777654
No 5
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=47.94 E-value=44 Score=24.03 Aligned_cols=27 Identities=19% Similarity=0.260 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHhh-ccccccceEEE
Q 024782 91 ENIAQVKRVLELLRKN-RDMLFSEVKLT 117 (262)
Q Consensus 91 ~~v~eIk~vL~lLk~~-RDMsFnEVKLT 117 (262)
-+|..++++|+.|+.. ++..|.++.+.
T Consensus 12 ~~C~~a~~~L~~l~~~~~~i~~~~idi~ 39 (85)
T PRK11200 12 PYCVRAKELAEKLSEERDDFDYRYVDIH 39 (85)
T ss_pred hhHHHHHHHHHhhcccccCCcEEEEECC
Confidence 4799999999999877 57777776655
No 6
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster []. In pipsqueak this domain binds to GAGA sequence []. The pipsqueak family, which includes proteins from fungi, sea urchins, nematodes, insects, and vertebrates appear to be proteins essential for sequence-specific targeting of a polycomb group protein complex [].; GO: 0003677 DNA binding; PDB: 2COB_A.
Probab=47.47 E-value=20 Score=24.62 Aligned_cols=19 Identities=42% Similarity=0.679 Sum_probs=15.1
Q ss_pred ChHHHHHHHHHhhcCCCCc
Q 024782 141 TRDDLAEALEQVNEGKVPK 159 (262)
Q Consensus 141 srddla~AL~eV~eGriP~ 159 (262)
|.|+|.+||+.|..|+..-
T Consensus 1 tee~l~~Ai~~v~~g~~S~ 19 (45)
T PF05225_consen 1 TEEDLQKAIEAVKNGKMSI 19 (45)
T ss_dssp -HHHHHHHHHHHHTTSS-H
T ss_pred CHHHHHHHHHHHHhCCCCH
Confidence 6799999999999998543
No 7
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f. Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap
Probab=43.87 E-value=42 Score=29.98 Aligned_cols=75 Identities=20% Similarity=0.315 Sum_probs=48.5
Q ss_pred hccccccceEEEEEecCcHHHHHHHhh-CCCCCCCC-C----h--------------HHHHHHHHHhhcCCCCchHHHHH
Q 024782 106 NRDMLFSEVKLTIMIEDPREVERRRLL-GIEDSNAP-T----R--------------DDLAEALEQVNEGKVPKNRVALR 165 (262)
Q Consensus 106 ~RDMsFnEVKLTi~IEDPR~~Errr~l-GIED~~g~-s----r--------------ddla~AL~eV~eGriP~dr~AL~ 165 (262)
...+.|.||.++|.-+++-..==..+. .+.+...- + . +.+.+-|+.|..|+.|.|-.-+|
T Consensus 138 ~~~~~F~~ip~~i~~~eaE~i~v~~l~~~~~~~~~~~~~~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~i~r 217 (265)
T cd08064 138 TLGSMFVPIPLELLYSEAERVALDLLAKTLASPSRSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKVKADNAIGR 217 (265)
T ss_pred CcceEEEEcceeeecCcHHHHHHHHHHhhccCCcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHH
Confidence 455789999999988765311111122 12222111 1 1 22334456788899999999999
Q ss_pred HHHHHHhcCCCcchh
Q 024782 166 MLAEEMVQWPNLEVE 180 (262)
Q Consensus 166 ~L~eEm~~WP~LE~e 180 (262)
.|.+=+...|.++.+
T Consensus 218 ~l~~~~~~lp~~~~~ 232 (265)
T cd08064 218 YLMDALTSVPKLDPE 232 (265)
T ss_pred HHHHHHhhCCCCCHH
Confidence 999999999998743
No 8
>CHL00108 psbJ photosystem II protein J
Probab=42.85 E-value=4.6 Score=28.73 Aligned_cols=28 Identities=32% Similarity=0.469 Sum_probs=22.4
Q ss_pred chhhhhhhcchhhHHHhHHHHHhhhccC
Q 024782 234 GYGALYLVTAFPVIIGISVVLILFYNSL 261 (262)
Q Consensus 234 GygaLYLVSa~PViI~I~vVlILFyNSL 261 (262)
|=-+|+||-.+-=+.+|++|.|.||-|-
T Consensus 6 GRiPLWlVgtv~G~~vi~~vgiFfyGsY 33 (40)
T CHL00108 6 GRIPLWLIGTVAGIAVIGLLGIFFYGSY 33 (40)
T ss_pred ccccEEeeeehhhHhHHheeeeEEeecc
Confidence 5557777777777888999999999873
No 9
>PRK02565 photosystem II reaction center protein J; Provisional
Probab=41.87 E-value=6.2 Score=27.97 Aligned_cols=28 Identities=36% Similarity=0.416 Sum_probs=22.5
Q ss_pred chhhhhhhcchhhHHHhHHHHHhhhccC
Q 024782 234 GYGALYLVTAFPVIIGISVVLILFYNSL 261 (262)
Q Consensus 234 GygaLYLVSa~PViI~I~vVlILFyNSL 261 (262)
|=-+|+||-.+-=+.+|++|.|.||-|-
T Consensus 5 GriPLWlV~tv~G~~vi~~vgiFfyGsY 32 (39)
T PRK02565 5 GRIPLWLVATVAGMGVIFVVGLFFYGSY 32 (39)
T ss_pred CccceeehhhhhHHHHHhheeeEEeecc
Confidence 5567778877777888999999999873
No 10
>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=39.74 E-value=47 Score=23.24 Aligned_cols=36 Identities=22% Similarity=0.476 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHhhccccccceEEEEEecCcHHHHHHHhhC
