Query 048680
Match_columns 121
No_of_seqs 60 out of 62
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 11:59:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048680.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048680hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF06136 DUF966: Domain of unk 100.0 9.9E-66 2.1E-70 424.2 9.9 94 24-117 1-94 (337)
2 PF00778 DIX: DIX domain; Int 98.7 1.6E-07 3.4E-12 65.9 7.7 76 23-108 3-80 (84)
3 smart00021 DAX Domain present 98.1 1.9E-05 4E-10 56.1 7.6 74 24-108 4-79 (83)
4 KOG3571 Dishevelled 3 and rela 88.1 0.69 1.5E-05 42.9 4.2 69 23-106 11-85 (626)
5 PRK04439 S-adenosylmethionine 72.2 8.3 0.00018 34.3 5.1 38 26-63 337-375 (399)
6 PF01941 AdoMet_Synthase: S-ad 67.4 11 0.00023 33.6 4.8 38 27-64 338-376 (396)
7 PRK00630 nickel responsive reg 57.0 8.8 0.00019 29.3 2.1 33 35-67 101-133 (148)
8 PF11695 DUF3291: Domain of un 56.8 22 0.00048 27.1 4.3 44 35-79 95-138 (140)
9 KOG0196 Tyrosine kinase, EPH ( 52.1 8.4 0.00018 37.8 1.6 17 29-45 677-696 (996)
10 PRK04460 nickel responsive reg 51.4 13 0.00028 28.0 2.3 33 35-67 90-122 (137)
11 PRK01777 hypothetical protein; 49.3 31 0.00066 24.5 3.8 39 22-73 4-42 (95)
12 PF05152 DUF705: Protein of un 48.0 22 0.00047 30.7 3.3 53 25-78 107-167 (297)
13 cd04862 PaeLigD_Pol_like PaeLi 46.8 37 0.00079 27.9 4.3 36 30-65 89-124 (227)
14 cd01816 Raf_RBD Ubiquitin doma 43.8 32 0.0007 24.3 3.1 20 49-68 17-36 (74)
15 TIGR02793 nikR nickel-responsi 42.6 22 0.00048 26.4 2.3 32 35-66 88-119 (129)
16 cd04861 LigD_Pol_like LigD_Pol 42.5 47 0.001 27.3 4.3 36 30-65 89-124 (227)
17 PRK01622 OxaA-like protein pre 41.2 7.5 0.00016 31.4 -0.4 19 82-100 164-182 (256)
18 PF08753 NikR_C: NikR C termin 40.8 10 0.00022 25.5 0.3 32 35-66 37-68 (78)
19 TIGR01684 viral_ppase viral ph 40.1 26 0.00055 30.1 2.6 55 25-79 111-174 (301)
20 KOG4104 Ganglioside-induced di 39.6 26 0.00057 26.5 2.3 20 52-71 83-102 (113)
21 cd04865 LigD_Pol_like_2 LigD_P 39.0 58 0.0013 26.8 4.3 36 30-65 90-125 (228)
22 cd00754 MoaD Ubiquitin domain 38.5 1E+02 0.0022 19.4 4.7 23 41-65 17-39 (80)
23 PRK02967 nickel responsive reg 37.7 28 0.00062 26.2 2.2 33 35-67 90-122 (139)
24 COG0864 NikR Predicted transcr 37.4 39 0.00085 25.7 2.9 34 35-68 93-126 (136)
25 TIGR02778 ligD_pol DNA polymer 35.1 70 0.0015 26.6 4.3 36 30-65 105-140 (245)
26 PF11767 SET_assoc: Histone ly 33.4 33 0.00071 23.1 1.8 32 46-86 6-37 (66)
27 cd01817 RGS12_RBD Ubiquitin do 32.6 43 0.00093 23.4 2.3 23 49-71 17-39 (73)
28 smart00115 CASc Caspase, inter 31.9 89 0.0019 24.5 4.3 51 23-81 74-129 (241)
29 cd00949 FBP_aldolase_I_bact Fr 31.3 60 0.0013 28.1 3.4 36 36-74 225-260 (292)
30 PF00174 Oxidored_molyb: Oxido 30.7 21 0.00046 26.6 0.6 51 50-103 69-127 (169)
31 TIGR01687 moaD_arch MoaD famil 30.7 91 0.002 20.3 3.6 21 42-65 18-38 (88)
32 COG4962 CpaF Flp pilus assembl 29.5 62 0.0013 28.5 3.2 28 33-60 211-243 (355)
33 PF04566 RNA_pol_Rpb2_4: RNA p 29.4 68 0.0015 21.1 2.8 35 55-89 15-50 (63)
34 PHA02095 hypothetical protein 29.3 36 0.00078 24.6 1.5 27 19-47 35-66 (84)
35 cd07297 PX_PLD2 The phosphoino 29.3 25 0.00055 27.1 0.8 11 73-83 35-45 (130)
36 KOG0322 G-protein beta subunit 29.2 53 0.0011 28.8 2.8 33 23-55 227-260 (323)
37 PF01797 Y1_Tnp: Transposase I 28.8 7.6 0.00017 26.1 -1.9 55 34-91 47-101 (121)
38 PHA03398 viral phosphatase sup 28.3 45 0.00098 28.6 2.2 53 25-78 113-173 (303)
39 PF12897 Aminotran_MocR: Alani 27.0 72 0.0016 28.9 3.3 47 41-93 176-224 (425)
40 PRK05377 fructose-1,6-bisphosp 26.4 83 0.0018 27.3 3.5 36 36-74 228-263 (296)
41 PRK11130 moaD molybdopterin sy 26.0 1.3E+02 0.0028 19.8 3.7 34 24-64 2-38 (81)
42 PF04084 ORC2: Origin recognit 25.9 55 0.0012 27.5 2.2 54 38-92 136-201 (326)
43 cd04866 LigD_Pol_like_3 LigD_P 25.0 1.3E+02 0.0028 24.7 4.2 35 30-65 85-119 (223)
44 PF14419 SPOUT_MTase_2: AF2226 24.0 54 0.0012 26.5 1.8 42 18-64 71-116 (173)
45 PF11685 DUF3281: Protein of u 24.0 94 0.002 26.7 3.3 66 35-107 153-221 (268)
46 cd04864 LigD_Pol_like_1 LigD_P 23.7 1.4E+02 0.0031 24.5 4.2 35 30-65 91-125 (228)
47 cd00032 CASc Caspase, interleu 22.9 1.2E+02 0.0027 23.5 3.6 53 24-82 76-131 (243)
48 PF02096 60KD_IMP: 60Kd inner 22.0 23 0.00049 26.5 -0.6 19 82-100 100-126 (198)
49 smart00497 IENR1 Intron encode 21.8 42 0.00091 19.7 0.6 11 78-88 41-51 (53)
50 PF02727 Cu_amine_oxidN2: Copp 21.5 2E+02 0.0043 19.3 4.0 24 19-45 53-76 (86)
51 cd01244 PH_RasGAP_CG9209 RAS_G 21.0 3E+02 0.0066 19.2 5.1 41 23-65 51-96 (98)
52 TIGR02776 NHEJ_ligase_prk DNA 20.7 1.6E+02 0.0035 26.7 4.3 36 30-65 382-417 (552)
53 COG1894 NuoF NADH:ubiquinone o 20.4 86 0.0019 28.4 2.5 38 25-72 245-282 (424)
54 cd01246 PH_oxysterol_bp Oxyste 20.3 1.1E+02 0.0024 19.0 2.4 29 38-66 57-90 (91)
55 PRK07777 aminotransferase; Val 20.2 1.1E+02 0.0025 24.5 2.9 29 39-68 359-387 (387)
No 1
>PF06136 DUF966: Domain of unknown function (DUF966); InterPro: IPR010369 This is a family of plant proteins confined to monocotyledons and mosses, with unknown function
Probab=100.00 E-value=9.9e-66 Score=424.20 Aligned_cols=94 Identities=56% Similarity=1.002 Sum_probs=92.5
Q ss_pred EEEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcceeeeeeccccCcceEEecCCCCeeecCCCCe
Q 048680 24 IHIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFSWSYKRRYKSGYVWQDLLNDDLITPISDNE 103 (121)
Q Consensus 24 v~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ySWS~KRsYKngfVW~DL~dDD~I~P~~~~E 103 (121)
|+|||||||||||||||||||++++++||||||||+||++|||||||+||||||||+||||||||||+|||+|+|++|||
T Consensus 1 V~VVYYLsRnGqLEHPHfieV~~~s~~gL~LRDV~~RL~~LRGkGMp~~ySWS~KRsYKnGfVW~DL~ddD~I~P~~g~E 80 (337)
T PF06136_consen 1 VQVVYYLSRNGQLEHPHFIEVPLSSPQGLYLRDVKDRLTALRGKGMPDMYSWSCKRSYKNGFVWHDLSDDDLILPASGNE 80 (337)
T ss_pred CcEEEEEccCCCCCCCeeEEeccCCCCCcCHHHHHHHHHHhhCCCcceeeEEeeeccccCCceeccCcCCCeeecCCCCc
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEeccccccCCCC
Q 048680 104 YVLKGSESLHLPCC 117 (121)
Q Consensus 104 YVLKgSel~~~~~~ 117 (121)
||||||||++++..
