Query 043680
Match_columns 205
No_of_seqs 152 out of 396
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 07:18:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043680.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043680hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3164 Uncharacterized protei 100.0 2.4E-48 5.1E-53 330.3 13.0 161 8-200 57-217 (236)
2 PF04900 Fcf1: Fcf1; InterPro 100.0 2.3E-30 5E-35 196.5 8.6 91 8-100 8-101 (101)
3 KOG3165 Predicted nucleic-acid 99.9 5E-26 1.1E-30 186.6 7.8 93 10-105 97-191 (195)
4 COG1412 Uncharacterized protei 99.8 7.1E-21 1.5E-25 152.8 7.6 90 9-102 43-136 (136)
5 PRK13764 ATPase; Provisional 94.7 0.081 1.8E-06 52.1 6.8 81 9-93 28-130 (602)
6 PF13638 PIN_4: PIN domain; PD 92.3 0.45 9.8E-06 36.5 6.0 82 8-90 21-132 (133)
7 smart00670 PINc Large family o 90.1 0.38 8.3E-06 35.3 3.5 67 8-76 25-110 (111)
8 PF05991 NYN_YacP: YacP-like N 80.7 3.3 7.2E-05 34.0 4.8 38 47-85 76-115 (166)
9 smart00500 SFM Splicing Factor 60.8 6.3 0.00014 26.0 1.7 22 70-92 1-22 (44)
10 COG0069 GltB Glutamate synthas 57.4 9.1 0.0002 37.1 2.8 31 49-79 408-438 (485)
11 cd03012 TlpA_like_DipZ_like Tl 56.3 36 0.00077 25.6 5.5 85 5-92 25-113 (126)
12 PF00462 Glutaredoxin: Glutare 54.9 13 0.00029 24.4 2.6 31 64-94 26-59 (60)
13 cd08556 GDPD Glycerophosphodie 53.5 61 0.0013 25.5 6.7 69 26-94 50-123 (189)
14 PRK00124 hypothetical protein; 47.7 36 0.00078 28.0 4.5 71 14-96 9-98 (151)
15 KOG0399 Glutamate synthase [Am 47.0 16 0.00034 39.7 2.8 38 47-84 1201-1238(2142)
16 TIGR02181 GRX_bact Glutaredoxi 44.0 38 0.00082 23.3 3.6 32 64-95 26-60 (79)
17 PF01927 Mut7-C: Mut7-C RNAse 38.9 55 0.0012 26.1 4.3 32 50-84 30-61 (147)
18 cd03418 GRX_GRXb_1_3_like Glut 38.3 38 0.00081 22.8 2.8 33 63-95 26-62 (75)
19 COG4956 Integral membrane prot 34.9 68 0.0015 29.8 4.6 80 9-92 187-282 (356)
20 KOG1475 Ribosomal protein RPL1 34.7 26 0.00057 32.3 1.9 28 65-92 206-233 (363)
21 PF02348 CTP_transf_3: Cytidyl 34.4 85 0.0018 25.5 4.9 34 57-91 34-67 (217)
22 PF02739 5_3_exonuc_N: 5'-3' e 34.3 27 0.00059 28.7 1.9 36 46-81 106-143 (169)
23 COG0695 GrxC Glutaredoxin and 33.4 63 0.0014 23.1 3.5 32 63-94 27-63 (80)
24 cd00008 53EXOc 5'-3' exonuclea 32.3 53 0.0012 28.3 3.4 34 46-79 105-140 (240)
25 cd06293 PBP1_LacI_like_11 Liga 31.5 2.1E+02 0.0045 23.6 6.8 62 29-93 20-87 (269)
26 COG4660 RnfE Predicted NADH:ub 30.9 11 0.00024 32.3 -1.0 20 5-24 99-121 (212)
27 COG1911 RPL30 Ribosomal protei 29.1 70 0.0015 24.7 3.2 45 52-97 26-74 (100)
28 cd02969 PRX_like1 Peroxiredoxi 28.3 3E+02 0.0064 21.7 7.4 82 5-92 27-117 (171)
29 cd02066 GRX_family Glutaredoxi 27.9 64 0.0014 20.6 2.5 25 69-93 32-59 (72)
30 PRK12496 hypothetical protein; 27.9 97 0.0021 25.5 4.1 27 66-93 92-118 (164)
31 PF13344 Hydrolase_6: Haloacid 27.7 1.1E+02 0.0025 22.6 4.1 56 47-110 16-76 (101)
32 cd02966 TlpA_like_family TlpA- 27.5 2.1E+02 0.0045 19.6 6.8 83 5-92 21-105 (116)
33 cd03028 GRX_PICOT_like Glutare 26.6 80 0.0017 22.7 3.1 31 64-94 40-73 (90)
34 TIGR02634 xylF D-xylose ABC tr 26.6 2.7E+02 0.0059 23.9 6.9 63 29-93 19-88 (302)
35 cd06294 PBP1_ycjW_transcriptio 26.0 2.9E+02 0.0064 22.4 6.8 43 50-93 48-92 (270)
36 COG4657 RnfA Predicted NADH:ub 25.8 21 0.00045 30.2 -0.2 17 6-22 105-121 (193)
37 cd06290 PBP1_LacI_like_9 Ligan 24.1 3.8E+02 0.0082 21.8 7.1 63 28-93 19-86 (265)
38 cd06297 PBP1_LacI_like_12 Liga 23.8 3.5E+02 0.0077 22.4 7.0 55 37-92 30-86 (269)
39 COG0117 RibD Pyrimidine deamin 23.7 63 0.0014 26.6 2.2 47 38-88 74-126 (146)
40 PF03808 Glyco_tran_WecB: Glyc 22.7 1.7E+02 0.0037 23.7 4.7 67 28-95 14-85 (172)
41 PRK09468 ompR osmolarity respo 22.5 88 0.0019 25.3 2.9 30 74-103 208-239 (239)
42 TIGR02194 GlrX_NrdH Glutaredox 22.2 1.5E+02 0.0033 20.0 3.7 30 64-93 26-57 (72)
43 cd04888 ACT_PheB-BS C-terminal 22.0 1.3E+02 0.0029 20.1 3.3 26 65-90 44-74 (76)
44 cd06281 PBP1_LacI_like_5 Ligan 21.1 4.4E+02 0.0094 21.6 6.9 64 28-93 19-88 (269)
45 PTZ00062 glutaredoxin; Provisi 20.1 93 0.002 26.6 2.6 41 55-95 135-179 (204)
No 1
>KOG3164 consensus Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=100.00 E-value=2.4e-48 Score=330.32 Aligned_cols=161 Identities=36% Similarity=0.511 Sum_probs=138.4
Q ss_pred cceeccchHHHHHHhhccchHHHHHHHhhcceeecCCCCCCCHHHHHHHHHhccCCccEEEEccCHHHHHHhhcCCCCcE
Q 043680 8 LPLLSSSPPSLFLFRLGQSHSEAVEAAYKVAIARCEHEKLKSADACLMEVIGEKNPEHFFVATQDVDLRKKLQEVPGVPL 87 (205)
Q Consensus 8 ~~l~tT~CVl~ELe~LG~~~~~Al~iaK~f~~~kC~H~~~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR~ipGVPl 87 (205)
+-|+||.|||.|||.+|.++.||+.||++|++++|+|.++.+|++||.+||+.+|+|||||||||++||+.||.+|||||
T Consensus 57 vKL~tTqCvikele~~g~~l~ga~~iAK~fe~~~C~H~~~~s~seCl~svv~~~Nk~~YvvATQD~el~~kLr~~pgvPl 136 (236)
T KOG3164|consen 57 VKLMTTQCVIKELEELGKDLYGAKGIAKQFEIRNCNHKDARSPSECLRSVVRISNKHHYVVATQDQELRRKLRKEPGVPL 136 (236)
T ss_pred CeeeehHHHHHHHHHhCcchhhhHHHHHHHhHhcCCCCCCCCHHHHHHHHHhccCCceEEEecCCHHHHHHHhcCCCCce
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecCceEEEeCCChhhHHHHHHHHHhhccCCHHHHHHHhhhhhhhhhhhhcCCCCCchhhHHHHHHHHhhhhhhhhhhc
Q 043680 88 IFGLRNALLLEPPSSFQRKFVKTSEEARSCMTKSEFKKLKKSTKNILETKEIGDSSNKNEELENQKLEMQADKKTHYARK 167 (205)
Q Consensus 88 iyi~~~~~~LE~PS~as~~~~~~~e~~kl~~~~~E~~~lk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (205)
||+.+++|+||+||++|..+++.+|+++|. +..|.+.++++.....+. ...|.