Q 024782 91 ENIAQVKRVLELLRKNRDMLFSEVKLTIMIEDPREVERRRLLG 133 (262)
Q Consensus 91 ~~v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR~~Errr~lG 133 (262)
-+|+.++++|+ +++..|.++.++ +||...++-+.+|
T Consensus 10 p~C~~ak~~L~----~~~i~~~~~di~---~~~~~~~~~~~~g 45 (72)
T TIGR02194 10 VQCKMTKKALE----EHGIAFEEINID---EQPEAIDYVKAQG 45 (72)
T ss_pred HHHHHHHHHHH----HCCCceEEEECC---CCHHHHHHHHHcC
Confidence 47888888886 578999888775 5665555433345
No 11
>PRK11177 phosphoenolpyruvate-protein phosphotransferase; Provisional
Probab=36.25 E-value=70 Score=32.32 Aligned_cols=70 Identities=19% Similarity=0.330 Sum_probs=43.4
Q ss_pred CChHhHHHHHHHHHHHHHHHhhccccccc-eEEEEEecCcHHHHHHHhhCCCCCCCC--ChHHHHHHHHHhhcC
Q 024782 85 ATPEDLENIAQVKRVLELLRKNRDMLFSE-VKLTIMIEDPREVERRRLLGIEDSNAP--TRDDLAEALEQVNEG 155 (262)
Q Consensus 85 ~~p~dl~~v~eIk~vL~lLk~~RDMsFnE-VKLTi~IEDPR~~Errr~lGIED~~g~--srddla~AL~eV~eG 155 (262)
.|+++++-++++.+-...--+.....|++ +++-+|||.|..+..=..+- +.-|++ -.-||..-+-.+.+|
T Consensus 394 ~t~eE~~~~~~~~~~~~~~l~~~~~~~~~~~~~g~mIE~p~a~~~~d~i~-~~vDf~sIGtnDL~qy~la~dr~ 466 (575)
T PRK11177 394 ISVEEVRELKAEIEILKQELRDEGKAFDESIEIGVMVETPAAAVIARHLA-KEVDFFSIGTNDLTQYTLAVDRG 466 (575)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhccccCCCcEEEEEEeCHHHHHhHHHHH-hhCCEEEECcHHHHHHHHHhccC
Confidence 45666666555444332222355677864 99999999999998744432 233443 356888877655555
No 12
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=36.12 E-value=15 Score=29.95 Aligned_cols=45 Identities=22% Similarity=0.426 Sum_probs=16.9
Q ss_pred CCCCCCCCChHHHHHHHHHhhcCCCCchHHHHHHHHHHHhcCCCc
Q 024782 133 GIEDSNAPTRDDLAEALEQVNEGKVPKNRVALRMLAEEMVQWPNL 177 (262)
Q Consensus 133 GIED~~g~srddla~AL~eV~eGriP~dr~AL~~L~eEm~~WP~L 177 (262)
=|=|+...++|++.++|++.+---|-...+.+++|.+.=..|-|.
T Consensus 40 VifDe~kl~~e~lL~~le~~kpEVi~ek~lTveELIE~SmSW~Ni 84 (88)
T PF11491_consen 40 VIFDESKLSKEELLEMLEEFKPEVIEEKELTVEELIESSMSWNNI 84 (88)
T ss_dssp EE--B-S-SHHHH---HHHTTT-SS-------SS-----------
T ss_pred EEECcccCCHHHHHHHHHhcChhheeeccccHHHHHHHhccHhhh
Confidence 356888999999999999998888888899999999999999875
No 13
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=35.14 E-value=15 Score=32.05 Aligned_cols=18 Identities=44% Similarity=0.820 Sum_probs=16.4
Q ss_pred CCCCccchhhhhhhcchh
Q 024782 228 EVPSALGYGALYLVTAFP 245 (262)
Q Consensus 228 ~vp~~vGygaLYLVSa~P 245 (262)
++++..||++|++..++|
T Consensus 51 EIGt~~GySal~la~~l~ 68 (205)
T PF01596_consen 51 EIGTFTGYSALWLAEALP 68 (205)
T ss_dssp EESTTTSHHHHHHHHTST
T ss_pred EeccccccHHHHHHHhhc
Confidence 478999999999999988
No 14
>COG3443 Predicted periplasmic or secreted protein [General function prediction only]
Probab=33.38 E-value=24 Score=32.01 Aligned_cols=12 Identities=42% Similarity=0.949 Sum_probs=10.2
Q ss_pred HHHHHHHhcCCC
Q 024782 165 RMLAEEMVQWPN 176 (262)
Q Consensus 165 ~~L~eEm~~WP~ 176 (262)
+.|++||.|||-
T Consensus 164 eaLl~EmeNWPT 175 (193)
T COG3443 164 EALLDEMENWPT 175 (193)
T ss_pred HHHHHHHhcCCc
Confidence 568999999993
No 15
>PF13034 DUF3895: Protein of unknown function (DUF3895)
Probab=29.94 E-value=46 Score=26.39 Aligned_cols=31 Identities=23% Similarity=0.511 Sum_probs=26.6
Q ss_pred HhhC--CCCCCCCChHHHHHHHHHhhcCCCCchHH
Q 024782 130 RLLG--IEDSNAPTRDDLAEALEQVNEGKVPKNRV 162 (262)
Q Consensus 130 r~lG--IED~~g~srddla~AL~eV~eGriP~dr~ 162 (262)
..+. |++++++|..|+.+-| |.+|.+|+.|-
T Consensus 7 ~~i~~yi~n~~~Isa~elcE~L--I~~~~~~~~ry 39 (78)
T PF13034_consen 7 EFINWYIQNEEEISARELCEYL--IENGGSPNKRY 39 (78)
T ss_pred HHHHHHHhccccccHHHHHHHH--HHcCCCccccc
Confidence 5778 9999999999999987 67899998773
No 16
>smart00709 Zpr1 Duplicated domain in the epidermal growth factor- and elongation factor-1alpha-binding protein Zpr1. Also present in archaeal proteins.