T Consensus 81 YVLKGSEl~~~~~~ 94 (337)
T PF06136_consen 81 YVLKGSELFDGSSS 94 (337)
T ss_pred eEeeccccccCCcc
Confidence 99999999999876
No 2
>PF00778 DIX: DIX domain; InterPro: IPR001158 Dishevelled (Dsh) protein is an important component of the Wnt signal-transduction pathway. It has three relatively conserved domains: DIX, PDZ and DEP. The DIX domain of Dvl-1 (a mammalian Dishevelled homologue) shares 37% identity with the C-terminal region of Axin. Dsh can interact with the Axin/APC/GSK3/beta-catenin complex, and may thus modulate its activity []. The Wnt signalling pathway is conserved in various species from Caenorhabditis elegans to mammals, and plays important roles in development, cellular proliferation, and differentiation. The molecular mechanisms by which the Wnt signal regulates cellular functions are becoming increasingly well understood. Wnt stabilises cytoplasmic beta-catenin, which stimulates the expression of genes including c-myc, c-jun, fra-1, and cyclin D1. Axin and its homologue Axil are components of the Wnt signalling pathway that negatively regulate this pathway. Other components of the Wnt signalling pathway, including Dvl, glycogen synthase kinase-3beta (GSK-3beta), beta-catenin, and adenomatous polyposis coli (APC), interact with Axin, and the phosphorylation and stability of beta-catenin are regulated in the Axin complex. Axil has similar functions to Axin. Thus, Axin and Axil act as scaffold proteins in the Wnt signalling pathway, thereby modulating the Wnt-dependent cellular functions [].; GO: 0004871 signal transducer activity, 0007275 multicellular organismal development, 0005622 intracellular; PDB: 1WSP_B 2D5G_A 3PZ7_A 3PZ8_H.
Probab=98.65 E-value=1.6e-07 Score=65.90 Aligned_cols=76 Identities=20% Similarity=0.391 Sum_probs=58.1
Q ss_pred EEEEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcceeeeeeccccCc--ceEEecCCCCeeecCC
Q 048680 23 RIHIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFSWSYKRRYKSG--YVWQDLLNDDLITPIS 100 (121)
Q Consensus 23 kv~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ySWS~KRsYKng--fVW~DL~dDD~I~P~~ 100 (121)
...|+||++ .-+.|.++.||. +++.++|+|+|+-| .-++.|-.-+|..--+. .||.+++|||-++|..
T Consensus 3 ~T~V~Y~~~---~e~~Py~~~ip~-~~~~iTL~dFK~~l------~r~G~yrffFK~~~~d~~~~V~eEi~dD~~~LP~~ 72 (84)
T PF00778_consen 3 ETKVIYYID---DEETPYVVKIPK-PPGEITLGDFKEVL------PRPGNYRFFFKSLDPDFGCVVKEEITDDDDILPLF 72 (84)
T ss_dssp EEEEEEEET---T-SS-EEEEESS-SSTT-BHHHHHHTC------TS-SGEEEEEEEEETTTETEEEEEE-STTSB---B
T ss_pred ceEEEEEeC---CCCCceEEEccC-CCCccCHHHHHHhh------cCCCCceEEEEEeCCCCCeeeEEEEcCCccccccc
Confidence 467999994 346999999997 44789999999999 66788999999877765 6999999999999999
Q ss_pred CCeeEEec
Q 048680 101 DNEYVLKG 108 (121)
Q Consensus 101 ~~EYVLKg 108 (121)
.|-+|.|=
T Consensus 73 eGkI~~~v 80 (84)
T PF00778_consen 73 EGKIVAKV 80 (84)
T ss_dssp TTEEEEEE
T ss_pred CCEEEEEE
Confidence 99999874
No 3
>smart00021 DAX Domain present in Dishevelled and axin. Domain of unknown function.
Probab=98.11 E-value=1.9e-05 Score=56.11 Aligned_cols=74 Identities=22% Similarity=0.313 Sum_probs=59.0
Q ss_pred EEEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcceeeeeeccc--cCcceEEecCCCCeeecCCC
Q 048680 24 IHIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFSWSYKRRY--KSGYVWQDLLNDDLITPISD 101 (121)
Q Consensus 24 v~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ySWS~KRsY--KngfVW~DL~dDD~I~P~~~ 101 (121)
..|+|||+ .-+.|.++.|+. ++..++|+|+|+.|+.- .|-.-+|--. -.|=||..++||+-++|...
T Consensus 4 TkV~Y~~d---~e~~PY~~~i~~-~~~~iTLgdFK~~l~k~-------~yry~FK~~d~df~gvVkeEi~dD~~~LP~~e 72 (83)
T smart00021 4 TKVIYHLD---DEETPYLVKVPV-PAERVTLGDFKEVLTKK-------NYKYYFKSMDDDFGGVVKEEIRDDSARLPCFN 72 (83)
T ss_pred eEEEEEeC---CCCCceeEecCC-CcCceEHHHHHHhhccC-------CcEEEEEecCcccCCeeEEEEcCCcccccccC
Confidence 46999994 347899999986 55779999999999653 2555555443 23789999999999999999
Q ss_pred CeeEEec
Q 048680 102 NEYVLKG 108 (121)
Q Consensus 102 ~EYVLKg 108 (121)
|.+|+|-
T Consensus 73 Gkiv~~v 79 (83)
T smart00021 73 GRVVSWL 79 (83)
T ss_pred CEEEEEE
Confidence 9999884
No 4
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=88.12 E-value=0.69 Score=42.88 Aligned_cols=69 Identities=28% Similarity=0.433 Sum_probs=49.6
Q ss_pred EEEEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcceeeeeeccccC-----c-ceEEecCCCCee
Q 048680 23 RIHIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFSWSYKRRYKS-----G-YVWQDLLNDDLI 96 (121)
Q Consensus 23 kv~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ySWS~KRsYKn-----g-fVW~DL~dDD~I 96 (121)
...|+|+|- .-+||-|++++. .+..++|+|+|+-|+ |+. ||==+|. | -|=-.++||.-.
T Consensus 11 etKviyhlD---dettPYlvki~v-p~~~vTL~dfK~vl~--R~~---------yKyy~ksmD~D~g~vVKeEi~DDs~r 75 (626)
T KOG3571|consen 11 ETKVIYHLD---DETTPYLVKIPV-PPERVTLGDFKNVLT--RPN---------YKYYFKSMDPDFGRVVKEEIADDSAR 75 (626)
T ss_pred ceEEEEecC---CCCCceeEeeec-Cccceehhhhhhhhc--cch---------hhhhhhhhCchhhhhHhhhhccchhh
Confidence 377899984 247999999997 557899999999997 653 2222221 1 344467888899
Q ss_pred ecCCCCeeEE
Q 048680 97 TPISDNEYVL 106 (121)
Q Consensus 97 ~P~~~~EYVL 106 (121)
+|++.|-||+
T Consensus 76 L~cfNGrvvs 85 (626)
T KOG3571|consen 76 LPCFNGRVVS 85 (626)
T ss_pred ccccCCceEE
Confidence 9988887764
No 5
>PRK04439 S-adenosylmethionine synthetase; Provisional
Probab=72.17 E-value=8.3 Score=34.29 Aligned_cols=38 Identities=29% Similarity=0.614 Sum_probs=31.5
Q ss_pred EEEEEccCCC-CCCCeeEEEecCCCCcccHHHHHHHHHH
Q 048680 26 IVYFLSRLGQ-VDHPHLIRVHHLSRNGVYLRDVKRWLAE 63 (121)
Q Consensus 26 VVYyLsr~G~-leHPH~ieV~~~~~~gl~LRDV~~rL~~ 63 (121)
-||.||+-|+ ++.|++..++.....|..+.|+.+...+
T Consensus 337 ~V~llSqIG~PId~P~~a~v~v~~~~g~~~~~~~~~v~~ 375 (399)
T PRK04439 337 YVRLLSQIGKPIDEPLVASIQVIPEDGVLISDVEKEVEE 375 (399)
T ss_pred EEEEeccCCCcCCCCeEEEEEEecCCCCChHHHHHHHHH
Confidence 4688899998 9999999999987888888888765443
No 6
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=67.43 E-value=11 Score=33.60 Aligned_cols=38 Identities=34% Similarity=0.700 Sum_probs=32.3
Q ss_pred EEEEccCCC-CCCCeeEEEecCCCCcccHHHHHHHHHHH
Q 048680 27 VYFLSRLGQ-VDHPHLIRVHHLSRNGVYLRDVKRWLAEV 64 (121)
Q Consensus 27 VYyLsr~G~-leHPH~ieV~~~~~~gl~LRDV~~rL~~L 64 (121)
||.||+-|+ ++.|++..|+.....|..+.|+.+...++
T Consensus 338 V~llSqIG~PId~P~~~~v~i~~~~~~~~~~~~~~v~~I 376 (396)
T PF01941_consen 338 VRLLSQIGKPIDEPQIASVQIIPEDGVLLEDVEKEVEEI 376 (396)
T ss_pred EEEccccCCCCCCCeEEEEEEecCCCCchHHHHHHHHHH
Confidence 688899888 99999999999888898888888766543
No 7
>PRK00630 nickel responsive regulator; Provisional
Probab=56.98 E-value=8.8 Score=29.35 Aligned_cols=33 Identities=15% Similarity=0.285 Sum_probs=28.4
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhCC
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGK 67 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGk 67 (121)
++||.|-|||-..-.++=.++++.++|.++||-
T Consensus 101 Hld~~~CLEvivv~G~~~~I~~la~~l~~~kGV 133 (148)
T PRK00630 101 HMDHHNCLETIILRGNSFEIQRLQLEIGGLKGV 133 (148)
T ss_pred ecCCCCEEEEEEEEcCHHHHHHHHHHHHhcCCe
Confidence 478888999988777888999999999999874
No 8
>PF11695 DUF3291: Domain of unknown function (DUF3291); InterPro: IPR021708 This bacterial family of proteins has no known function.