T Consensus 137 i~~~r~t~vld~~S~at~~~sk~se~~~L~-~~~e~e~~~k~~~e~~~l------------~~~E~-------------- 189 (236)
T KOG3164|consen 137 IYLKRNTLVLDAPSQATAKYSKDSEEKKLT-SDNEKEIDKKLLEEKGAL------------KGKET-------------- 189 (236)
T ss_pred EEEecceEEecCcchhhHHhhcchhhhhcc-ccchHHHHHHHHHHhhcc------------cchhh--------------
Confidence 999999999999999999999989999994 877877776553321110 11111
Q ss_pred cCCCCCCCccccCCCCCCCCCCcccccCCCCCC
Q 043680 168 GMGVKDRPQFKRKRAKAPNPLSCKKKKNHENPS 200 (205)
Q Consensus 168 ~~~~~~~~~~KrK~~KgPNPLS~KKKKkk~~~~ 200 (205)
....+|||+|||||||||||+++++..+
T Consensus 190 -----s~~~kk~k~~k~pNpLs~kkk~k~~~~~ 217 (236)
T KOG3164|consen 190 -----SNKEKKRKGPKGPNPLSCKKKKKKKSNT 217 (236)
T ss_pred -----hhhhhcCCCCCCCCCccccccccccccc
Confidence 0124577799999999999998876654
No 2
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=99.96 E-value=2.3e-30 Score=196.51 Aligned_cols=91 Identities=36% Similarity=0.659 Sum_probs=86.5
Q ss_pred cceeccchHHHHHHhhccchHHHHHHHhh--cceeecCCCCC-CCHHHHHHHHHhccCCccEEEEccCHHHHHHhhcCCC
Q 043680 8 LPLLSSSPPSLFLFRLGQSHSEAVEAAYK--VAIARCEHEKL-KSADACLMEVIGEKNPEHFFVATQDVDLRKKLQEVPG 84 (205)
Q Consensus 8 ~~l~tT~CVl~ELe~LG~~~~~Al~iaK~--f~~~kC~H~~~-~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR~ipG 84 (205)
+-+|||+||++||+.||+.++++..+|+. |++++|+|.+. .+|++||.++++.+|. |||||||.+||++||++||
T Consensus 8 ~~~~vt~cVl~EL~~L~~~~~~~~~~a~~~~~~~~~c~h~~~~~~addci~~~~~~~~~--~~VaT~D~~Lr~~lr~~~G 85 (101)
T PF04900_consen 8 VKPYVTQCVLEELESLGKKFKGALRIAKRKALERRKCNHKETPGSADDCILDLAGKNNK--YIVATQDKELRRRLRKIPG 85 (101)
T ss_pred cEEEecHHHHHHHHHhcccccchhhhhhchhhHhhcCCCCCCCcCHHHHHHHHhccCCe--EEEEecCHHHHHHHhcCCC
Confidence 46899999999999999999999999999 99999999765 8999999999987765 9999999999999999999
Q ss_pred CcEEEecCceEEEeCC
Q 043680 85 VPLIFGLRNALLLEPP 100 (205)
Q Consensus 85 VPliyi~~~~~~LE~P 100 (205)
|||||+++++++||+|
T Consensus 86 vPvi~l~~~~~~le~p 101 (101)
T PF04900_consen 86 VPVIYLRRNVLILEPP 101 (101)
T ss_pred CCEEEEECCEEEecCC
Confidence 9999999999999998
No 3
>KOG3165 consensus Predicted nucleic-acid-binding protein, contains PIN domain [General function prediction only]
Probab=99.93 E-value=5e-26 Score=186.65 Aligned_cols=93 Identities=26% Similarity=0.399 Sum_probs=87.8
Q ss_pred eeccchHHHHHHhhccchHHHHHHHhh--cceeecCCCCCCCHHHHHHHHHhccCCccEEEEccCHHHHHHhhcCCCCcE
Q 043680 10 LLSSSPPSLFLFRLGQSHSEAVEAAYK--VAIARCEHEKLKSADACLMEVIGEKNPEHFFVATQDVDLRKKLQEVPGVPL 87 (205)
Q Consensus 10 l~tT~CVl~ELe~LG~~~~~Al~iaK~--f~~~kC~H~~~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR~ipGVPl 87 (205)
.++|+||+.|||+||..|+-||.+|+. |+++.|.| ++.+|||||...|..+ .+|||||+|.+|.+|+|+||||||
T Consensus 97 pcitDCVmaELEkLg~kyrvALri~kDpr~eRL~C~H-KGTYADDClv~RV~qH--kCYIVAT~D~dLK~RIrkIPGVPi 173 (195)
T KOG3165|consen 97 PCITDCVMAELEKLGQKYRVALRIAKDPRFERLPCTH-KGTYADDCLVQRVTQH--KCYIVATNDRDLKQRIRKIPGVPI 173 (195)
T ss_pred cchhHHHHHHHHHhcchhhhhhhhhcCCccccccccc-CCcchhhHHHHHHhhc--ceEEEEeccHHHHHHHhcCCCCce
Confidence 467889999999999999999999996 99999999 6899999999999887 689999999999999999999999
Q ss_pred EEecCceEEEeCCChhhH
Q 043680 88 IFGLRNALLLEPPSSFQR 105 (205)
Q Consensus 88 iyi~~~~~~LE~PS~as~ 105 (205)
||+.+..+.+|.+.+++.
T Consensus 174 m~v~~hk~~IEr~pda~~ 191 (195)
T KOG3165|consen 174 MYVANHKYSIERLPDATL 191 (195)
T ss_pred EEEecceeeeeeCCcccc
Confidence 999999999999988863
No 4
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=99.83 E-value=7.1e-21 Score=152.77 Aligned_cols=90 Identities=30% Similarity=0.402 Sum_probs=81.4
Q ss_pred ceeccchHHHHHHhhccchHHHHH--HHhh-cceeecCCCCCCCHHHHHHHHHhccCCccEEEEccCHHHHHHhhcCCCC
Q 043680 9 PLLSSSPPSLFLFRLGQSHSEAVE--AAYK-VAIARCEHEKLKSADACLMEVIGEKNPEHFFVATQDVDLRKKLQEVPGV 85 (205)
Q Consensus 9 ~l~tT~CVl~ELe~LG~~~~~Al~--iaK~-f~~~kC~H~~~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR~ipGV 85 (205)
.+++|+||+.||+.|+..+.++.. +|.. +++++|.|. +.+||+||.+++..++ +|||||||.+|+++||+. ||
T Consensus 43 ~~~Ip~~Vi~EL~~l~~~~~~~~r~~ia~~~~er~~~~~~-~~~aDe~i~~~a~~~~--~~iVaTnD~eLk~rlr~~-GI 118 (136)
T COG1412 43 KPAIPSCVIRELEKLKRKHRGKARIAIALKYAERLECIHK-GRYADECLLEAALKHG--RYIVATNDKELKRRLREN-GI 118 (136)
T ss_pred cccchHHHHHHHHHHHHhcCchHHHHHHHHHhhccCcccc-CCChHHHHHHHHHHcC--CEEEEeCCHHHHHHHHHc-CC
Confidence 578999999999999999888777 7776 999999997 8899999999998774 899999999999999998 99
Q ss_pred cEEEec-CceEEEeCCCh
Q 043680 86 PLIFGL-RNALLLEPPSS 102 (205)
Q Consensus 86 Pliyi~-~~~~~LE~PS~ 102 (205)
|+||++ ++.+++|.+++
T Consensus 119 Pvi~lr~r~~~~ie~~~~ 136 (136)
T COG1412 119 PVITLRQRKLLIIERLSD 136 (136)
T ss_pred CEEEEeCCeEEEeeCCCC
Confidence 999999 56788998763
No 5
>PRK13764 ATPase; Provisional
Probab=94.73 E-value=0.081 Score=52.08 Aligned_cols=81 Identities=16% Similarity=0.055 Sum_probs=59.7
Q ss_pred ceeccchHHHHHHhhccchH----HHHHHHhhccee---------ecCCC---------CCCCHHHHHHHHHhccCCccE
Q 043680 9 PLLSSSPPSLFLFRLGQSHS----EAVEAAYKVAIA---------RCEHE---------KLKSADACLMEVIGEKNPEHF 66 (205)
Q Consensus 9 ~l~tT~CVl~ELe~LG~~~~----~Al~iaK~f~~~---------kC~H~---------~~~~a~~CI~~~v~~~N~~~y 66 (205)
.++++.-|+.||+.+....+ .|++.++++... -.++. +.-..|+-|..++.+. ..