Probab=28.98 E-value=81 Score=27.02 Aligned_cols=33 Identities=27% Similarity=0.423 Sum_probs=19.4
Q ss_pred ChHhHHHHHHHHHHHHHHHhhccccccceEEEEEecCcH
Q 024782 86 TPEDLENIAQVKRVLELLRKNRDMLFSEVKLTIMIEDPR 124 (262)
Q Consensus 86 ~p~dl~~v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR 124 (262)
.|+..+.+.++.+-|+-++ =++.+.|+-|+||-
T Consensus 121 ~~e~~~k~~~~~~~L~~~~------~g~~~fTliidDP~ 153 (160)
T smart00709 121 DPETKEKIDEFLEKLKELI------EGKEPFTLILDDPA 153 (160)
T ss_pred CHHHHHHHHHHHHHHHHHH------cCCCCEEEEEECCC
Confidence 4555444444444333333 33678999999994
No 17
>PRK10329 glutaredoxin-like protein; Provisional
Probab=28.59 E-value=76 Score=23.50 Aligned_cols=36 Identities=25% Similarity=0.377 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHhhccccccceEEEEEecCcHHHHHHHhhC
Q 024782 91 ENIAQVKRVLELLRKNRDMLFSEVKLTIMIEDPREVERRRLLG 133 (262)
Q Consensus 91 ~~v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR~~Errr~lG 133 (262)
-||..++++|+ .+.+.|.++.++ +||-..++-+..|
T Consensus 12 p~C~~ak~~L~----~~gI~~~~idi~---~~~~~~~~~~~~g 47 (81)
T PRK10329 12 VQCHATKRAME----SRGFDFEMINVD---RVPEAAETLRAQG 47 (81)
T ss_pred HhHHHHHHHHH----HCCCceEEEECC---CCHHHHHHHHHcC
Confidence 47888888874 568899988776 5665555443334
No 18
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=28.46 E-value=81 Score=24.47 Aligned_cols=51 Identities=18% Similarity=0.277 Sum_probs=36.0
Q ss_pred CChHhHHHHHHHHHHHHHHHhhccccccceEEEEEecCcHHHHHHHhhCCCCCCCCChHHHHHHHHHhh
Q 024782 85 ATPEDLENIAQVKRVLELLRKNRDMLFSEVKLTIMIEDPREVERRRLLGIEDSNAPTRDDLAEALEQVN 153 (262)
Q Consensus 85 ~~p~dl~~v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR~~Errr~lGIED~~g~srddla~AL~eV~ 153 (262)
-|++|+..++.|+.. .+...|+.++++ ++++-++.....++++.++|.+|.
T Consensus 39 Yt~~di~~l~~I~~l----lr~~G~~l~~i~--------------~~l~~~~~~~~~~~~~~~~~~~~~ 89 (99)
T cd04765 39 YRPKDVELLLLIKHL----LYEKGYTIEGAK--------------QALKEDGAAAIREEEAEERLPSIR 89 (99)
T ss_pred eCHHHHHHHHHHHHH----HHHCCCCHHHHH--------------HHHHhccccccchhhHHHHHHHHH
Confidence 456677766666553 345678877764 577777777788999999888764
No 19
>TIGR01828 pyru_phos_dikin pyruvate, phosphate dikinase. This model represents pyruvate,phosphate dikinase, also called pyruvate,orthophosphate dikinase. It is similar in sequence to other PEP-utilizing enzymes.
Probab=28.35 E-value=90 Score=33.18 Aligned_cols=87 Identities=22% Similarity=0.284 Sum_probs=52.0
Q ss_pred CChHhHHHHHHHHH-HHHHHHhhccccccceEEEEEecCcHHHHHHHhh---------CCCCC----CCCChHHHHHHHH
Q 024782 85 ATPEDLENIAQVKR-VLELLRKNRDMLFSEVKLTIMIEDPREVERRRLL---------GIEDS----NAPTRDDLAEALE 150 (262)
Q Consensus 85 ~~p~dl~~v~eIk~-vL~lLk~~RDMsFnEVKLTi~IEDPR~~Errr~l---------GIED~----~g~srddla~AL~ 150 (262)
-+.++++.++++.+ +.+-|++...+.|+ +++=+|||=||.+=.=..+ |-.|. =|++|++....+.