Probab=56.79 E-value=22 Score=27.07 Aligned_cols=44 Identities=16% Similarity=0.399 Sum_probs=31.7
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcceeeeeec
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFSWSYKR 79 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ySWS~KR 79 (121)
++.+||+.-=-.+...-+++.|.++||..||=.| |+.+.+.+|.
T Consensus 95 ~~~~~~~vlWWVp~G~~Pt~~EA~~RL~~L~~hG-ps~~AFtf~~ 138 (140)
T PF11695_consen 95 KMGEPHFVLWWVPAGHRPTWQEAVERLEHLRDHG-PSPFAFTFKQ 138 (140)
T ss_pred ccCCceEEEEECCCCCCCCHHHHHHHHHHHHHhC-CCcccccCCC
Confidence 5667888755555555579999999999999887 4445554444
No 9
>KOG0196 consensus Tyrosine kinase, EPH (ephrin) receptor family [Signal transduction mechanisms]
Probab=52.06 E-value=8.4 Score=37.76 Aligned_cols=17 Identities=59% Similarity=1.155 Sum_probs=13.9
Q ss_pred EEcc---CCCCCCCeeEEEe
Q 048680 29 FLSR---LGQVDHPHLIRVH 45 (121)
Q Consensus 29 yLsr---~G~leHPH~ieV~ 45 (121)
+|++ -||++|||+|++.
T Consensus 677 FL~EAsIMGQFdHPNIIrLE 696 (996)
T KOG0196|consen 677 FLSEASIMGQFDHPNIIRLE 696 (996)
T ss_pred hhhhhhhcccCCCCcEEEEE
Confidence 5644 7999999999975
No 10
>PRK04460 nickel responsive regulator; Provisional
Probab=51.38 E-value=13 Score=27.98 Aligned_cols=33 Identities=18% Similarity=0.333 Sum_probs=28.7
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhCC
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGK 67 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGk 67 (121)
+++|.|-|||-....++-.++++.++|.++||=
T Consensus 90 Hld~~~ClEvivv~G~~~~I~~L~~~l~~~kGV 122 (137)
T PRK04460 90 HLDHHNCLEVLVLKGKAKEIKKIADRLISTKGV 122 (137)
T ss_pred ecCCCcEEEEEEEEcCHHHHHHHHHHHHhcCCe
Confidence 468888999988777889999999999999863
No 11
>PRK01777 hypothetical protein; Validated
Probab=49.34 E-value=31 Score=24.50 Aligned_cols=39 Identities=26% Similarity=0.311 Sum_probs=28.4
Q ss_pred eEEEEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcce
Q 048680 22 RRIHIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAF 73 (121)
Q Consensus 22 rkv~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~y 73 (121)
-+|.|+|-++.. + ..+++++ +.|-+++|++..+ |++..|
T Consensus 4 i~v~V~ya~~~~-~----~~~~l~v--p~GtTv~dal~~s------gi~~~~ 42 (95)
T PRK01777 4 IRVEVVYALPER-Q----YLQRLTL--QEGATVEEAIRAS------GLLELR 42 (95)
T ss_pred eEEEEEEECCCc-e----EEEEEEc--CCCCcHHHHHHHc------CCCccC
Confidence 479999997633 2 2255554 5788999999999 887765
No 12
>PF05152 DUF705: Protein of unknown function (DUF705); InterPro: IPR007827 This family contains uncharacterised baculoviral proteins.
Probab=47.95 E-value=22 Score=30.67 Aligned_cols=53 Identities=26% Similarity=0.320 Sum_probs=39.2
Q ss_pred EEEEEEccCCC-CCCCeeEEEecCC-----CCcccH--HHHHHHHHHHhCCCCCcceeeeee
Q 048680 25 HIVYFLSRLGQ-VDHPHLIRVHHLS-----RNGVYL--RDVKRWLAEVRGKDMPEAFSWSYK 78 (121)
Q Consensus 25 ~VVYyLsr~G~-leHPH~ieV~~~~-----~~gl~L--RDV~~rL~~LRGkgMp~~ySWS~K 78 (121)
.-||.|....- +|+||+|=+..-+ ...+++ .+|.+.|.+||-+|- -++-|||=
T Consensus 107 ~ev~~l~~~~~~~~~phVIVfDlD~TLItd~~~v~Ir~~~v~~sL~~Lk~~g~-vLvLWSyG 167 (297)
T PF05152_consen 107 SEVYQLKEESLVWEPPHVIVFDLDSTLITDEGDVRIRDPAVYDSLRELKEQGC-VLVLWSYG 167 (297)
T ss_pred hhhhhhhhhhccCCCCcEEEEECCCcccccCCccccCChHHHHHHHHHHHcCC-EEEEecCC
Confidence 34677655555 8999999887643 344555 579999999998874 68899973
No 13
>cd04862 PaeLigD_Pol_like PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The PaeLigD Pol domain in vitro, in a manganese-dependent fashion, catalyzes templated extensions of 5'-overhang duplex DNA, and nontemplated single-nu
Probab=46.82 E-value=37 Score=27.92 Aligned_cols=36 Identities=22% Similarity=0.204 Sum_probs=29.2
Q ss_pred EccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHh
Q 048680 30 LSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 30 Lsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
+||-+++|||-.|-+.+-..+|+.+.||++-...+|
T Consensus 89 ~~r~~~~e~PD~lvfDLDP~~~~~f~~v~~~A~~~r 124 (227)
T cd04862 89 GARIDRLERPDRIVFDLDPGPGVPWKAVVEAALLVR 124 (227)
T ss_pred CCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH
Confidence 467788999999999997778888888877655555
No 14
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=43.80 E-value=32 Score=24.27 Aligned_cols=20 Identities=40% Similarity=0.496 Sum_probs=17.1
Q ss_pred CCcccHHHHHHHHHHHhCCC
Q 048680 49 RNGVYLRDVKRWLAEVRGKD 68 (121)
Q Consensus 49 ~~gl~LRDV~~rL~~LRGkg 68 (121)
++|.+|||+....-.+||=-
T Consensus 17 rpG~tl~daL~KaLk~R~l~ 36 (74)
T cd01816 17 RPGMTLRDALAKALKVRGLQ 36 (74)
T ss_pred cCCcCHHHHHHHHHHHcCCC
Confidence 58999999999988888754
No 15
>TIGR02793 nikR nickel-responsive transcriptional regulator NikR. Three members of the seed for this model, from Escherichia coli, Pseudomonas putida, and Brucella melitensis, are found associated with a nickel ABC transporter operon that acts to import nickel for use as a cofactor in urease or hydrogenase. These proteins, with characterized nickel-binding and DNA-binding domains, act as nickel-responsive transcriptional regulators. In the larger family of full-length homologs, most others both lack proximity to the nickel ABC transporter operon and form a separate clade. Several of the homologs not within the scope of this model, but rather scoring between the trusted and noise cutoffs, have been shown to bind nickel, copper, or both, and to regulate genes in response to nickel.
Probab=42.57 E-value=22 Score=26.44 Aligned_cols=32 Identities=19% Similarity=0.259 Sum_probs=27.2
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhC
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRG 66 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRG 66 (121)
+++|-|-|||-....+.=.++++.++|.++||
T Consensus 88 Hld~~~ClEvivv~G~~~~I~~l~~~l~~~kG 119 (129)
T TIGR02793 88 HLDHDDCLEVSVLKGDMGDVQHFADHVIAERG 119 (129)
T ss_pred ecCCCceEEEEEEEcCHHHHHHHHHHHHhcCC
Confidence 46788888888777788899999999999986
No 16
>cd04861 LigD_Pol_like LigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. PaeLigD is monomeric, containing an N-terminal phosphoesterase module, a central polymerase (Pol) domain, and a C-terminal ATP-dependent ligase domain. Mycobacterium tuberculosis (Mt)LigD, also found in this group, is monomeric and contains the same modules but these are arranged differently: an N-terminal Pol domain, a central phosphoesterase module, and a C-terminal ligase domain. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase do
Probab=42.50 E-value=47 Score=27.30 Aligned_cols=36 Identities=25% Similarity=0.273 Sum_probs=28.1
Q ss_pred EccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHh
Q 048680 30 LSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 30 Lsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
+||-+++|+|-.|-+.+-..+++-+.||++-...+|
T Consensus 89 ~sr~~~~e~PD~lvfDLDP~~~~~f~~v~~~A~~vr 124 (227)
T cd04861 89 LSRADDLERPDRLVFDLDPGPGVPFEDVVEAALLLR 124 (227)
T ss_pred CCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH
Confidence 467788999999999997778888887775544444
No 17
>PRK01622 OxaA-like protein precursor; Validated
Probab=41.24 E-value=7.5 Score=31.43 Aligned_cols=19 Identities=32% Similarity=0.646 Sum_probs=16.4
Q ss_pred cCcceEEecCCCCeeecCC
Q 048680 82 KSGYVWQDLLNDDLITPIS 100 (121)
Q Consensus 82 KngfVW~DL~dDD~I~P~~ 100 (121)
..||.|.||+.-|.|+|.-
T Consensus 164 ~~~flW~dLs~~D~ILPil 182 (256)
T PRK01622 164 SHSFLWFNLGHADHILPII 182 (256)
T ss_pred CCCceeeCCcchhHHHHHH
Confidence 3789999999888999965
No 18
>PF08753 NikR_C: NikR C terminal nickel binding domain; InterPro: IPR014864 NikR is a transcription factor that regulates nickel uptake. It consists of two dimeric DNA binding domains separated by a tetrameric regulatory domain that binds nickel. This protein corresponds to the C-terminal regulatory domain which contains four nickel binding sites at the tetramer interface []. ; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 2WVB_B 2WVD_C 3QSI_B 3LGH_A 2CAD_A ....