T Consensus 28 ~IiIP~~Vl~ELe~~A~~~r~~G~~gLeeL~~L~~l~~~g~i~ie~~~~~p~~~~~~~~~~gevD~~I~~~A~~~---~~ 104 (602)
T PRK13764 28 TIIIPEAVVAELEAQANQGREIGFSGLEELKKLRELAEEGLIELEFVGERPTLEQIKLAKGGEIDALIREVAKEL---GA 104 (602)
T ss_pred EEEeehHHHHHHHHHhhccchhhHHHHHHHHHHHHhhccCceEEEEeccccchhhcccccCCCHHHHHHHHHHHc---CC
Confidence 57888899999999976443 266666665322 12221 1137788888988754 57
Q ss_pred EEEccCHHHHHHhhcCCCCcEEEecCc
Q 043680 67 FVATQDVDLRKKLQEVPGVPLIFGLRN 93 (205)
Q Consensus 67 iVATQD~~Lr~~LR~ipGVPliyi~~~ 93 (205)
++.|+|..|+..++.. |||++|++..
T Consensus 105 ~lvT~D~~l~~~A~~~-GI~V~~l~~~ 130 (602)
T PRK13764 105 TLVTSDRVQAEVARAK-GIDVIYLKPE 130 (602)
T ss_pred EEEeCCHHHHHHHHHc-CCEEEEeCCC
Confidence 8889999999999985 9999999985
No 6
>PF13638 PIN_4: PIN domain; PDB: 2HWW_C 2HWX_A 2DOK_B 2HWY_B 2WP8_J.
Probab=92.32 E-value=0.45 Score=36.52 Aligned_cols=82 Identities=23% Similarity=0.210 Sum_probs=46.1
Q ss_pred cceeccchHHHHHHhhccchH----H----HHHHHhhcc--------eeecCCC----------CCCCHHHHHHHHHh--
Q 043680 8 LPLLSSSPPSLFLFRLGQSHS----E----AVEAAYKVA--------IARCEHE----------KLKSADACLMEVIG-- 59 (205)
Q Consensus 8 ~~l~tT~CVl~ELe~LG~~~~----~----Al~iaK~f~--------~~kC~H~----------~~~~a~~CI~~~v~-- 59 (205)
..++++.+|+.||+.+..... . |..+.+-+. ...+... .....|+.|++.+-
T Consensus 21 ~~ivIP~~Vl~ELd~lk~~~~~~~~~~~~~ar~~~~~l~~~~~~~~~~i~~q~~~~~~~~~~~~~~~~~D~~Il~~a~~~ 100 (133)
T PF13638_consen 21 NKIVIPLTVLEELDRLKKSSRDRDRELRKRAREAIRWLEKLLKRGSRSIRVQTSDEEIDEDLNLDAQRNDDRILNCALYL 100 (133)
T ss_dssp SEEEEEHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHCT-TTEEECTTTS-EES--S----HHHHHHHHHHHHH
T ss_pred CEEEechHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHhcCCCeEecchhhhhcchhhhccccccHHHHHHHHHHH
Confidence 347888899999999876554 2 222221111 1111111 12367777877663
Q ss_pred -ccC-CccEEEEccCHHHHHHhhcCCCCcEEEe
Q 043680 60 -EKN-PEHFFVATQDVDLRKKLQEVPGVPLIFG 90 (205)
Q Consensus 60 -~~N-~~~yiVATQD~~Lr~~LR~ipGVPliyi 90 (205)
... ....++.|+|..||.+.+. -|||.+-+
T Consensus 101 ~~~~~~~~vvLvT~D~~l~~~A~~-~gi~~~~~ 132 (133)
T PF13638_consen 101 QEENPGRKVVLVTNDKNLRLKARA-EGIPAVSY 132 (133)
T ss_dssp HHHCGCEEEEEEE--HHHHHHHHH-TT--EE--
T ss_pred HHhcCCCeEEEEeCCHHHHHHHhh-cccccccC
Confidence 222 4578999999999999998 49998743
No 7
>smart00670 PINc Large family of predicted nucleotide-binding domains. From similarities to 5'-exonucleases, these domains are predicted to be RNases. PINc domains in nematode SMG-5 and yeast NMD4p are predicted to be involved in RNAi.
Probab=90.13 E-value=0.38 Score=35.27 Aligned_cols=67 Identities=24% Similarity=0.145 Sum_probs=39.1
Q ss_pred cceeccchHHHHHHhhcc--chHHHHHHHh----hc---------ceeecCCCC----CCCHHHHHHHHHhccCCccEEE
Q 043680 8 LPLLSSSPPSLFLFRLGQ--SHSEAVEAAY----KV---------AIARCEHEK----LKSADACLMEVIGEKNPEHFFV 68 (205)
Q Consensus 8 ~~l~tT~CVl~ELe~LG~--~~~~Al~iaK----~f---------~~~kC~H~~----~~~a~~CI~~~v~~~N~~~yiV 68 (205)
..++++.+|+.||+.+.. .+...-.++. .+ ....+.+.. ....+.+|..++-..+ .+++
T Consensus 25 ~~~~i~~~v~~El~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~il~~a~~~~--~~~l 102 (111)
T smart00670 25 GEVYIPPTVLEELEYLAKLRSLKKLEELALEGKIKLKVLKEERKLEEEILERLSLKLELLPNDALILATAKELG--NVVL 102 (111)
T ss_pred CcEEECHHHHHHHHHHHHHHHHhhHHHHHHhcccccceeecCCCeEEEecccCChhhcCCCChHHHHHHHHHCC--CCEE
Confidence 457899999999999762 2222122221 11 112222211 1136778888876542 5889
Q ss_pred EccCHHHH
Q 043680 69 ATQDVDLR 76 (205)
Q Consensus 69 ATQD~~Lr 76 (205)
+|+|.+|+
T Consensus 103 vT~D~~l~ 110 (111)
T smart00670 103 VTNDRDLR 110 (111)
T ss_pred EeCCcccC
Confidence 99999876
No 8
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=80.68 E-value=3.3 Score=33.98 Aligned_cols=38 Identities=21% Similarity=0.365 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHhccC--CccEEEEccCHHHHHHhhcCCCC
Q 043680 47 LKSADACLMEVIGEKN--PEHFFVATQDVDLRKKLQEVPGV 85 (205)
Q Consensus 47 ~~~a~~CI~~~v~~~N--~~~yiVATQD~~Lr~~LR~ipGV 85 (205)
+.+||+.|..++.... +...+|+|.|..++..++.. |.
T Consensus 76 ~~tAD~~Ie~~v~~~~~~~~~v~VVTSD~~iq~~~~~~-GA 115 (166)
T PF05991_consen 76 GETADDYIERLVRELKNRPRQVTVVTSDREIQRAARGR-GA 115 (166)
T ss_pred CCCHHHHHHHHHHHhccCCCeEEEEeCCHHHHHHHhhC-CC
Confidence 4599999999997643 57899999999999999875 44
No 9
>smart00500 SFM Splicing Factor Motif, present in Prp18 and Pr04.