T Consensus 704 ~~~~E~~~~k~~i~~~~~~l~~~~g~~~~-~~iG~MiE~P~aal~ad~la~~~DFfSiGTNDLtQ~tlg~dR~~~~~~~~ 782 (856)
T TIGR01828 704 GEKNELKILKDVLEEVAAEVFKEYGVTVP-YEIGTMIEIPRAALTADKIAEEADFFSFGTNDLTQMTFGFSRDDAGKFLP 782 (856)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCCccC-CeEEEEEehHHHHHHHHHHHHhCCEEEECccHHHHHHhccCccchhhhHH
Confidence 45777777775544 55566665567787 9999999999987542222 33332 2566776654444
Q ss_pred H-hhcCCCCch------HHHHHHHHHHHh
Q 024782 151 Q-VNEGKVPKN------RVALRMLAEEMV 172 (262)
Q Consensus 151 e-V~eGriP~d------r~AL~~L~eEm~ 172 (262)
. +..|=.+.| ..|+..|.+...
T Consensus 783 ~y~~~~i~~~~P~~~ld~paV~~li~~~i 811 (856)
T TIGR01828 783 KYLEKGILEKDPFESLDQTGVGQLMRMAV 811 (856)
T ss_pred HHHhcCcccCCcccccCcHHHHHHHHHHH
Confidence 4 334555554 345555555443
No 20
>PRK08045 cystathionine gamma-synthase; Provisional
Probab=27.63 E-value=84 Score=29.29 Aligned_cols=13 Identities=31% Similarity=0.608 Sum_probs=10.0
Q ss_pred HHHHHHHHHhhcC
Q 024782 143 DDLAEALEQVNEG 155 (262)
Q Consensus 143 ddla~AL~eV~eG 155 (262)
+|+.+||..++.|
T Consensus 374 ~dl~~al~~~~~~ 386 (386)
T PRK08045 374 ADLENGFRAANKG 386 (386)
T ss_pred HHHHHHHHHhhcC
Confidence 5788888887765
No 21
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8. This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.
Probab=27.22 E-value=1.1e+02 Score=28.06 Aligned_cols=75 Identities=29% Similarity=0.385 Sum_probs=51.0
Q ss_pred ccccccceEEEEEecCcHHHHHHHhh-CCCCCCCCCh------------------HHHHHHHHHhhcCCCCchHHHHHHH
Q 024782 107 RDMLFSEVKLTIMIEDPREVERRRLL-GIEDSNAPTR------------------DDLAEALEQVNEGKVPKNRVALRML 167 (262)
Q Consensus 107 RDMsFnEVKLTi~IEDPR~~Errr~l-GIED~~g~sr------------------ddla~AL~eV~eGriP~dr~AL~~L 167 (262)
.-+.|.+|..+|.-+++-.+==..++ ++.+...-+- +++.+-|+.|.+|++|-|...+|.|
T Consensus 144 ~~~~F~~vp~~i~~~eaE~igve~l~r~~~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~~~d~~IlR~l 223 (280)
T cd08062 144 TSKTFVHVPSEIGAEEAEEVGVEHLLRDIKDVTVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQLVVEGKLPINHQIIYNL 223 (280)
T ss_pred ceeEEEEcceEeeccchHHHHHHHHHhhccCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHH
Confidence 44789999988887765432111222 3443322111 3344567779999999999999999
Q ss_pred HHHHhcCCCcchhh
Q 024782 168 AEEMVQWPNLEVEA 181 (262)
Q Consensus 168 ~eEm~~WP~LE~ea 181 (262)
.+=+..=|+++.+.
T Consensus 224 ~~~~~~lP~l~~~~ 237 (280)
T cd08062 224 QDIFNLLPNLNLPE 237 (280)
T ss_pred HHHHHhCCCCCHHH
Confidence 99999999987644
No 22
>PF14610 DUF4448: Protein of unknown function (DUF4448)
Probab=26.72 E-value=29 Score=29.31 Aligned_cols=23 Identities=22% Similarity=0.492 Sum_probs=18.8
Q ss_pred hhhhhhcchhhHHHhHHHHHhhh
Q 024782 236 GALYLVTAFPVIIGISVVLILFY 258 (262)
Q Consensus 236 gaLYLVSa~PViI~I~vVlILFy 258 (262)
+..++.-++||++++.+++++++
T Consensus 156 ~~~~laI~lPvvv~~~~~~~~~~ 178 (189)
T PF14610_consen 156 GKYALAIALPVVVVVLALIMYGF 178 (189)
T ss_pred cceeEEEEccHHHHHHHHHHHhh
Confidence 78889999999998877776654
No 23
>PF03328 HpcH_HpaI: HpcH/HpaI aldolase/citrate lyase family; InterPro: IPR005000 This family includes 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase (4.1.2 from EC) and 4-hydroxy-2-oxovalerate aldolase (4.1.2 from EC). ; GO: 0016830 carbon-carbon lyase activity, 0006725 cellular aromatic compound metabolic process; PDB: 1DXF_B 1DXE_A 3QZ6_A 3QLL_C 3QQW_F 3OYZ_A 3PUG_A 3OYX_A 1IZC_A 2V5K_B ....