Probab=40.78 E-value=10 Score=25.45 Aligned_cols=32 Identities=16% Similarity=0.333 Sum_probs=27.9
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhC
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRG 66 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRG 66 (121)
+++|.+-|||-....++=+++++.++|.++||
T Consensus 37 hl~~~~ClEvivv~G~~~~I~~l~~~l~~~kG 68 (78)
T PF08753_consen 37 HLDHDNCLEVIVVRGPADRIKELAEKLRSLKG 68 (78)
T ss_dssp EESSSEEEEEEEEEEEHHHHHHHHHHHHTSTT
T ss_pred eecCCCeEEEEEEEcCHHHHHHHHHHHhccCC
Confidence 46788899998877788899999999999987
No 19
>TIGR01684 viral_ppase viral phosphatase. These proteins also include an N-terminal domain (ca. 125 aas) that is unique to this clade.
Probab=40.14 E-value=26 Score=30.06 Aligned_cols=55 Identities=16% Similarity=0.267 Sum_probs=38.6
Q ss_pred EEEEEEccCCC-CCCCeeEEEecC-----CCCcccHH--HHHHHHHHHhCCCCCc-ceeeeeec
Q 048680 25 HIVYFLSRLGQ-VDHPHLIRVHHL-----SRNGVYLR--DVKRWLAEVRGKDMPE-AFSWSYKR 79 (121)
Q Consensus 25 ~VVYyLsr~G~-leHPH~ieV~~~-----~~~gl~LR--DV~~rL~~LRGkgMp~-~ySWS~KR 79 (121)
.-||.|.-+.. .|.||+|=..+- +...+++| +|.+.|..||.+|.+- ..|++.++
T Consensus 111 ~~v~~l~~~~~~~~~~kvIvFDLDgTLi~~~~~v~irdPgV~EaL~~LkekGikLaIaTS~~Re 174 (301)
T TIGR01684 111 EEIYNLNLPSKVFEPPHVVVFDLDSTLITDEEPVRIRDPRIYDSLTELKKRGCILVLWSYGDRD 174 (301)
T ss_pred hhhhhccccccccccceEEEEecCCCCcCCCCccccCCHHHHHHHHHHHHCCCEEEEEECCCHH
Confidence 34677766666 889999988763 23446666 8999999999999873 33444444
No 20
>KOG4104 consensus Ganglioside-induced differentiation associated protein 3 [Signal transduction mechanisms]
Probab=39.64 E-value=26 Score=26.48 Aligned_cols=20 Identities=35% Similarity=0.607 Sum_probs=17.0
Q ss_pred ccHHHHHHHHHHHhCCCCCc
Q 048680 52 VYLRDVKRWLAEVRGKDMPE 71 (121)
Q Consensus 52 l~LRDV~~rL~~LRGkgMp~ 71 (121)
.-++|+..||..||||--|-
T Consensus 83 qdF~deqkrLkklRGK~~Pk 102 (113)
T KOG4104|consen 83 QDFRDEQKRLKKLRGKVVPK 102 (113)
T ss_pred HHHHHHHHHHHHhcCCCCCC
Confidence 34789999999999998774
No 21
>cd04865 LigD_Pol_like_2 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=38.96 E-value=58 Score=26.80 Aligned_cols=36 Identities=31% Similarity=0.392 Sum_probs=28.9
Q ss_pred EccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHh
Q 048680 30 LSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 30 Lsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
+||-+++|+|-.|-+.+-..+++-+.||++-...+|
T Consensus 90 ~sr~~~~e~PD~lvfDLDP~~~~~f~~v~~~A~~vr 125 (228)
T cd04865 90 PSRAGDLDHPDELVIDLDPQPGTSFEDVVEVALLVR 125 (228)
T ss_pred ccCcCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH
Confidence 578889999999999987778888888776555554
No 22
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=38.53 E-value=1e+02 Score=19.36 Aligned_cols=23 Identities=9% Similarity=-0.005 Sum_probs=17.2
Q ss_pred eEEEecCCCCcccHHHHHHHHHHHh
Q 048680 41 LIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 41 ~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
-.+++. +.+.+++|++++|...-
T Consensus 17 ~~~~~~--~~~~tv~~ll~~l~~~~ 39 (80)
T cd00754 17 EEELEL--PEGATVGELLDALEARY 39 (80)
T ss_pred eEEEEC--CCCCcHHHHHHHHHHHC
Confidence 356665 34899999999997654
No 23
>PRK02967 nickel responsive regulator; Provisional
Probab=37.71 E-value=28 Score=26.23 Aligned_cols=33 Identities=18% Similarity=0.208 Sum_probs=27.9
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhCC
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGK 67 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGk 67 (121)
+++|-|-|||-....+.-.++++.++|.++||=
T Consensus 90 Hld~~~ClEvivv~G~~~~I~~l~~~l~~~kGV 122 (139)
T PRK02967 90 HLDHDDCLEVAVLKGDTGDVQHFADDVIAERGV 122 (139)
T ss_pred ecCCCcEEEEEEEEcCHHHHHHHHHHHHhcCCe
Confidence 568888889888777888999999999999863
No 24
>COG0864 NikR Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]
Probab=37.41 E-value=39 Score=25.66 Aligned_cols=34 Identities=18% Similarity=0.302 Sum_probs=29.5
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCC
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKD 68 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkg 68 (121)
+++|+|-+|+-....++=+++...++|.++||-=
T Consensus 93 hl~~~~ClE~~vv~G~~~~i~~l~~~i~~~~gv~ 126 (136)
T COG0864 93 HLDGDNCLEVIVVKGDSERIRELADKLRALRGVK 126 (136)
T ss_pred EcCCCceEEEEEEecCchhHHHHHHHHHhhcCee
Confidence 4788999999887788999999999999999853
No 25
>TIGR02778 ligD_pol DNA polymerase LigD, polymerase domain. DNA repair of double-stranded breaks by non-homologous end joining (NHEJ) is accomplished by a two-protein system that is present in a minority of prokaryotes. One component is the Ku protein (see TIGR02772), which binds DNA ends. The other is a DNA ligase, a protein that is a multidomain polypeptide in most of those bacteria that have NHEJ, a permuted polypeptide in Mycobacterium tuberculosis and a few other species, and the product of tandem genes in some other bacteria. This model represents the polymerase domain.
Probab=35.15 E-value=70 Score=26.57 Aligned_cols=36 Identities=19% Similarity=0.135 Sum_probs=28.2
Q ss_pred EccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHh
Q 048680 30 LSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 30 Lsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
+||-+++|||-.+-+.+-..+++-+.||++-...+|
T Consensus 105 ~s~~~~~~~PD~lvfDLDP~~~~~f~~v~~~A~~~r 140 (245)
T TIGR02778 105 GARIDAPEKPDRIVFDLDPGPGVAWKLVVEAAQLIR 140 (245)
T ss_pred CCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH
Confidence 477788999999999987778888887766555444
No 26
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=33.40 E-value=33 Score=23.12 Aligned_cols=32 Identities=25% Similarity=0.592 Sum_probs=25.6
Q ss_pred cCCCCcccHHHHHHHHHHHhCCCCCcceeeeeeccccCcce
Q 048680 46 HLSRNGVYLRDVKRWLAEVRGKDMPEAFSWSYKRRYKSGYV 86 (121)
Q Consensus 46 ~~~~~gl~LRDV~~rL~~LRGkgMp~~ySWS~KRsYKngfV 86 (121)
+.+..++++.|+|.+| ..|.|+-=|.-+.||-
T Consensus 6 ~vp~~~~~v~d~K~~L---------r~y~~~~I~~d~tGfY 37 (66)
T PF11767_consen 6 FVPVHGVTVEDFKKRL---------RKYRWDRIRDDRTGFY 37 (66)
T ss_pred cCCCCCccHHHHHHHH---------hcCCcceEEecCCEEE
Confidence 3455799999999999 4688888888888873
No 27
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=32.60 E-value=43 Score=23.40 Aligned_cols=23 Identities=35% Similarity=0.468 Sum_probs=20.1
Q ss_pred CCcccHHHHHHHHHHHhCCCCCc
Q 048680 49 RNGVYLRDVKRWLAEVRGKDMPE 71 (121)
Q Consensus 49 ~~gl~LRDV~~rL~~LRGkgMp~ 71 (121)
++|.+|||+..+|-..||=-.+.