Probab=60.81 E-value=6.3 Score=25.96 Aligned_cols=22 Identities=23% Similarity=0.424 Sum_probs=19.5
Q ss_pred ccCHHHHHHhhcCCCCcEEEecC
Q 043680 70 TQDVDLRKKLQEVPGVPLIFGLR 92 (205)
Q Consensus 70 TQD~~Lr~~LR~ipGVPliyi~~ 92 (205)
|.|.+++++||.. |=||.++-.
T Consensus 1 ~~d~eV~~~LR~l-gePi~lFGE 22 (44)
T smart00500 1 LPDSEVIRRLREL-GEPITLFGE 22 (44)
T ss_pred CCHHHHHHHHHHc-CCCeeecCC
Confidence 6799999999997 999998764
No 10
>COG0069 GltB Glutamate synthase domain 2 [Amino acid transport and metabolism]
Probab=57.39 E-value=9.1 Score=37.07 Aligned_cols=31 Identities=35% Similarity=0.424 Sum_probs=23.9
Q ss_pred CHHHHHHHHHhccCCccEEEEccCHHHHHHh
Q 043680 49 SADACLMEVIGEKNPEHFFVATQDVDLRKKL 79 (205)
Q Consensus 49 ~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~L 79 (205)
-+.-||..-+-..|..-.=|||||++||++|
T Consensus 408 ia~GCim~r~CH~~tCp~GIaTqdp~Lrkrl 438 (485)
T COG0069 408 VALGCIMCRVCHTGTCPVGIATQDPELRKRL 438 (485)
T ss_pred HHhhhHhhhhccCCCCCceeeecCHHHHhhc
Confidence 3455777666555666788999999999998
No 11
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=56.33 E-value=36 Score=25.61 Aligned_cols=85 Identities=8% Similarity=-0.038 Sum_probs=51.0
Q ss_pred ceecceeccch--HHHHHHhhccchHHHHHHHhhcceeecC--CCCCCCHHHHHHHHHhccCCccEEEEccCHHHHHHhh
Q 043680 5 TLLLPLLSSSP--PSLFLFRLGQSHSEAVEAAYKVAIARCE--HEKLKSADACLMEVIGEKNPEHFFVATQDVDLRKKLQ 80 (205)
Q Consensus 5 ~~~~~l~tT~C--Vl~ELe~LG~~~~~Al~iaK~f~~~kC~--H~~~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR 80 (205)
.++|=+++|.| +..|+..|...+.. +. .+.+..+-.+ ........+.+..++..++-..-+++-.|..+...+.
T Consensus 25 ~vvl~F~a~~C~~C~~~~p~l~~l~~~-~~-~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p~~~D~~~~~~~~~~ 102 (126)
T cd03012 25 VVLLDFWTYCCINCLHTLPYLTDLEQK-YK-DDGLVVIGVHSPEFAFERDLANVKSAVLRYGITYPVANDNDYATWRAYG 102 (126)
T ss_pred EEEEEEECCCCccHHHHHHHHHHHHHH-cC-cCCeEEEEeccCccccccCHHHHHHHHHHcCCCCCEEECCchHHHHHhC
Confidence 46777889988 35666666433321 11 1345555432 1112234567777877655444567777888888876
Q ss_pred cCCCCcEEEecC
Q 043680 81 EVPGVPLIFGLR 92 (205)
Q Consensus 81 ~ipGVPliyi~~ 92 (205)
+-|+|-.|+..
T Consensus 103 -v~~~P~~~vid 113 (126)
T cd03012 103 -NQYWPALYLID 113 (126)
T ss_pred -CCcCCeEEEEC
Confidence 46899988874
No 12
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=54.87 E-value=13 Score=24.37 Aligned_cols=31 Identities=23% Similarity=0.234 Sum_probs=23.1
Q ss_pred ccEEEEccCHHHHHHhhcC---CCCcEEEecCce
Q 043680 64 EHFFVATQDVDLRKKLQEV---PGVPLIFGLRNA 94 (205)
Q Consensus 64 ~~yiVATQD~~Lr~~LR~i---pGVPliyi~~~~ 94 (205)
..++=-+.|.+++..|++. .++|.||+.+..
T Consensus 26 y~~~dv~~~~~~~~~l~~~~g~~~~P~v~i~g~~ 59 (60)
T PF00462_consen 26 YEEVDVDEDEEAREELKELSGVRTVPQVFIDGKF 59 (60)
T ss_dssp EEEEEGGGSHHHHHHHHHHHSSSSSSEEEETTEE
T ss_pred eeEcccccchhHHHHHHHHcCCCccCEEEECCEE
Confidence 4566667777888888754 789999997543
No 13
>cd08556 GDPD Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins. The typical glycerophosphodiester phosphodiesterase domain (GDPD) consists of a TIM barrel and a small insertion domain named the GDPD-insertion (GDPD-I) domain, which is specific for GDPD proteins. This family corresponds to both typical GDPD domain and GDPD-like domain which lacks the GDPD-I region. Members in this family mainly consist of a large family of prokaryotic and eukaryotic glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), and a number of uncharacterized homologs. Sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria are also included in this family. GDPD plays an essential role in glycerol metabolism and catalyzes the hydrolysis of glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcoho
Probab=53.51 E-value=61 Score=25.52 Aligned_cols=69 Identities=20% Similarity=0.207 Sum_probs=46.0
Q ss_pred chHHHHHHHhhcceeecCCCCC---CCHHHHHHHHHhccC-CccEEEEccCHHHHHHhhcC-CCCcEEEecCce
Q 043680 26 SHSEAVEAAYKVAIARCEHEKL---KSADACLMEVIGEKN-PEHFFVATQDVDLRKKLQEV-PGVPLIFGLRNA 94 (205)
Q Consensus 26 ~~~~Al~iaK~f~~~kC~H~~~---~~a~~CI~~~v~~~N-~~~yiVATQD~~Lr~~LR~i-pGVPliyi~~~~ 94 (205)
.+..+++.++.-...-+.-+.. ....+-+.+++...+ ..+.++.+=|.++..++++. |++|+.|+..+.
T Consensus 50 tL~e~l~~~~~~~~i~leiK~~~~~~~~~~~l~~~i~~~~~~~~v~i~s~~~~~l~~~~~~~p~~~~~~~~~~~ 123 (189)
T cd08556 50 TLEEVLELVKGGVGLNIELKEPTRYPGLEAKVAELLREYGLEERVVVSSFDHEALRALKELDPEVPTGLLVDKP 123 (189)
T ss_pred CHHHHHHhcccCcEEEEEECCCCCchhHHHHHHHHHHHcCCcCCEEEEeCCHHHHHHHHHhCCCCcEEEEeecC
Confidence 3455666665422233433332 235566777776643 57899999999999999975 999998887654
No 14
>PRK00124 hypothetical protein; Validated
Probab=47.70 E-value=36 Score=27.98 Aligned_cols=71 Identities=18% Similarity=0.146 Sum_probs=48.3
Q ss_pred ch-HHHHHHhhccchHHHHHHHhhcceeec--CCC----------------CCCCHHHHHHHHHhccCCccEEEEccCHH
Q 043680 14 SP-PSLFLFRLGQSHSEAVEAAYKVAIARC--EHE----------------KLKSADACLMEVIGEKNPEHFFVATQDVD 74 (205)
Q Consensus 14 ~C-Vl~ELe~LG~~~~~Al~iaK~f~~~kC--~H~----------------~~~~a~~CI~~~v~~~N~~~yiVATQD~~ 74 (205)
.| |.+|+.+++..++--+ +.=| ||. ..-.||.-|.+.+..+ =||-|||-.