Probab=26.24 E-value=57 Score=27.65 Aligned_cols=42 Identities=29% Similarity=0.269 Sum_probs=26.2
Q ss_pred hHhHHHHHHHHHHHHHHHhhccccccceEEEEEecCcHHHHH
Q 024782 87 PEDLENIAQVKRVLELLRKNRDMLFSEVKLTIMIEDPREVER 128 (262)
Q Consensus 87 p~dl~~v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR~~Er 128 (262)
-+..+.++++.+.++.....+-..-+.+++.+|||.|..+++
T Consensus 93 ves~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~IET~~gv~~ 134 (221)
T PF03328_consen 93 VESAEDARQAVAALRYPPAGRRGANGSTKIIPMIETPEGVEN 134 (221)
T ss_dssp --SHHHHHHHHHHHSHTTTCTTTHHCHSEEEEEE-SHHHHHT
T ss_pred cCcHHHHHHHHHHHhhcccccccccCceEEEEeeccHHHHhC
Confidence 344444445555555554444445678999999999999987
No 24
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=26.08 E-value=32 Score=25.07 Aligned_cols=20 Identities=5% Similarity=0.145 Sum_probs=13.3
Q ss_pred hcchhhHHHhHHHHHhhhcc
Q 024782 241 VTAFPVIIGISVVLILFYNS 260 (262)
Q Consensus 241 VSa~PViI~I~vVlILFyNS 260 (262)
+..+||||+.++++++..|-
T Consensus 4 ~~iV~i~iv~~lLg~~I~~~ 23 (50)
T PF12606_consen 4 FLIVSIFIVMGLLGLSICTT 23 (50)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 34467888877777776553
No 25
>TIGR01417 PTS_I_fam phosphoenolpyruvate-protein phosphotransferase. This model recognizes a distinct clade of phophoenolpyruvate (PEP)-dependent enzymes. Most members are known or deduced to function as the phosphoenolpyruvate-protein phosphotransferase (or enzyme I) of PTS sugar transport systems. However, some species with both a member of this family and a homolog of the phosphocarrier protein HPr lack a IIC component able to serve as a permease. An HPr homolog designated NPr has been implicated in the regulation of nitrogen assimilation, which demonstrates that not all phosphotransferase system components are associated directly with PTS transport.
Probab=25.80 E-value=1.3e+02 Score=30.26 Aligned_cols=43 Identities=21% Similarity=0.281 Sum_probs=25.7
Q ss_pred ChHhHHHHHHHHHHHH-HHHhhcccccc-ceEEEEEecCcHHHHHH
Q 024782 86 TPEDLENIAQVKRVLE-LLRKNRDMLFS-EVKLTIMIEDPREVERR 129 (262)
Q Consensus 86 ~p~dl~~v~eIk~vL~-lLk~~RDMsFn-EVKLTi~IEDPR~~Err 129 (262)
|+++++.++++.+-.. -|+ ..-..|| ++++-+|||.|..++.=
T Consensus 394 t~eE~~~~~~~~~~~~~~l~-~~~~~~~~~~~vg~mIEtpaav~~~ 438 (565)
T TIGR01417 394 TVEEIRAVKQELEEEKQELN-DEGKAFDENIEVGVMIEIPSAALIA 438 (565)
T ss_pred CHHHHHHHHHHHHHHHHHHH-HhccccccCcEEEEEEcCHHHHHhH
Confidence 4555554444333211 122 2234555 59999999999999873
No 26
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=25.07 E-value=1.2e+02 Score=31.60 Aligned_cols=83 Identities=17% Similarity=0.161 Sum_probs=48.0
Q ss_pred CChHhHHHHHHHHH-HHHHHHhhccccccceEEEEEecCcHHHHHHHhhCCCCCCCC--ChHHHHHHHHHhhcCC-----
Q 024782 85 ATPEDLENIAQVKR-VLELLRKNRDMLFSEVKLTIMIEDPREVERRRLLGIEDSNAP--TRDDLAEALEQVNEGK----- 156 (262)
Q Consensus 85 ~~p~dl~~v~eIk~-vL~lLk~~RDMsFnEVKLTi~IEDPR~~Errr~lGIED~~g~--srddla~AL~eV~eGr----- 156 (262)
.+.++++.++++.+ +-+-|+......|+.+++=||||=|..+-.=..+ .+--|.+ ---||.+-+-.+-++-
T Consensus 560 ~~~~E~~~~~~~~~~~~~~l~~~~~~~~~~~~~G~MiE~Paa~~~~~~~-a~~~DF~SIGtNDL~Qy~la~DR~n~~v~~ 638 (748)
T PRK11061 560 TSIDEVDEARRLIDRAGREVEEMLGYEIPKPRIGIMIEVPSMVFMLPHL-ASRVDFISVGTNDLTQYLLAVDRNNTRVAS 638 (748)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEEehHHHHHHHHHH-HHhCCEEEECccHHHHHHHHhcCCChHHHh
Confidence 34556665555443 3334655667788889999999999998654333 1112222 2346666665555543
Q ss_pred --CCchHHHHHHHH
Q 024782 157 --VPKNRVALRMLA 168 (262)
Q Consensus 157 --iP~dr~AL~~L~ 168 (262)
-|-+-..||++.