T Consensus 17 rpG~ti~d~L~kllekRgl~~~~ 39 (73)
T cd01817 17 RPGESIRDLLSGLCEKRGINYAA 39 (73)
T ss_pred cCCCCHHHHHHHHHHHcCCChhH
Confidence 69999999999999999876554
No 28
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=31.92 E-value=89 Score=24.50 Aligned_cols=51 Identities=16% Similarity=0.175 Sum_probs=36.7
Q ss_pred EEEEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHH-----HHhCCCCCcceeeeeeccc
Q 048680 23 RIHIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLA-----EVRGKDMPEAFSWSYKRRY 81 (121)
Q Consensus 23 kv~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~-----~LRGkgMp~~ySWS~KRsY 81 (121)
-.-|+|+||.++. ..++-+. .+.+.|.|+.+.++ .|+|| |.+|-+..=|.=
T Consensus 74 d~~v~~~~sHG~~---~~l~~~D---~~~v~l~~i~~~f~~~~c~~L~~k--PKlffiqACRg~ 129 (241)
T smart00115 74 DSFVCVLLSHGEE---GGIYGTD---HSPLPLDEIFSLFNGDNCPSLAGK--PKLFFIQACRGD 129 (241)
T ss_pred CEEEEEEcCCCCC---CeEEEec---CCEEEHHHHHHhccccCChhhcCC--CcEEEEeCCCCC
Confidence 4678999999864 3343322 34899999999984 37776 799988777764
No 29
>cd00949 FBP_aldolase_I_bact Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria. The enzyme catalyzes the cleavage of fructose 1,6-bisphosphate to glyceraldehyde 3-phosphate and dihydroxyacetone phosphate (DHAP). The enzyme is member of the class I aldolase family, which utilizes covalent catalysis through a Schiff base formed between a lysine residue of the enzyme and ketose substrates.
Probab=31.28 E-value=60 Score=28.07 Aligned_cols=36 Identities=31% Similarity=0.568 Sum_probs=25.3
Q ss_pred CCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCccee
Q 048680 36 VDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFS 74 (121)
Q Consensus 36 leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~yS 74 (121)
++|||+++|--.| .|-.-.+.-++|. |-+||-.+||
T Consensus 225 ~~hp~v~rvvals-ggysr~~a~~~l~--~n~g~iasfs 260 (292)
T cd00949 225 IEHPKVLRVVALS-GGYSREEANELLA--KNNGVIASFS 260 (292)
T ss_pred hcCCCeEEEEEcC-CCcCHHHHHHHHh--hCCCcEEEeh
Confidence 6899999997544 3444556666664 6678888776
No 30
>PF00174 Oxidored_molyb: Oxidoreductase molybdopterin binding domain; InterPro: IPR000572 A number of different eukaryotic oxidoreductases that require and bind a molybdopterin cofactor have been shown [] to share a few regions of sequence similarity. These enzymes include xanthine dehydrogenase (1.1.1.204 from EC), aldehyde oxidase (1.2.3.1 from EC), nitrate reductase (1.7.1.1 from EC), and sulphite oxidase (1.8.3.1 from EC). The multidomain redox enzyme NAD(P)H:nitrate reductase (NR) catalyses the reduction of nitrate to nitrite in a single polypeptide electron transport chain with electron flow from NAD(P)H-FAD-cytochrome b5-molybdopterin-NO(3). Three forms of NR are known, an NADH-specific enzyme found in higher plants and algae (1.7.1.1 from EC); an NAD(P)H-bispecific enzyme found in higher plants, algae and fungi (1.7.1.2 from EC); and an NADPH-specific enzyme found only in fungi (1.7.1.3 from EC) []. The mitochondrial enzyme sulphite oxidase (sulphite:ferricytochrome c oxidoreductase; 1.8.2.1 from EC) catalyses oxidation of sulphite to sulphate, using cytochrome c as the physiological electron acceptor. Sulphite oxidase consists of two structure/function domains, an N-terminal haem domain, similar to cytochrome b5; and a C-terminal molybdopterin domain [].; GO: 0009055 electron carrier activity, 0055114 oxidation-reduction process; PDB: 1XDY_I 1XDQ_E 2A9A_B 3R19_A 2A9D_A 3HBQ_A 2A9C_B 3HBG_A 2A9B_A 1SOX_B ....
Probab=30.74 E-value=21 Score=26.58 Aligned_cols=51 Identities=20% Similarity=0.240 Sum_probs=34.9
Q ss_pred CcccHHHHHHHHHHHhCCCCCcceeeeeec-------cccCcceEEecCCCCeeecCC-CCe
Q 048680 50 NGVYLRDVKRWLAEVRGKDMPEAFSWSYKR-------RYKSGYVWQDLLNDDLITPIS-DNE 103 (121)
Q Consensus 50 ~gl~LRDV~~rL~~LRGkgMp~~ySWS~KR-------sYKngfVW~DL~dDD~I~P~~-~~E 103 (121)
.|+.|+||.+.+..-.+. .......-- .|...+=|.|+.++|.|+-.. +|+
T Consensus 69 ~GV~L~dlL~~ag~~~~a---~~V~~~~~D~~~~~~~gY~~~l~~~~~~~~~~iLA~~~nG~ 127 (169)
T PF00174_consen 69 TGVPLSDLLEKAGIKPDA---KYVVFTGADGYPMTHDGYSVSLPLEDALEEDVILAYEMNGE 127 (169)
T ss_dssp EEEEHHHHHHHHTB-TT----EEEEEEESCETTCTTSSEEEEEEHHHHHSTCSEEEEEETTE
T ss_pred EEEcHHHHHHHcCCCCCc---cEEEEEEcCCCcccCCCeEEEEEHHHhhcCCeEEEEccCCc
Confidence 699999999998442121 233333333 888889999999988887655 444
No 31
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=30.66 E-value=91 Score=20.34 Aligned_cols=21 Identities=14% Similarity=0.060 Sum_probs=16.3
Q ss_pred EEEecCCCCcccHHHHHHHHHHHh
Q 048680 42 IRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 42 ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
++|+. ++.+++|++++|...-
T Consensus 18 ~~v~~---~~~tv~~l~~~l~~~~ 38 (88)
T TIGR01687 18 EEIEI---EGKTVGDLLNELMARY 38 (88)
T ss_pred EEEEe---CCCCHHHHHHHHHHHC
Confidence 56665 2899999999997654
No 32
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=29.49 E-value=62 Score=28.52 Aligned_cols=28 Identities=32% Similarity=0.493 Sum_probs=20.4
Q ss_pred CCCCCCCeeEEEecCCCC-----cccHHHHHHH
Q 048680 33 LGQVDHPHLIRVHHLSRN-----GVYLRDVKRW 60 (121)
Q Consensus 33 ~G~leHPH~ieV~~~~~~-----gl~LRDV~~r 60 (121)
-=|+.|||+++..--.++ -++++|..+-
T Consensus 211 ELql~~ph~vrL~TR~~n~Eg~gevtm~dLvkn 243 (355)
T COG4962 211 ELQLAHPHVVRLETRPPNVEGTGEVTMRDLVKN 243 (355)
T ss_pred hhccCCCceEEEeecCCCCCCcceEEHHHHHHH
Confidence 357999999998753332 6899997553
No 33
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=29.44 E-value=68 Score=21.15 Aligned_cols=35 Identities=20% Similarity=0.242 Sum_probs=26.9
Q ss_pred HHHHHHHHHHhCCC-CCcceeeeeeccccCcceEEe
Q 048680 55 RDVKRWLAEVRGKD-MPEAFSWSYKRRYKSGYVWQD 89 (121)
Q Consensus 55 RDV~~rL~~LRGkg-Mp~~ySWS~KRsYKngfVW~D 89 (121)
.++.+.|..+|-+| ++...|-++....|.=+||.|
T Consensus 15 ~~l~~~lr~~RR~g~i~~~vsi~~~~~~~ei~I~tD 50 (63)
T PF04566_consen 15 EELVKTLRNLRRSGKISKEVSIVYDIREKEIRINTD 50 (63)
T ss_dssp HHHHHHHHHHHHTTSS-TTSEEEEETTTTEEEEE-S
T ss_pred HHHHHHHHHHhhccCCcceeEEEEeccCCEEEEEcc
Confidence 36777888888888 777788888888888888887
No 34
>PHA02095 hypothetical protein
Probab=29.29 E-value=36 Score=24.61 Aligned_cols=27 Identities=30% Similarity=0.489 Sum_probs=21.4
Q ss_pred cceeEEEEEEEEccCCCCCCC-----eeEEEecC
Q 048680 19 GEVRRIHIVYFLSRLGQVDHP-----HLIRVHHL 47 (121)
Q Consensus 19 ~~~rkv~VVYyLsr~G~leHP-----H~ieV~~~ 47 (121)
=|+.||.=| ||-.|..||| |+||||..