T Consensus 9 ACPVk~~i~r~a~r~~i~v-------~~Vas~n~~~~~~~~~~v~~v~V~~g~D~AD~~Iv~~~~~g----DiVIT~Di~ 77 (151)
T PRK00124 9 ACPVKDIIIRVAERHGIPV-------TLVASFNHFLRVPYSPFIRTVYVDAGFDAADNEIVQLAEKG----DIVITQDYG 77 (151)
T ss_pred CCcHHHHHHHHHHHHCCeE-------EEEEeCCcccCCCCCCceEEEEeCCCCChHHHHHHHhCCCC----CEEEeCCHH
Confidence 46 8889888877654211 1113 442 2236788888887654 467799999
Q ss_pred HHHHhhcCCCCcEEEecCceEE
Q 043680 75 LRKKLQEVPGVPLIFGLRNALL 96 (205)
Q Consensus 75 Lr~~LR~ipGVPliyi~~~~~~ 96 (205)
|-.++-.- |+-+|.-++..+.
T Consensus 78 LAa~~l~K-ga~vl~prG~~yt 98 (151)
T PRK00124 78 LAALALEK-GAIVLNPRGYIYT 98 (151)
T ss_pred HHHHHHHC-CCEEECCCCcCCC
Confidence 99999884 8888887765554
No 15
>KOG0399 consensus Glutamate synthase [Amino acid transport and metabolism]
Probab=47.04 E-value=16 Score=39.66 Aligned_cols=38 Identities=32% Similarity=0.267 Sum_probs=29.0
Q ss_pred CCCHHHHHHHHHhccCCccEEEEccCHHHHHHhhcCCC
Q 043680 47 LKSADACLMEVIGEKNPEHFFVATQDVDLRKKLQEVPG 84 (205)
Q Consensus 47 ~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR~ipG 84 (205)
+.-+.-||+-..-..|..-.=|||||++||.++--.|+
T Consensus 1201 plIalGCiMmRkCH~NtCpVGiAtQdp~LRakF~G~Pe 1238 (2142)
T KOG0399|consen 1201 PLIALGCIMMRKCHLNTCPVGIATQDPELRAKFPGQPE 1238 (2142)
T ss_pred HHHHHhhHHHHHhccCCCCcccccCCHHHHhhCCCCcH
Confidence 33567788766656677778899999999999865555
No 16
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=43.99 E-value=38 Score=23.30 Aligned_cols=32 Identities=22% Similarity=0.132 Sum_probs=24.0
Q ss_pred ccEEEEccCHHHHHHhhc---CCCCcEEEecCceE
Q 043680 64 EHFFVATQDVDLRKKLQE---VPGVPLIFGLRNAL 95 (205)
Q Consensus 64 ~~yiVATQD~~Lr~~LR~---ipGVPliyi~~~~~ 95 (205)
..++-.++|.+.+..+.. ..+||.||+....+
T Consensus 26 ~~~~di~~~~~~~~~~~~~~g~~~vP~i~i~g~~i 60 (79)
T TIGR02181 26 FTEIRVDGDPALRDEMMQRSGRRTVPQIFIGDVHV 60 (79)
T ss_pred cEEEEecCCHHHHHHHHHHhCCCCcCEEEECCEEE
Confidence 456667888888887764 46799999987544
No 17
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=38.92 E-value=55 Score=26.14 Aligned_cols=32 Identities=28% Similarity=0.420 Sum_probs=23.5
Q ss_pred HHHHHHHHHhccCCccEEEEccCHHHHHHhhcCCC
Q 043680 50 ADACLMEVIGEKNPEHFFVATQDVDLRKKLQEVPG 84 (205)
Q Consensus 50 a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR~ipG 84 (205)
.+.=|..++... +++|| |.|.+|.++.....+
T Consensus 30 ~D~~il~~A~~e--~Rill-Trd~~l~~~~~~~~~ 61 (147)
T PF01927_consen 30 DDDEILELAREE--GRILL-TRDRDLLKRRRVSGG 61 (147)
T ss_pred ChHHHHHHhhhC--CeEEE-ECCHHHHHHhhccCC
Confidence 566677766543 46666 999999999988655
No 18
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=38.26 E-value=38 Score=22.81 Aligned_cols=33 Identities=21% Similarity=0.131 Sum_probs=23.0
Q ss_pred CccEEEEccCHHHHHHhhcC---C-CCcEEEecCceE
Q 043680 63 PEHFFVATQDVDLRKKLQEV---P-GVPLIFGLRNAL 95 (205)
Q Consensus 63 ~~~yiVATQD~~Lr~~LR~i---p-GVPliyi~~~~~ 95 (205)
+..++-.++|.+++..+++. . +||.||+....+
T Consensus 26 ~~~~i~i~~~~~~~~~~~~~~~~~~~vP~v~i~g~~i 62 (75)
T cd03418 26 DYEEIDVDGDPALREEMINRSGGRRTVPQIFIGDVHI 62 (75)
T ss_pred cEEEEECCCCHHHHHHHHHHhCCCCccCEEEECCEEE
Confidence 34566667888888777532 3 899999987543
No 19
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=34.91 E-value=68 Score=29.79 Aligned_cols=80 Identities=18% Similarity=0.211 Sum_probs=52.7
Q ss_pred ceeccchHHHHHHhhccch--------HHHHHHHhhcc--------eeecCCCCCCCHHHHHHHHHhccCCccEEEEccC
Q 043680 9 PLLSSSPPSLFLFRLGQSH--------SEAVEAAYKVA--------IARCEHEKLKSADACLMEVIGEKNPEHFFVATQD 72 (205)
Q Consensus 9 ~l~tT~CVl~ELe~LG~~~--------~~Al~iaK~f~--------~~kC~H~~~~~a~~CI~~~v~~~N~~~yiVATQD 72 (205)
.++++..|+.||..+..+. +..+++..+++ ++.-.-.+-...|.=+..++...+ -.|-|+|
T Consensus 187 ~iiiP~FVL~ELQ~iADssD~lKR~RGRRGLdILn~iqk~~~~~v~I~~~Df~di~eVD~KLvklAk~~~---g~lvTND 263 (356)
T COG4956 187 TIIIPQFVLLELQHIADSSDDLKRNRGRRGLDILNEIQKEDPIQVEIYEGDFEDIPEVDSKLVKLAKVTG---GKLVTND 263 (356)
T ss_pred eEeeeHHHHHHHHHHhhccchhhhhcccchhHHHHHHHhhCCCcEEEccCCccchhhHHHHHHHHHHHhC---CEEEecc
Confidence 3567778999999986532 12455554422 111222244577888888887653 4677999
Q ss_pred HHHHHHhhcCCCCcEEEecC
Q 043680 73 VDLRKKLQEVPGVPLIFGLR 92 (205)
Q Consensus 73 ~~Lr~~LR~ipGVPliyi~~ 92 (205)
..|-+ .-++-|||++.+|.
T Consensus 264 ~NLnK-Vae~qgV~vLNIND 282 (356)
T COG4956 264 FNLNK-VAELQGVQVLNIND 282 (356)
T ss_pred CcHHH-HHhhcCCceecHHH
Confidence 99865 45567999999885
No 20
>KOG1475 consensus Ribosomal protein RPL1/RPL2/RL4L4 [RNA processing and modification]
Probab=34.66 E-value=26 Score=32.26 Aligned_cols=28 Identities=29% Similarity=0.444 Sum_probs=25.8
Q ss_pred cEEEEccCHHHHHHhhcCCCCcEEEecC
Q 043680 65 HFFVATQDVDLRKKLQEVPGVPLIFGLR 92 (205)
Q Consensus 65 ~yiVATQD~~Lr~~LR~ipGVPliyi~~ 92 (205)
-|||-++|.++-+.+|.||||-++.+.+
T Consensus 206 PlVVy~Ed~~ivkAFRNIpGV~~~nV~~ 233 (363)
T KOG1475|consen 206 PLVVYNEDNGIVKAFRNIPGVELMNVER 233 (363)
T ss_pred CEEEEecCcchhhhhcCCCcceeechhh
Confidence 4899999999999999999999998765
No 21
>PF02348 CTP_transf_3: Cytidylyltransferase; InterPro: IPR003329 Synonym(s): CMP-N-acetylneuraminic acid synthetase Acylneuraminate cytidylyltransferase (2.7.7.43 from EC) (CMP-NeuAc synthetase) catalyzes the reaction of CTP and NeuAc to form CMP-NeuAc, which is the nucleotide sugar donor used by sialyltransferases []. The outer membrane lipooligosaccharides of some microorganisms contain terminal sialic acid attached to N-acetyllactosamine and so this modification may be important in pathogenesis.; GO: 0009103 lipopolysaccharide biosynthetic process; PDB: 3K8D_C 1VH1_B 3K8E_C 1QWJ_A 3EWI_A 1VIC_B 3DUV_A 1VH3_C 3TQD_A 2Y6P_C ....