T Consensus 639 ~~~~~~Pavlr~i~ 652 (748)
T PRK11061 639 LYDSLHPAMLRALK 652 (748)
T ss_pred hcCCCCHHHHHHHH
Confidence 344445555554
No 27
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=24.83 E-value=25 Score=31.60 Aligned_cols=20 Identities=30% Similarity=0.355 Sum_probs=17.2
Q ss_pred CCCCCccchhhhhhhcchhh
Q 024782 227 PEVPSALGYGALYLVTAFPV 246 (262)
Q Consensus 227 ~~vp~~vGygaLYLVSa~PV 246 (262)
=+++|..||++|++..+.|-
T Consensus 84 LEiGT~~GySal~la~al~~ 103 (247)
T PLN02589 84 MEIGVYTGYSLLATALALPE 103 (247)
T ss_pred EEEeChhhHHHHHHHhhCCC
Confidence 35789999999999999873
No 28
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=24.38 E-value=1.3e+02 Score=28.13 Aligned_cols=75 Identities=29% Similarity=0.417 Sum_probs=50.4
Q ss_pred ccccccceEEEEEecCcHHHHHHHhh-CCCCCCCCCh------------------HHHHHHHHHhhcCCCCchHHHHHHH
Q 024782 107 RDMLFSEVKLTIMIEDPREVERRRLL-GIEDSNAPTR------------------DDLAEALEQVNEGKVPKNRVALRML 167 (262)
Q Consensus 107 RDMsFnEVKLTi~IEDPR~~Errr~l-GIED~~g~sr------------------ddla~AL~eV~eGriP~dr~AL~~L 167 (262)
..+.|-+|..+|.-+++-.+==..++ ++.+...-+- +.+.+-|+.|.+|++|-|...+|.|
T Consensus 150 ~~~~F~~vp~~i~~~EaE~Igve~l~r~~~~~~~s~l~~~l~~~~~al~~L~~rl~~i~~Yl~~V~~g~~~~d~~IlR~l 229 (303)
T PLN03246 150 SQKVFVHVPSEIGAHEAEEIGVEHLLRDVKDTTVSTLATEVTGKLTALKGLDARLREIRSYLDLVVEGKLPLNHEILYHL 229 (303)
T ss_pred cccEEEECCeeeeecCHHHHHHHHHHhcccCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHH
Confidence 34679999999988885321111111 2333222111 2334556778999999999999999
Q ss_pred HHHHhcCCCcchhh
Q 024782 168 AEEMVQWPNLEVEA 181 (262)
Q Consensus 168 ~eEm~~WP~LE~ea 181 (262)
.+=+..=|.++.+.
T Consensus 230 ~~l~~~lP~l~~~~ 243 (303)
T PLN03246 230 QDVFNLLPNLNVEE 243 (303)
T ss_pred HHHHhhCCCCCHHH
Confidence 99999999987654
No 29
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=24.25 E-value=29 Score=31.24 Aligned_cols=18 Identities=44% Similarity=0.938 Sum_probs=16.7
Q ss_pred CCCCccchhhhhhhcchh
Q 024782 228 EVPSALGYGALYLVTAFP 245 (262)
Q Consensus 228 ~vp~~vGygaLYLVSa~P 245 (262)
+++|..||++|++..+.|
T Consensus 65 EiGT~~GySal~mA~~l~ 82 (219)
T COG4122 65 EIGTAIGYSALWMALALP 82 (219)
T ss_pred EeecccCHHHHHHHhhCC
Confidence 578999999999999998
No 30
>PTZ00087 thrombosponding-related protein; Provisional
Probab=24.11 E-value=41 Score=32.67 Aligned_cols=18 Identities=33% Similarity=0.689 Sum_probs=15.8
Q ss_pred hhcchhhHHHhHHHHHhh
Q 024782 240 LVTAFPVIIGISVVLILF 257 (262)
Q Consensus 240 LVSa~PViI~I~vVlILF 257 (262)
|..++||+|+|+|+.||+
T Consensus 299 ~~i~~piv~vi~v~~ily 316 (340)
T PTZ00087 299 LIILLPIVLIICVMGILY 316 (340)
T ss_pred eeeehhHHHHHHHHHHHH
Confidence 567899999999999984
No 31
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=23.64 E-value=1.2e+02 Score=26.25 Aligned_cols=28 Identities=29% Similarity=0.514 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHhhccccccceEEEEEecCcH
Q 024782 94 AQVKRVLELLRKNRDMLFSEVKLTIMIEDPR 124 (262)
Q Consensus 94 ~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR 124 (262)
..+.++|+-|++-++. +.+.|+-|+||-
T Consensus 121 ~k~~~~l~kL~~~~~g---~~pfTlIldDP~ 148 (163)
T TIGR00340 121 KKCEEILKRIREVIEG---KFKFTLIIEDPF 148 (163)
T ss_pred HHHHHHHHHHHHHHhC---CCCeEEEEECCC
Confidence 4445555555554443 668999999994
No 32
>PF08047 His_leader: Histidine operon leader peptide; InterPro: IPR012565 This family consists of the leader peptide of the histidine (his) operon. The his operon contains all the genes necessary for histidine biosynthesis. The region corresponding to the untranslated 5'-end of the transcript, named the his leader region, displays the typical features of the T box transcriptional attenuation mechanism which is involved in the regulation of many amino acid biosynthetic operons [].; GO: 0000105 histidine biosynthetic process
Probab=22.76 E-value=37 Score=20.17 Aligned_cols=7 Identities=43% Similarity=0.999 Sum_probs=3.9
Q ss_pred ccccccc
Q 024782 22 QINQHHP 28 (262)
Q Consensus 22 ~~~~hh~ 28 (262)
.+|||||
T Consensus 9 hhhhhhp 15 (16)
T PF08047_consen 9 HHHHHHP 15 (16)
T ss_pred cccccCC
Confidence 4555665
No 33
>TIGR02808 short_TIGR02808 conserved hypothetical protein TIGR02808. This very small protein (about 46 amino acids) consists largely of a single predicted membrane-spanning region. It is found in Photobacterium profundum SS9 and in three species of Vibrio, always near periplasmic nitrate reductase genes, but far from the periplasmic nitrate reductase genes in Aeromonas hydrophila ATCC7966.