T Consensus 35 wefsrvdgi--lciegd~~~pm~~f~~ii~vp~~ 66 (84)
T PHA02095 35 WEFSRVDGI--LCIEGDKEHPMPDFEHIVEVPDE 66 (84)
T ss_pred EEEEeccEE--EEecCCCCCCchhheeeeeCchh
Confidence 567777654 7889999998 89999864
No 35
>cd07297 PX_PLD2 The phosphoinositide binding Phox Homology domain of Phospholipase D2. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions such as cell signaling, vesicular trafficking, protein sorting, and lipid modification, among others. Phospholipase D (PLD) catalyzes the hydrolysis of the phosphodiester bond of phosphatidylcholine to generate membrane-bound phosphatidic acid and choline. PLD activity has been detected in viruses, bacteria, yeast, plants, and mammals, but the PX domain is not present in PLDs from viruses and bacteria. PLDs are implicated in many cellular functions like signaling, cytoskeletal reorganization, vesicular transport, stress responses, and the control of differentiation, proliferation, and survival. PLD2 contains PX and Pleckstrin Homology (PH) domains in addition to the catalytic domain. It mediates EGF-dependent insulin secretion and EGF-induced Ras activation by the guanine nucleotide-exchange factor
Probab=29.25 E-value=25 Score=27.07 Aligned_cols=11 Identities=36% Similarity=1.204 Sum_probs=10.3
Q ss_pred eeeeeeccccC
Q 048680 73 FSWSYKRRYKS 83 (121)
Q Consensus 73 ySWS~KRsYKn 83 (121)
|+|+-||.||+
T Consensus 35 F~W~IkRryKh 45 (130)
T cd07297 35 FTWTVKKKFKH 45 (130)
T ss_pred eEEEEEehhhh
Confidence 89999999996
No 36
>KOG0322 consensus G-protein beta subunit-like protein GNB1L, contains WD repeats [General function prediction only]
Probab=29.22 E-value=53 Score=28.79 Aligned_cols=33 Identities=21% Similarity=0.336 Sum_probs=30.3
Q ss_pred EEEEEEEEccC-CCCCCCeeEEEecCCCCcccHH
Q 048680 23 RIHIVYFLSRL-GQVDHPHLIRVHHLSRNGVYLR 55 (121)
Q Consensus 23 kv~VVYyLsr~-G~leHPH~ieV~~~~~~gl~LR 55 (121)
+--++|-|.++ |++-||-+++...+..+|+++|
T Consensus 227 dkl~~~Sl~~s~gslq~~~e~~lknpGv~gvrIR 260 (323)
T KOG0322|consen 227 DKLVMYSLNHSTGSLQIRKEITLKNPGVSGVRIR 260 (323)
T ss_pred ccceeeeeccccCcccccceEEecCCCccceEEc
Confidence 45689999998 9999999999999999999998
No 37
>PF01797 Y1_Tnp: Transposase IS200 like; InterPro: IPR002686 Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This entry represents a domain found in transposases for IS200 from Escherichia coli []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2F5G_B 2F4F_B 2EC2_F 2XM3_C 2XQC_D 2XO6_A 2XMA_E 2VJV_B 2VIH_B 2VJU_A ....
Probab=28.78 E-value=7.6 Score=26.11 Aligned_cols=55 Identities=20% Similarity=0.199 Sum_probs=28.2
Q ss_pred CCCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcceeeeeeccccCcceEEecC
Q 048680 34 GQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFSWSYKRRYKSGYVWQDLL 91 (121)
Q Consensus 34 G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ySWS~KRsYKngfVW~DL~ 91 (121)
..-+|-|++ |..+ +..-|.+++.+|...-.+-+-..|.--.++.++.+-+|++=.
T Consensus 47 vm~nHvHll-v~~~--~~~~is~~~~~lK~~~s~~~~k~~~~~~~~~~~~~~~Wq~~y 101 (121)
T PF01797_consen 47 VMPNHVHLL-VSIP--PKQSISKFMQRLKGRSSRWINKEFPELKKRYFWRGHFWQRGY 101 (121)
T ss_dssp EETTEEEEE-EEE---TTS-HHHHHHHHHHHHHHHHHHHTHHHHHSCCT-TSSBESEE
T ss_pred ccCccccee-eeec--ccccchheeecccccccccccccccceecccccccccccCCe
Confidence 456899987 4432 233677888877544333333222222335555577777643
No 38
>PHA03398 viral phosphatase superfamily protein; Provisional
Probab=28.35 E-value=45 Score=28.60 Aligned_cols=53 Identities=26% Similarity=0.289 Sum_probs=37.4
Q ss_pred EEEEEEccCCC-CCCCeeEEEecC-----CCCcccHH--HHHHHHHHHhCCCCCcceeeeee
Q 048680 25 HIVYFLSRLGQ-VDHPHLIRVHHL-----SRNGVYLR--DVKRWLAEVRGKDMPEAFSWSYK 78 (121)
Q Consensus 25 ~VVYyLsr~G~-leHPH~ieV~~~-----~~~gl~LR--DV~~rL~~LRGkgMp~~ySWS~K 78 (121)
.-||.|..+.- .++||++-...- +...+++| +|.+-|..||.+|.+- ..||++
T Consensus 113 ~~v~~~~~~~~~~~~~~~i~~D~D~TL~~~~~~v~irdp~V~EtL~eLkekGikL-aIvTNg 173 (303)
T PHA03398 113 LEVYQLKSESLVWEIPHVIVFDLDSTLITDEEPVRIRDPFVYDSLDELKERGCVL-VLWSYG 173 (303)
T ss_pred echhhhccceeEeeeccEEEEecCCCccCCCCccccCChhHHHHHHHHHHCCCEE-EEEcCC
Confidence 34566666665 689999988753 24556666 7899999999999763 346655
No 39
>PF12897 Aminotran_MocR: Alanine-glyoxylate amino-transferase; InterPro: IPR024551 This entry represents a family of putative aminotransferases.; PDB: 3D6K_C 3EZ1_A 3PPL_B.
Probab=27.04 E-value=72 Score=28.88 Aligned_cols=47 Identities=19% Similarity=0.312 Sum_probs=26.9
Q ss_pred eEEEe-cCCCCcccHH-HHHHHHHHHhCCCCCcceeeeeeccccCcceEEecCCC
Q 048680 41 LIRVH-HLSRNGVYLR-DVKRWLAEVRGKDMPEAFSWSYKRRYKSGYVWQDLLND 93 (121)
Q Consensus 41 ~ieV~-~~~~~gl~LR-DV~~rL~~LRGkgMp~~ySWS~KRsYKngfVW~DL~dD 93 (121)
|--|| |+++.|.+.. +|.+||.+|+=..=-....|- |.|.-|+|+++
T Consensus 176 iWcVP~ySNPtG~tySde~vrrlA~m~~AA~DFRI~WD------NAY~vHhL~~~ 224 (425)
T PF12897_consen 176 IWCVPKYSNPTGITYSDEVVRRLAAMKTAAPDFRIFWD------NAYAVHHLYDE 224 (425)
T ss_dssp EEE-SSS-TTT-----HHHHHHHHHS--SSTT-EEEEE-------TTTT-BSSSS
T ss_pred EEeCCCccCCCCccCCHHHHHHHhcCCcCCcCeEEEee------cCceEeecccc
Confidence 45677 6788888765 799999999877655566774 89999999644
No 40
>PRK05377 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=26.44 E-value=83 Score=27.25 Aligned_cols=36 Identities=36% Similarity=0.608 Sum_probs=25.6
Q ss_pred CCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCccee
Q 048680 36 VDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFS 74 (121)
Q Consensus 36 leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~yS 74 (121)
.+|||+++|--.| .|-.-.+.-++|. |-+||-.+||
T Consensus 228 ~~hp~v~rvVaLS-GGysr~eA~~~L~--~n~g~iASfS 263 (296)
T PRK05377 228 IDHPRVLRVVALS-GGYSRDEANELLA--RNHGLIASFS 263 (296)
T ss_pred ccCCCeeEEEEcc-CCcCHHHHHHHHh--hCCCcEEEeh
Confidence 7899999998544 3444556666664 5678888776
No 41
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=25.99 E-value=1.3e+02 Score=19.77 Aligned_cols=34 Identities=18% Similarity=0.415 Sum_probs=21.4
Q ss_pred EEEEEEEc-c--CCCCCCCeeEEEecCCCCcccHHHHHHHHHHH
Q 048680 24 IHIVYFLS-R--LGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEV 64 (121)
Q Consensus 24 v~VVYyLs-r--~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~L 64 (121)
|.|.||-. | =|+ . -++|+ .++.+++|+++.|..-
T Consensus 2 v~V~~Fa~lre~~g~---~-~~~v~---~~~~tv~~l~~~L~~~ 38 (81)
T PRK11130 2 IKVLFFAQVRELVGT---D-ALELA---ADFPTVEALRQHLAQK 38 (81)
T ss_pred EEEEEeHHHHHHhCC---c-eEEec---CCCCCHHHHHHHHHHh
Confidence 56777763 3 243 1 24443 3578999999999654
No 42
>PF04084 ORC2: Origin recognition complex subunit 2 ; InterPro: IPR007220 The Origin Recognition Complex (ORC) is a six-subunit ATP-dependent DNA-binding complex encoded in yeast by ORC1-6 []. ORC is a central component for eukaryotic DNA replication, and binds chromatin at replication origins throughout the cell cycle []. ORC directs DNA replication throughout the genome and is required for its initiation [, , ]. ORC bound at replication origins serves as the foundation for assembly of the pre-replicative complex (pre-RC), which includes Cdc6, Tah11 (aka Cdt1), and the Mcm2-7 complex [, , ]. Pre-RC assembly during G1 is required for replication licensing of chromosomes prior to DNA synthesis during S phase [, , ]. Cell cycle-regulated phosphorylation of Orc2, Orc6, Cdc6, and MCM by the cyclin-dependent protein kinase Cdc28 regulates initiation of DNA replication, including blocking reinitiation in G2/M phase [, , , ]. In yeast, ORC also plays a role in the establishment of silencing at the mating-type loci Hidden MAT Left (HML) and Hidden MAT Right (HMR) [, , ]. ORC participates in the assembly of transcriptionally silent chromatin at HML and HMR by recruiting the Sir1 silencing protein to the HML and HMR silencers [, , ]. Both Orc1 and Orc5 bind ATP, though only Orc1 has ATPase activity []. The binding of ATP by Orc1 is required for ORC binding to DNA and is essential for cell viability []. The ATPase activity of Orc1 is involved in formation of the pre-RC [, , ]. ATP binding by Orc5 is crucial for the stability of ORC as a whole. Only the Orc1-5 subunits are required for origin binding; Orc6 is essential for maintenance of pre-RCs once formed []. Interactions within ORC suggest that Orc2-3-6 may form a core complex []. ORC homologues have been found in various eukaryotes, including fission yeast, insects, amphibians, and humans []. This entry represents subunit 2, which binds the origin of replication. It plays a role in chromosome replication and mating type transcriptional silencing.; GO: 0006260 DNA replication, 0000808 origin recognition complex, 0005634 nucleus