Probab=34.36 E-value=85 Score=25.55 Aligned_cols=34 Identities=26% Similarity=0.328 Sum_probs=23.8
Q ss_pred HHhccCCccEEEEccCHHHHHHhhcCCCCcEEEec
Q 043680 57 VIGEKNPEHFFVATQDVDLRKKLQEVPGVPLIFGL 91 (205)
Q Consensus 57 ~v~~~N~~~yiVATQD~~Lr~~LR~ipGVPliyi~ 91 (205)
+.....-++.||||.|.+...-+.+. |+.+++..
T Consensus 34 a~~s~~~d~IvVaTd~~~i~~~~~~~-g~~v~~~~ 67 (217)
T PF02348_consen 34 AKQSKLIDEIVVATDDEEIDDIAEEY-GAKVIFRR 67 (217)
T ss_dssp HHHTTTTSEEEEEESSHHHHHHHHHT-TSEEEE--
T ss_pred HHhCCCCCeEEEeCCCHHHHHHHHHc-CCeeEEcC
Confidence 33334446799999999999999986 66555444
No 22
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=34.34 E-value=27 Score=28.69 Aligned_cols=36 Identities=17% Similarity=0.187 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHhc--cCCccEEEEccCHHHHHHhhc
Q 043680 46 KLKSADACLMEVIGE--KNPEHFFVATQDVDLRKKLQE 81 (205)
Q Consensus 46 ~~~~a~~CI~~~v~~--~N~~~yiVATQD~~Lr~~LR~ 81 (205)
++.-|||+|-.++.. ....+.+|.|-|.+|..-+..
T Consensus 106 ~g~EADDvIatla~~~~~~~~~v~IvS~DkD~~QLv~~ 143 (169)
T PF02739_consen 106 PGYEADDVIATLAKKASEEGFEVIIVSGDKDLLQLVDE 143 (169)
T ss_dssp TTB-HHHHHHHHHHHHHHTTCEEEEE-SSGGGGGGTCS
T ss_pred CCCcHHHHHHHHHhhhccCCCEEEEEcCCCCHHHhcCC
Confidence 577899999998853 222468999999999998886
No 23
>COG0695 GrxC Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=33.45 E-value=63 Score=23.06 Aligned_cols=32 Identities=19% Similarity=0.105 Sum_probs=24.7
Q ss_pred CccEEEEccCH--HHHHHhhcC---CCCcEEEecCce
Q 043680 63 PEHFFVATQDV--DLRKKLQEV---PGVPLIFGLRNA 94 (205)
Q Consensus 63 ~~~yiVATQD~--~Lr~~LR~i---pGVPliyi~~~~ 94 (205)
...+|..+.|. +.+..++.. ..||.||+....
T Consensus 27 ~~~~i~~~~~~~~~~~~~~~~~~g~~tvP~I~i~~~~ 63 (80)
T COG0695 27 DYEEIDVDDDEPEEAREMVKRGKGQRTVPQIFIGGKH 63 (80)
T ss_pred CcEEEEecCCcHHHHHHHHHHhCCCCCcCEEEECCEE
Confidence 35677778888 777888876 569999999863
No 24
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=32.34 E-value=53 Score=28.34 Aligned_cols=34 Identities=15% Similarity=0.134 Sum_probs=26.3
Q ss_pred CCCCHHHHHHHHHhc--cCCccEEEEccCHHHHHHh
Q 043680 46 KLKSADACLMEVIGE--KNPEHFFVATQDVDLRKKL 79 (205)
Q Consensus 46 ~~~~a~~CI~~~v~~--~N~~~yiVATQD~~Lr~~L 79 (205)
++.-|||+|-.++.. .+..+++|+|.|.+|..-+
T Consensus 105 ~~~EADD~ia~la~~~~~~g~~~~I~S~DkD~~ql~ 140 (240)
T cd00008 105 EGYEADDVIGTLAKKAEAEGYKVVIVSGDKDLLQLV 140 (240)
T ss_pred CCcCHHHHHHHHHHHHHHcCCeEEEEeCCCChhhhC
Confidence 567899999988853 2336799999999998655
No 25
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=31.52 E-value=2.1e+02 Score=23.57 Aligned_cols=62 Identities=13% Similarity=0.120 Sum_probs=32.0
Q ss_pred HHHHHHhh--cceeecCCC-CCCCHHHHHHHHHhccCCccEEEEc---cCHHHHHHhhcCCCCcEEEecCc
Q 043680 29 EAVEAAYK--VAIARCEHE-KLKSADACLMEVIGEKNPEHFFVAT---QDVDLRKKLQEVPGVPLIFGLRN 93 (205)
Q Consensus 29 ~Al~iaK~--f~~~kC~H~-~~~~a~~CI~~~v~~~N~~~yiVAT---QD~~Lr~~LR~ipGVPliyi~~~ 93 (205)
|+...|++ +...-|... +.....+.|..+. ..+..-+|++. .|..++..+.. |+|+|++.+.
T Consensus 20 gi~~~~~~~gy~v~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~~~~~~~~~~--~~pvV~i~~~ 87 (269)
T cd06293 20 AVEEEADARGLSLVLCATRNRPERELTYLRWLD-TNHVDGLIFVTNRPDDGALAKLINS--YGNIVLVDED 87 (269)
T ss_pred HHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCCHHHHHHHHhc--CCCEEEECCC
Confidence 34445554 344444332 2222334444443 44556677764 34445554443 8999999863
No 26
>COG4660 RnfE Predicted NADH:ubiquinone oxidoreductase, subunit RnfE [Energy production and conversion]
Probab=30.90 E-value=11 Score=32.32 Aligned_cols=20 Identities=15% Similarity=0.210 Sum_probs=14.7
Q ss_pred ceecceeccchHH---HHHHhhc
Q 043680 5 TLLLPLLSSSPPS---LFLFRLG 24 (205)
Q Consensus 5 ~~~~~l~tT~CVl---~ELe~LG 24 (205)
-++|||++|+||+ +|.....
T Consensus 99 GiFIPLIVtNCIiiGRAEafAsK 121 (212)
T COG4660 99 GIFIPLIVTNCIVIGRAEAFASK 121 (212)
T ss_pred hhhhhhheeeeeEeecHHHHHhh
Confidence 4689999999996 4544443
No 27
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=29.07 E-value=70 Score=24.67 Aligned_cols=45 Identities=11% Similarity=0.067 Sum_probs=30.8
Q ss_pred HHHHHHHhccCCccEEEEccCHHHHHHhh----cCCCCcEEEecCceEEE
Q 043680 52 ACLMEVIGEKNPEHFFVATQDVDLRKKLQ----EVPGVPLIFGLRNALLL 97 (205)
Q Consensus 52 ~CI~~~v~~~N~~~yiVATQD~~Lr~~LR----~ipGVPliyi~~~~~~L 97 (205)
.-|.++.... ..-.|||.|-+..++..- +..|+||+++..+.+-|
T Consensus 26 ~tiK~lk~gk-aKliiiAsN~P~~~k~~ieyYAkLs~ipV~~y~Gt~~eL 74 (100)
T COG1911 26 RTIKSLKLGK-AKLIIIASNCPKELKEDIEYYAKLSDIPVYVYEGTSVEL 74 (100)
T ss_pred HHHHHHHcCC-CcEEEEecCCCHHHHHHHHHHHHHcCCcEEEecCCceeH
Confidence 4455554332 357899999887766443 34599999999887654
No 28
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF.