Probab=22.49 E-value=55 Score=23.61 Aligned_cols=21 Identities=52% Similarity=0.964 Sum_probs=12.4
Q ss_pred ccchhhhhhhcchhhHH-----HhHHHHHhhh
Q 024782 232 ALGYGALYLVTAFPVII-----GISVVLILFY 258 (262)
Q Consensus 232 ~vGygaLYLVSa~PViI-----~I~vVlILFy 258 (262)
+.||+ |.|||| +++++.|...
T Consensus 11 ilGY~------AmPvIil~GF~~Va~~si~lL 36 (42)
T TIGR02808 11 VLGYG------AMPFIILSGFVAVAVTSILLL 36 (42)
T ss_pred Hhccc------ccchHHhhhhHHHHHHHHHHH
Confidence 36775 567776 4555555443
No 34
>PRK09458 pspB phage shock protein B; Provisional
Probab=22.23 E-value=56 Score=25.76 Aligned_cols=22 Identities=41% Similarity=0.493 Sum_probs=15.3
Q ss_pred hhhcchhhHHHhHHH----HHhhhcc
Q 024782 239 YLVTAFPVIIGISVV----LILFYNS 260 (262)
Q Consensus 239 YLVSa~PViI~I~vV----lILFyNS 260 (262)
+++.++|++|.+-+| |||-|+|
T Consensus 3 ~~fl~~PliiF~ifVaPiWL~LHY~s 28 (75)
T PRK09458 3 ALFLAIPLTIFVLFVAPIWLWLHYRS 28 (75)
T ss_pred chHHHHhHHHHHHHHHHHHHHHhhcc
Confidence 455678877776665 5777877
No 35
>PF04546 Sigma70_ner: Sigma-70, non-essential region; InterPro: IPR007631 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SIG_A 3IYD_F.
Probab=22.05 E-value=73 Score=27.41 Aligned_cols=37 Identities=27% Similarity=0.468 Sum_probs=26.2
Q ss_pred cccceEEE------------EEecCcHHHHHHHhhCCC-CCCCCChHHHHH
Q 024782 110 LFSEVKLT------------IMIEDPREVERRRLLGIE-DSNAPTRDDLAE 147 (262)
Q Consensus 110 sFnEVKLT------------i~IEDPR~~Errr~lGIE-D~~g~srddla~ 147 (262)
.|.++||+ -.+++=|..|| ++|.|- +.-|+.|++...
T Consensus 118 ~~~~ikl~~k~id~L~~~lr~~~~~Ir~~Er-~i~~l~v~~~gmpR~~Fi~ 167 (211)
T PF04546_consen 118 EFMEIKLSPKQIDRLVEQLREIVERIRQQER-RIMRLCVRRAGMPRKEFIK 167 (211)
T ss_dssp HHTTCEE-HHHHHHHCHHHHCCCHHHHHHHH-HHHHCCCTTTT--HHHCCC
T ss_pred HHHhhccCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhCCCHHHHHH
Confidence 48889987 36777888888 588888 778888877643
No 36
>TIGR02190 GlrX-dom Glutaredoxin-family domain. This C-terminal domain with homology to glutaredoxin is fused to an N-terminal peroxiredoxin-like domain.
Probab=21.90 E-value=1.3e+02 Score=21.49 Aligned_cols=23 Identities=26% Similarity=0.332 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHhhccccccceEEE
Q 024782 91 ENIAQVKRVLELLRKNRDMLFSEVKLT 117 (262)
Q Consensus 91 ~~v~eIk~vL~lLk~~RDMsFnEVKLT 117 (262)
-+|..+|++|+ ..+..|.++.+.