Probab=25.87 E-value=55 Score=27.53 Aligned_cols=54 Identities=22% Similarity=0.473 Sum_probs=34.4
Q ss_pred CCeeEEEecCCCCcccHH--HHHHHHHHH---hCCC-------CCcceeeeeeccccCcceEEecCC
Q 048680 38 HPHLIRVHHLSRNGVYLR--DVKRWLAEV---RGKD-------MPEAFSWSYKRRYKSGYVWQDLLN 92 (121)
Q Consensus 38 HPH~ieV~~~~~~gl~LR--DV~~rL~~L---RGkg-------Mp~~ySWS~KRsYKngfVW~DL~d 92 (121)
.|+++=|-| +=+|+-|| ....-|+.| +-=- ......|+..+.-+=.|||||++-
T Consensus 136 ~~~l~lvIH-nIDg~~LR~~~~Q~~La~LA~~p~I~lIASiDhinapLLWd~~~~~~fnf~~hd~tT 201 (326)
T PF04084_consen 136 PPPLYLVIH-NIDGPSLRNEKAQSLLAQLASIPNIHLIASIDHINAPLLWDSSKLSRFNFLWHDVTT 201 (326)
T ss_pred CCceEEEEE-CCCChhhcChHHHHHHHHHHcCCCeEEEEeccCCCcccccChhhHhhCCEEEEeCCC
Confidence 567776666 44666666 433444444 3211 223458999998888999999974
No 43
>cd04866 LigD_Pol_like_3 LigD_Pol_like_3: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 3. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated repair DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=25.03 E-value=1.3e+02 Score=24.74 Aligned_cols=35 Identities=6% Similarity=-0.038 Sum_probs=27.1
Q ss_pred EccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHh
Q 048680 30 LSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 30 Lsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
+|+-++ |||..+-+.+-..+|+-+.||++-...+|
T Consensus 85 ~~~~~~-e~PD~lvfDLDP~~~~~f~~v~~~A~~vr 119 (223)
T cd04866 85 FQTIES-NKPSEIVFDLDPPSRDHFSLAVEAANLLK 119 (223)
T ss_pred cccCCC-CCCCeEEEECCCCCCCCHHHHHHHHHHHH
Confidence 466677 99999999997778888888766555544
No 44
>PF14419 SPOUT_MTase_2: AF2226-like SPOUT RNA Methylase fused to THUMP
Probab=24.01 E-value=54 Score=26.49 Aligned_cols=42 Identities=33% Similarity=0.491 Sum_probs=30.0
Q ss_pred CcceeEEEE----EEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHH
Q 048680 18 GGEVRRIHI----VYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEV 64 (121)
Q Consensus 18 ~~~~rkv~V----VYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~L 64 (121)
|.+++||+| +|++-|+ +..-|=+ |. .+.|-++.+|++.|..+
T Consensus 71 ~r~v~kvpV~V~DlYQ~vRd-R~~~~lI--vt--dPkG~~is~vk~~L~~~ 116 (173)
T PF14419_consen 71 GREVRKVPVYVQDLYQVVRD-RKGEPLI--VT--DPKGDPISEVKDKLAED 116 (173)
T ss_pred CCeeeEeeeeHHHHHHHHHh-cCCCeEE--EE--CCCCCcHHHHHHHHHHH
Confidence 577888888 5888887 3333333 32 56799999999999753
No 45
>PF11685 DUF3281: Protein of unknown function (DUF3281); InterPro: IPR021699 This family of bacterial proteins has no known function.
Probab=23.95 E-value=94 Score=26.67 Aligned_cols=66 Identities=24% Similarity=0.352 Sum_probs=44.2
Q ss_pred CCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcceee---eeeccccCcceEEecCCCCeeecCCCCeeEEe
Q 048680 35 QVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEAFSW---SYKRRYKSGYVWQDLLNDDLITPISDNEYVLK 107 (121)
Q Consensus 35 ~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ySW---S~KRsYKngfVW~DL~dDD~I~P~~~~EYVLK 107 (121)
+.+|-|+..-+ .=+.|++|.|+.+.|++-|.+.= +.||= +.|=.--.||+|-| -|-|.-|+|+...
T Consensus 153 ~v~~ShVF~tg-~LP~glTlq~LVdaLN~n~~~Ah-GTFsadGsnLkITCd~GY~Wld-----d~dP~yG~~~~~s 221 (268)
T PF11685_consen 153 AVSNSHVFQTG-TLPSGLTLQDLVDALNENSDSAH-GTFSADGSNLKITCDPGYEWLD-----DQDPAYGQEFNTS 221 (268)
T ss_pred eecceeeecCC-CCCCCCcHHHHHHHhhccchhcc-eeEeccCCeEEEEeCCCCEecC-----cCCCCccceeccc
Confidence 35556666533 13579999999999998887542 33421 55666779999975 3557777777533
No 46
>cd04864 LigD_Pol_like_1 LigD_Pol_like_1: Polymerase (Pol) domain of mostly bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 1. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.
Probab=23.71 E-value=1.4e+02 Score=24.55 Aligned_cols=35 Identities=26% Similarity=0.327 Sum_probs=26.7
Q ss_pred EccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHh
Q 048680 30 LSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 30 Lsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
+||-+++|||-.|-+.+-.. +..+.||++-...+|
T Consensus 91 ~s~~~~~e~PD~~vfDLDP~-~~~f~~v~~~A~~~r 125 (228)
T cd04864 91 LSRADDLEHPDLMVFDLDPS-ADDIEAVRTAALAVR 125 (228)
T ss_pred CCCCCCCCCCCEEEEecCCC-CCCHHHHHHHHHHHH
Confidence 47778899999999998544 778888776665555
No 47
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=22.88 E-value=1.2e+02 Score=23.53 Aligned_cols=53 Identities=11% Similarity=0.068 Sum_probs=35.9
Q ss_pred EEEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHhC---CCCCcceeeeeecccc
Q 048680 24 IHIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRG---KDMPEAFSWSYKRRYK 82 (121)
Q Consensus 24 v~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRG---kgMp~~ySWS~KRsYK 82 (121)
.-|+|++|.+.+ -+++-+. ..++.|.|+...|+..+- +|-|..|-+..=|.=+
T Consensus 76 ~~v~~~~sHG~~---~~l~~~D---~~~v~l~~i~~~f~~~~~~sl~~kPKl~~iqACRg~~ 131 (243)
T cd00032 76 SFVCVILSHGEE---GGIYGTD---GDVVPIDEITSLFNGDNCPSLAGKPKLFFIQACRGDE 131 (243)
T ss_pred eeEEEECCCCCC---CEEEEec---CcEEEHHHHHHhhccCCCccccCCCcEEEEECCCCCc
Confidence 568999998865 3444332 378999999998874332 2457888887766554
No 48
>PF02096 60KD_IMP: 60Kd inner membrane protein; InterPro: IPR001708 This family of proteins is required for the insertion of integral membrane proteins into cellular membranes. Many of these integral membrane proteins are associated with respiratory chain complexes, for example a large number of members of this family play an essential role in the activity and assembly of cytochrome c oxidase. Stage III sporulation protein J (SP3J) is a probable lipoprotein, rich in basic and hydrophobic amino acids. Mutations in the protein abolish the transcription of prespore-specific genes transcribed by the sigma G form of RNA polymerase []. SP3J could be involved in a signal transduction pathway coupling gene expression in the prespore to events in the mother cell, or it may be necessary for essential metabolic interactions between the two cells []. The protein shows a high degree of similarity to Bacillus subtilis YQJG, to yeast OXA1 and also to bacterial 60 kDa inner-membrane proteins [, , , ]. ; GO: 0051205 protein insertion into membrane, 0016021 integral to membrane
Probab=21.99 E-value=23 Score=26.47 Aligned_cols=19 Identities=42% Similarity=0.893 Sum_probs=15.1
Q ss_pred cCcceEE-ecCCCC-------eeecCC
Q 048680 82 KSGYVWQ-DLLNDD-------LITPIS 100 (121)
Q Consensus 82 KngfVW~-DL~dDD-------~I~P~~ 100 (121)
-.||.|. ||+.-| .|+|+-
T Consensus 100 ~~g~lw~~dL~~~D~~~~~p~~iLPil 126 (198)
T PF02096_consen 100 TGGFLWFPDLTAPDPTMGLPYFILPIL 126 (198)
T ss_pred cCceeChHhcCCCCccchhHHHHHHHH
Confidence 3688898 999999 677753
No 49
>smart00497 IENR1 Intron encoded nuclease repeat motif. Repeat of unknown function, but possibly DNA-binding via helix-turn-helix motif (Ponting, unpublished).