Probab=28.25 E-value=3e+02 Score=21.66 Aligned_cols=82 Identities=13% Similarity=0.175 Sum_probs=44.4
Q ss_pred ceecceeccchHH--H---HHHhhccchHHHHHHHhhcceeecCCCCC----CCHHHHHHHHHhccCCccEEEEccCHHH
Q 043680 5 TLLLPLLSSSPPS--L---FLFRLGQSHSEAVEAAYKVAIARCEHEKL----KSADACLMEVIGEKNPEHFFVATQDVDL 75 (205)
Q Consensus 5 ~~~~~l~tT~CVl--~---ELe~LG~~~~~Al~iaK~f~~~kC~H~~~----~~a~~CI~~~v~~~N~~~yiVATQD~~L 75 (205)
.+||=++.|.|-. . +|..|...|.. +++..+-...... .+..+.+..++...+-..-++.-.|..+
T Consensus 27 ~~ll~f~~t~Cp~c~~~~~~l~~l~~~~~~-----~~v~~v~is~d~~~~~~~d~~~~~~~~~~~~~~~~~~l~D~~~~~ 101 (171)
T cd02969 27 ALVVMFICNHCPYVKAIEDRLNRLAKEYGA-----KGVAVVAINSNDIEAYPEDSPENMKAKAKEHGYPFPYLLDETQEV 101 (171)
T ss_pred EEEEEEECCCCccHHHHHHHHHHHHHHHhh-----CCeEEEEEecCccccccccCHHHHHHHHHHCCCCceEEECCchHH
Confidence 4566677777742 3 34333333321 3566666655322 1456788887765432222334455556
Q ss_pred HHHhhcCCCCcEEEecC
Q 043680 76 RKKLQEVPGVPLIFGLR 92 (205)
Q Consensus 76 r~~LR~ipGVPliyi~~ 92 (205)
.+.++ +.++|-+|+..
T Consensus 102 ~~~~~-v~~~P~~~lid 117 (171)
T cd02969 102 AKAYG-AACTPDFFLFD 117 (171)
T ss_pred HHHcC-CCcCCcEEEEC
Confidence 65554 56889776664
No 29
>cd02066 GRX_family Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including human GRX1 and GRX2, as well as E. coli GRX1 and GRX3, which
Probab=27.92 E-value=64 Score=20.65 Aligned_cols=25 Identities=40% Similarity=0.601 Sum_probs=17.8
Q ss_pred EccCHHHHHHhhcC---CCCcEEEecCc
Q 043680 69 ATQDVDLRKKLQEV---PGVPLIFGLRN 93 (205)
Q Consensus 69 ATQD~~Lr~~LR~i---pGVPliyi~~~ 93 (205)
-.+|.+++..|+++ +.+|+||+...
T Consensus 32 i~~~~~~~~~l~~~~~~~~~P~~~~~~~ 59 (72)
T cd02066 32 ILEDGELREELKELSGWPTVPQIFINGE 59 (72)
T ss_pred CCCCHHHHHHHHHHhCCCCcCEEEECCE
Confidence 35667788877653 56999998653
No 30
>PRK12496 hypothetical protein; Provisional
Probab=27.92 E-value=97 Score=25.46 Aligned_cols=27 Identities=7% Similarity=-0.009 Sum_probs=22.4
Q ss_pred EEEEccCHHHHHHhhcCCCCcEEEecCc
Q 043680 66 FFVATQDVDLRKKLQEVPGVPLIFGLRN 93 (205)
Q Consensus 66 yiVATQD~~Lr~~LR~ipGVPliyi~~~ 93 (205)
.++-|.|..+|+-++.. |++++-+++.
T Consensus 92 ~~lvtDD~~~~~vA~~l-gi~v~~~~~~ 118 (164)
T PRK12496 92 GTLYTDDYGIQNVAKKL-NIKFENIKTK 118 (164)
T ss_pred CcEECcHHHHHHHHHHc-CCeEeccccc
Confidence 46779999999999986 9999888743
No 31
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=27.69 E-value=1.1e+02 Score=22.58 Aligned_cols=56 Identities=16% Similarity=0.312 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHhccCCccEEEEccC-----HHHHHHhhcCCCCcEEEecCceEEEeCCChhhHHHHHH
Q 043680 47 LKSADACLMEVIGEKNPEHFFVATQD-----VDLRKKLQEVPGVPLIFGLRNALLLEPPSSFQRKFVKT 110 (205)
Q Consensus 47 ~~~a~~CI~~~v~~~N~~~yiVATQD-----~~Lr~~LR~ipGVPliyi~~~~~~LE~PS~as~~~~~~ 110 (205)
-..|.++|..+-..+ .+|++.||. .++.++|+.. |+++ ..+.++ .+..++..+.+.
T Consensus 16 ipga~e~l~~L~~~g--~~~~~lTNns~~s~~~~~~~L~~~-Gi~~---~~~~i~--ts~~~~~~~l~~ 76 (101)
T PF13344_consen 16 IPGAVEALDALRERG--KPVVFLTNNSSRSREEYAKKLKKL-GIPV---DEDEII--TSGMAAAEYLKE 76 (101)
T ss_dssp -TTHHHHHHHHHHTT--SEEEEEES-SSS-HHHHHHHHHHT-TTT-----GGGEE--EHHHHHHHHHHH
T ss_pred CcCHHHHHHHHHHcC--CCEEEEeCCCCCCHHHHHHHHHhc-CcCC---CcCEEE--ChHHHHHHHHHh
Confidence 346788888776543 568888988 5889999886 9984 222222 345555555544
No 32
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=27.50 E-value=2.1e+02 Score=19.58 Aligned_cols=83 Identities=13% Similarity=0.085 Sum_probs=45.2
Q ss_pred ceecceeccchHHHHHHhhccchHHHHHHH--hhcceeecCCCCCCCHHHHHHHHHhccCCccEEEEccCHHHHHHhhcC
Q 043680 5 TLLLPLLSSSPPSLFLFRLGQSHSEAVEAA--YKVAIARCEHEKLKSADACLMEVIGEKNPEHFFVATQDVDLRKKLQEV 82 (205)
Q Consensus 5 ~~~~~l~tT~CVl~ELe~LG~~~~~Al~ia--K~f~~~kC~H~~~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~~LR~i 82 (205)
.++|=++.+.|.. ....-+.+......- ..+.....+.... ..+.+.+++...+....++.-.+..+.+.++-
T Consensus 21 ~~ll~f~~~~C~~--C~~~~~~l~~~~~~~~~~~~~~~~v~~d~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 95 (116)
T cd02966 21 VVLVNFWASWCPP--CRAEMPELEALAKEYKDDGVEVVGVNVDDD--DPAAVKAFLKKYGITFPVLLDPDGELAKAYGV- 95 (116)
T ss_pred EEEEEeecccChh--HHHHhHHHHHHHHHhCCCCeEEEEEECCCC--CHHHHHHHHHHcCCCcceEEcCcchHHHhcCc-
Confidence 4667777888865 232222333222211 1233333332211 36888888876654444444455777777764
Q ss_pred CCCcEEEecC
Q 043680 83 PGVPLIFGLR 92 (205)
Q Consensus 83 pGVPliyi~~ 92 (205)
.++|-+|+..
T Consensus 96 ~~~P~~~l~d 105 (116)
T cd02966 96 RGLPTTFLID 105 (116)
T ss_pred CccceEEEEC
Confidence 5899887664
No 33
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=26.65 E-value=80 Score=22.70 Aligned_cols=31 Identities=19% Similarity=0.241 Sum_probs=22.9
Q ss_pred ccEEEEccCHHHHHHhhcCC---CCcEEEecCce
Q 043680 64 EHFFVATQDVDLRKKLQEVP---GVPLIFGLRNA 94 (205)
Q Consensus 64 ~~yiVATQD~~Lr~~LR~ip---GVPliyi~~~~ 94 (205)
..++=-.+|.+++..|.++- .||.||+....