T Consensus 19 p~C~~ak~~L~----~~gi~y~~idi~ 41 (79)
T TIGR02190 19 PFCAKAKATLK----EKGYDFEEIPLG 41 (79)
T ss_pred HhHHHHHHHHH----HcCCCcEEEECC
Confidence 47888888886 457888887653
No 37
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=21.69 E-value=59 Score=26.37 Aligned_cols=13 Identities=31% Similarity=0.703 Sum_probs=9.1
Q ss_pred HHhHHHHHhhhcc
Q 024782 248 IGISVVLILFYNS 260 (262)
Q Consensus 248 I~I~vVlILFyNS 260 (262)
.+|-+.|||||||
T Consensus 34 LVIIiLlImlfqs 46 (85)
T PF10717_consen 34 LVIIILLIMLFQS 46 (85)
T ss_pred HHHHHHHHHHHhc
Confidence 3455668888887
No 38
>PF03367 zf-ZPR1: ZPR1 zinc-finger domain; InterPro: IPR004457 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents ZPR1-type zinc finger domains. An orthologous protein found once in each of the completed archaeal genomes corresponds to a zinc finger-containing domain repeated as the N-terminal and C-terminal halves of the mouse protein ZPR1. ZPR1 is an experimentally proven zinc-binding protein that binds the tyrosine kinase domain of the epidermal growth factor receptor (EGFR); binding is inhibited by EGF stimulation and tyrosine phosphorylation, and activation by EGF is followed by some redistribution of ZPR1 to the nucleus. By analogy, other proteins with the ZPR1 zinc finger domain may be regulatory proteins that sense protein phosphorylation state and/or participate in signal transduction (see also IPR004470 from INTERPRO). Deficiencies in ZPR1 may contribute to neurodegenerative disorders. ZPR1 appears to be down-regulated in patients with spinal muscular atrophy (SMA), a disease characterised by degeneration of the alpha-motor neurons in the spinal cord that can arise from mutations affecting the expression of Survival Motor Neurons (SMN) []. ZPR1 interacts with complexes formed by SMN [], and may act as a modifier that effects the severity of SMA. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2QKD_A.
Probab=21.55 E-value=1.3e+02 Score=25.68 Aligned_cols=29 Identities=21% Similarity=0.441 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHhhccccccceEEEEEecCcH
Q 024782 93 IAQVKRVLELLRKNRDMLFSEVKLTIMIEDPR 124 (262)
Q Consensus 93 v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR 124 (262)
...+..+++.|++-++ ++.+.|+-|+||-
T Consensus 126 ~~~~~~~i~~L~~~~~---g~~pfTlIidDP~ 154 (161)
T PF03367_consen 126 KEKIEEFIEKLDELIE---GKRPFTLIIDDPS 154 (161)
T ss_dssp HHHHHHHHHHHHHHHC---TSS-EEEEEEETT
T ss_pred HHHHHHHHHHHHHHHc---CCCCEEEEEECCC
Confidence 3444555555555555 4568999999994
No 39
>COG4478 Predicted membrane protein [Function unknown]
Probab=21.12 E-value=57 Score=30.09 Aligned_cols=18 Identities=44% Similarity=0.824 Sum_probs=14.3
Q ss_pred hhcchhhHHHhHHHHHhh
Q 024782 240 LVTAFPVIIGISVVLILF 257 (262)
Q Consensus 240 LVSa~PViI~I~vVlILF 257 (262)
++--+|++||+++++|-|
T Consensus 128 ~l~v~pliIGv~~~ligF 145 (210)
T COG4478 128 LLLVLPLIIGVAASLIGF 145 (210)
T ss_pred HHHHHHHHHHHHHHHccH
Confidence 456789999999988644
No 40
>TIGR00310 ZPR1_znf ZPR1 zinc finger domain.
Probab=20.96 E-value=1.4e+02 Score=26.40 Aligned_cols=27 Identities=30% Similarity=0.607 Sum_probs=17.4
Q ss_pred HHHHHHHHHHhhccccccceEEEEEecCcH
Q 024782 95 QVKRVLELLRKNRDMLFSEVKLTIMIEDPR 124 (262)
Q Consensus 95 eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR 124 (262)
.+..+|+-|++-++ ++...|+-|+||-
T Consensus 125 k~~~~i~kL~~~~~---g~~pfTlIidDP~ 151 (192)
T TIGR00310 125 RAEEILERLKEAIE---GKEKFTVILEDPL 151 (192)
T ss_pred HHHHHHHHHHHHHh---CCCCEEEEEECCC
Confidence 34444444444444 4778999999995
No 41
>TIGR01588 citE citrate lyase, beta subunit. This is a model of the beta subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The beta subunit catalyzes the reaction (3S)-citryl-CoA = acetyl-CoA + oxaloacetate. The seed contains an experimentally characterized member from Leuconostoc mesenteroides. The model covers a wide range of Gram positive bacteria. For Gram negative bacteria, it appears that only gamma proteobacteria hit this model. The model is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in-between the noise cutoff and trusted cutoff.
Probab=20.67 E-value=1.9e+02 Score=26.14 Aligned_cols=41 Identities=22% Similarity=0.251 Sum_probs=27.8
Q ss_pred CChHhHHHHHHHHHHHHHHHhhccccccceEEEEEecCcHHHHH
Q 024782 85 ATPEDLENIAQVKRVLELLRKNRDMLFSEVKLTIMIEDPREVER 128 (262)
Q Consensus 85 ~~p~dl~~v~eIk~vL~lLk~~RDMsFnEVKLTi~IEDPR~~Er 128 (262)
-|++|++++.+..+ .+-+.....-+++++..+||.|+.+++
T Consensus 95 ~s~~~v~~~~~~l~---~~~~~~~~~~~~~~i~~~IET~~gv~~ 135 (288)
T TIGR01588 95 DTAEDIHELEKLIE---RIEKEIGREVGSTKLMAAIESALGVVN 135 (288)
T ss_pred CCHHHHHHHHHHHH---HHHHhcCCCCCCeeEEEEeCCHHHHHh
Confidence 35666666654443 333444445678999999999998876
Done!