Probab=21.77 E-value=42 Score=19.68 Aligned_cols=11 Identities=27% Similarity=0.911 Sum_probs=8.5
Q ss_pred eccccCcceEE
Q 048680 78 KRRYKSGYVWQ 88 (121)
Q Consensus 78 KRsYKngfVW~ 88 (121)
++.|++||+|-
T Consensus 41 ~~~~~ggy~~~ 51 (53)
T smart00497 41 GKKFKGGYYFS 51 (53)
T ss_pred CCccCCeEEEE
Confidence 46778889985
No 50
>PF02727 Cu_amine_oxidN2: Copper amine oxidase, N2 domain; InterPro: IPR015800 Amine oxidases (AO) are enzymes that catalyse the oxidation of a wide range of biogenic amines including many neurotransmitters, histamine and xenobiotic amines. There are two classes of amine oxidases: flavin-containing (1.4.3.4 from EC) and copper-containing (1.4.3.6 from EC). Copper-containing AO act as a disulphide-linked homodimer. They catalyse the oxidation of primary amines to aldehydes, with the subsequent release of ammonia and hydrogen peroxide, which requires one copper ion per subunit and topaquinone as cofactor []: RCH2NH2 + H2O + O2 = RCHO + NH3 + H2O2 Copper-containing amine oxidases are found in bacteria, fungi, plants and animals. In prokaryotes, the enzyme enables various amine substrates to be used as sources of carbon and nitrogen [, ]. In eukaryotes they have a broader range of functions, including cell differentiation and growth, wound healing, detoxification and cell signalling []. The copper amine oxidases occur as mushroom-shaped homodimers of 70-95 kDa, each monomer containing a copper ion and a covalently bound redox cofactor, topaquinone (TPQ). TPQ is formed by post-translational modification of a conserved tyrosine residue. The copper ion is coordinated with three histidine residues and two water molecules in a distorted square pyramidal geometry, and has a dual function in catalysis and TPQ biogenesis. The catalytic domain is the largest of the 3-4 domains found in copper amine oxidases, and consists of a beta sandwich of 18 strands in two sheets. The active site is buried and requires a conformational change to allow the substrate access. The two N-terminal domains share a common structural fold, its core consisting of a five-stranded antiparallel beta sheet twisted around an alpha helix. The D1 domains from the two subunits comprise the stalk, of the mushroom-shaped dimer, and interact with each other but do not pack tightly against each other [, ]. This entry represents one (N2) of the two N-terminal domains (N2/N3) that share a similar structure.; GO: 0005507 copper ion binding, 0008131 primary amine oxidase activity, 0048038 quinone binding, 0009308 amine metabolic process, 0055114 oxidation-reduction process; PDB: 1W2Z_A 1KSI_B 1US1_A 2C11_B 3ALA_E 2Y73_B 2C10_B 1PU4_B 2Y74_B 3SX1_A ....
Probab=21.55 E-value=2e+02 Score=19.33 Aligned_cols=24 Identities=13% Similarity=0.158 Sum_probs=17.3
Q ss_pred cceeEEEEEEEEccCCCCCCCeeEEEe
Q 048680 19 GEVRRIHIVYFLSRLGQVDHPHLIRVH 45 (121)
Q Consensus 19 ~~~rkv~VVYyLsr~G~leHPH~ieV~ 45 (121)
.+.|++.|++|-... . |+.++++.
T Consensus 53 ~p~R~A~vv~~~~~~--~-~e~vVdl~ 76 (86)
T PF02727_consen 53 PPPRRARVVVYDGGQ--S-YEAVVDLT 76 (86)
T ss_dssp TS-EEEEEEEEETSS--S-SEEEEEEE
T ss_pred CCCeEEEEEEEECCe--e-eeEEEECc
Confidence 478999999877433 3 88888875
No 51
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=20.97 E-value=3e+02 Score=19.22 Aligned_cols=41 Identities=17% Similarity=0.153 Sum_probs=25.9
Q ss_pred EEEEEEEEccCCCCCCCeeEEEecCCCCcccH-----HHHHHHHHHHh
Q 048680 23 RIHIVYFLSRLGQVDHPHLIRVHHLSRNGVYL-----RDVKRWLAEVR 65 (121)
Q Consensus 23 kv~VVYyLsr~G~leHPH~ieV~~~~~~gl~L-----RDV~~rL~~LR 65 (121)
.+..|-.+. ++...++|+|+|.++.+ -++| .|-.+|+.+||
T Consensus 51 ~i~~ve~v~-~~~~~~~~~fqivt~~r-~~yi~a~s~~E~~~Wi~al~ 96 (98)
T cd01244 51 AIKGTEPLS-DKSFVNVDIITIVCEDD-TMQLQFEAPVEATDWLNALE 96 (98)
T ss_pred ceEEEEEcC-CcccCCCceEEEEeCCC-eEEEECCCHHHHHHHHHHHh
Confidence 333343333 34577789999988642 3333 57888888887
No 52
>TIGR02776 NHEJ_ligase_prk DNA ligase D. Members of this protein family are DNA ligases involved in the repair of DNA double-stranded breaks by non-homologous end joining (NHEJ). The system of the bacterial Ku protein (TIGR02772) plus this DNA ligase is seen in about 20 % of bacterial genomes to date and at least one archaeon (Archeoglobus fulgidus). This model describes a central and a C-terminal domain. These two domains may be permuted, as in genus Mycobacterium, or divided into tandem ORFs, and therefore not be identified by this model. An additional N-terminal 3'-phosphoesterase (PE) domain present in some but not all examples of this ligase is not included in the seed alignment for this model; This alignment models only the central ATP-dependent ligase domain and the C-terminal polymerase domain. Most examples of genes for this ligase are adjacent to the gene for Ku.
Probab=20.71 E-value=1.6e+02 Score=26.74 Aligned_cols=36 Identities=14% Similarity=0.100 Sum_probs=29.0
Q ss_pred EccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHh
Q 048680 30 LSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVR 65 (121)
Q Consensus 30 Lsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LR 65 (121)
+||-+++|||-.|-+.+-..+++-+.+|++....+|
T Consensus 382 ~~~~~~~~~Pd~~v~DLDP~~~~~f~~v~~~A~~~r 417 (552)
T TIGR02776 382 GQTIDSLDKPDRIVFDLDPPPGVAFKLAVEAAQLMK 417 (552)
T ss_pred cCccCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHH
Confidence 577889999999999987778888888876665555
No 53
>COG1894 NuoF NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]
Probab=20.40 E-value=86 Score=28.42 Aligned_cols=38 Identities=24% Similarity=0.337 Sum_probs=28.9
Q ss_pred EEEEEEccCCCCCCCeeEEEecCCCCcccHHHHHHHHHHHhCCCCCcc
Q 048680 25 HIVYFLSRLGQVDHPHLIRVHHLSRNGVYLRDVKRWLAEVRGKDMPEA 72 (121)
Q Consensus 25 ~VVYyLsr~G~leHPH~ieV~~~~~~gl~LRDV~~rL~~LRGkgMp~~ 72 (121)
.-+|.| .|++..|.++|||. |++|||+++-. +-||.+-
T Consensus 245 TKlf~~--sG~V~~pg~~E~pm----G~tlrelie~~----aGG~r~G 282 (424)
T COG1894 245 TKLFSL--SGHVKNPGLYEVPM----GTTLRELIEDY----AGGVRGG 282 (424)
T ss_pred ceEEEe--eccccCCceEEecC----CCcHHHHHHHh----cCCcCCC
Confidence 345555 49999999999996 88999999765 4466543
No 54
>cd01246 PH_oxysterol_bp Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding proteins are a multigene family that is conserved in yeast, flies, worms, mammals and plants. They all contain a C-terminal oxysterol binding domain, and most contain an N-terminal PH domain. OSBP PH domains bind to membrane phosphoinositides and thus likely play an important role in intracellular targeting. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=20.30 E-value=1.1e+02 Score=18.99 Aligned_cols=29 Identities=10% Similarity=0.261 Sum_probs=21.2
Q ss_pred CCeeEEEecCCCCcccH-----HHHHHHHHHHhC
Q 048680 38 HPHLIRVHHLSRNGVYL-----RDVKRWLAEVRG 66 (121)
Q Consensus 38 HPH~ieV~~~~~~gl~L-----RDV~~rL~~LRG 66 (121)
+||.++|..++...++| .|..+|+++||.
T Consensus 57 ~~~~F~i~~~~~~~~~~~a~s~~e~~~Wi~al~~ 90 (91)
T cd01246 57 DDKCFTIDTGGDKTLHLRANSEEERQRWVDALEL 90 (91)
T ss_pred CCcEEEEEcCCCCEEEEECCCHHHHHHHHHHHHh
Confidence 47888888655455666 488889998874
No 55
>PRK07777 aminotransferase; Validated
Probab=20.24 E-value=1.1e+02 Score=24.47 Aligned_cols=29 Identities=28% Similarity=0.428 Sum_probs=24.2
Q ss_pred CeeEEEecCCCCcccHHHHHHHHHHHhCCC
Q 048680 39 PHLIRVHHLSRNGVYLRDVKRWLAEVRGKD 68 (121)
Q Consensus 39 PH~ieV~~~~~~gl~LRDV~~rL~~LRGkg 68 (121)
+|.+++.+.. +-=.|++..+||..++|+|
T Consensus 359 ~~~~Ri~~~~-~~~~l~~~l~~l~~~~~~~ 387 (387)
T PRK07777 359 NHLVRFAFCK-RDDTLDEAIRRLRALRGRG 387 (387)
T ss_pred CCeEEEEecC-CHHHHHHHHHHHHHHhcCC
Confidence 5789999854 5567889999999999987
Done!