T Consensus 40 y~~idv~~~~~~~~~l~~~~g~~tvP~vfi~g~~ 73 (90)
T cd03028 40 FGTFDILEDEEVRQGLKEYSNWPTFPQLYVNGEL 73 (90)
T ss_pred eEEEEcCCCHHHHHHHHHHhCCCCCCEEEECCEE
Confidence 44555568899999988764 48999998643
No 34
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=26.64 E-value=2.7e+02 Score=23.90 Aligned_cols=63 Identities=11% Similarity=0.060 Sum_probs=38.4
Q ss_pred HHHHHHhh--cceeecCCCC-CCCHHHHHHHHHhccCCccEEEEccCH----HHHHHhhcCCCCcEEEecCc
Q 043680 29 EAVEAAYK--VAIARCEHEK-LKSADACLMEVIGEKNPEHFFVATQDV----DLRKKLQEVPGVPLIFGLRN 93 (205)
Q Consensus 29 ~Al~iaK~--f~~~kC~H~~-~~~a~~CI~~~v~~~N~~~yiVATQD~----~Lr~~LR~ipGVPliyi~~~ 93 (205)
++...|+. +...-|++.. ...-.++|..++.. +..-+||+..|. ..-..++. .|+|+|++.+.
T Consensus 19 ~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~~-~vDgIIi~~~~~~~~~~~l~~~~~-~~iPvV~~d~~ 88 (302)
T TIGR02634 19 IFVAAAESLGAKVFVQSANGNEAKQISQIENLIAR-GVDVLVIIPQNGQVLSNAVQEAKD-EGIKVVAYDRL 88 (302)
T ss_pred HHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEeCCChhHHHHHHHHHHH-CCCeEEEecCc
Confidence 34455554 5666777742 22344677776653 456688887663 33345555 59999999763
No 35
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=26.03 E-value=2.9e+02 Score=22.45 Aligned_cols=43 Identities=16% Similarity=0.190 Sum_probs=26.5
Q ss_pred HHHHHHHHHhccCCccEEEEc--cCHHHHHHhhcCCCCcEEEecCc
Q 043680 50 ADACLMEVIGEKNPEHFFVAT--QDVDLRKKLQEVPGVPLIFGLRN 93 (205)
Q Consensus 50 a~~CI~~~v~~~N~~~yiVAT--QD~~Lr~~LR~ipGVPliyi~~~ 93 (205)
..+-+.+++...+-.-+||.. .+....+.+.+ -|+|+|++.+.
T Consensus 48 ~~~~~~~~~~~~~~dgiii~~~~~~~~~~~~~~~-~~ipvV~~~~~ 92 (270)
T cd06294 48 LLEEVKKMIQQKRVDGFILLYSREDDPIIDYLKE-EKFPFVVIGKP 92 (270)
T ss_pred HHHHHHHHHHHcCcCEEEEecCcCCcHHHHHHHh-cCCCEEEECCC
Confidence 345556666544455566653 23455566665 49999999864
No 36
>COG4657 RnfA Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]
Probab=25.83 E-value=21 Score=30.21 Aligned_cols=17 Identities=24% Similarity=0.381 Sum_probs=12.8
Q ss_pred eecceeccchHHHHHHh
Q 043680 6 LLLPLLSSSPPSLFLFR 22 (205)
Q Consensus 6 ~~~~l~tT~CVl~ELe~ 22 (205)
.++||+||+|.+--.--
T Consensus 105 IfLPLITTNCaVLgvaL 121 (193)
T COG4657 105 IFLPLITTNCAVLGVAL 121 (193)
T ss_pred HhhhhHhhchHHHHHHH
Confidence 36999999999755433
No 37
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=24.12 E-value=3.8e+02 Score=21.85 Aligned_cols=63 Identities=10% Similarity=0.010 Sum_probs=32.3
Q ss_pred HHHHHHHhh--cceeecCCC-CCCCHHHHHHHHHhccCCccEEEEccC--HHHHHHhhcCCCCcEEEecCc
Q 043680 28 SEAVEAAYK--VAIARCEHE-KLKSADACLMEVIGEKNPEHFFVATQD--VDLRKKLQEVPGVPLIFGLRN 93 (205)
Q Consensus 28 ~~Al~iaK~--f~~~kC~H~-~~~~a~~CI~~~v~~~N~~~yiVATQD--~~Lr~~LR~ipGVPliyi~~~ 93 (205)
+|+.+.|+. |...-+.+. +.....+.|..++ ..+-.-+||...| .+....++. |+|+|++.+.
T Consensus 19 ~gi~~~~~~~gy~~~~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~~~~~~~~~~~~--~iPvV~i~~~ 86 (265)
T cd06290 19 KGMERGLNGSGYSPIIATGHWNQSRELEALELLK-SRRVDALILLGGDLPEEEILALAE--EIPVLAVGRR 86 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHH-HCCCCEEEEeCCCCChHHHHHHhc--CCCEEEECCC
Confidence 344455554 555555442 2222334455554 3444556665432 333445554 8999999864
No 38
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=23.83 E-value=3.5e+02 Score=22.35 Aligned_cols=55 Identities=11% Similarity=0.024 Sum_probs=31.8
Q ss_pred cceeecCCCCCCCHHHHHHHHHhccCCccEEEEcc--CHHHHHHhhcCCCCcEEEecC
Q 043680 37 VAIARCEHEKLKSADACLMEVIGEKNPEHFFVATQ--DVDLRKKLQEVPGVPLIFGLR 92 (205)
Q Consensus 37 f~~~kC~H~~~~~a~~CI~~~v~~~N~~~yiVATQ--D~~Lr~~LR~ipGVPliyi~~ 92 (205)
+...-|.........+.+...+...+-.-+||+.. |.+...+|++ .|+|+|++.+
T Consensus 30 y~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~l~~-~~iPvv~~~~ 86 (269)
T cd06297 30 YDLALFPLLSLARLKRYLESTTLAYLTDGLLLASYDLTERLAERRLP-TERPVVLVDA 86 (269)
T ss_pred CEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecCccChHHHHHHhh-cCCCEEEEcc
Confidence 44444443222233455554444455666777764 4455566766 4999999975
No 39
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=23.69 E-value=63 Score=26.56 Aligned_cols=47 Identities=19% Similarity=0.324 Sum_probs=31.0
Q ss_pred ceeecCCCCCCCHHHHHHHHHhccCCccEEEEccCHHHH------HHhhcCCCCcEE
Q 043680 38 AIARCEHEKLKSADACLMEVIGEKNPEHFFVATQDVDLR------KKLQEVPGVPLI 88 (205)
Q Consensus 38 ~~~kC~H~~~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr------~~LR~ipGVPli 88 (205)
-.--|+|....++ |...+|... -.+.|||+.|++.+ .+||+ .|+.+.
T Consensus 74 TLEPCsH~GrTPP--C~~ali~ag-i~rVvva~~DPnp~Vag~G~~~L~~-aGi~V~ 126 (146)
T COG0117 74 TLEPCSHYGRTPP--CADALIKAG-VARVVVAMLDPNPLVAGGGLARLRA-AGIEVE 126 (146)
T ss_pred EecCcccCCCCcc--hHHHHHHhC-CCEEEEEecCCCccccCchHHHHHH-cCCeEE
Confidence 3456999644333 777777543 35899999999842 56776 466543
No 40
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=22.71 E-value=1.7e+02 Score=23.71 Aligned_cols=67 Identities=15% Similarity=0.079 Sum_probs=41.5
Q ss_pred HHHHHHHhhcceeecCC-CCCCCHHHHHHHHHhccCCccEEEEccCHHHHH---Hhh-cCCCCcEEEecCceE
Q 043680 28 SEAVEAAYKVAIARCEH-EKLKSADACLMEVIGEKNPEHFFVATQDVDLRK---KLQ-EVPGVPLIFGLRNAL 95 (205)
Q Consensus 28 ~~Al~iaK~f~~~kC~H-~~~~~a~~CI~~~v~~~N~~~yiVATQD~~Lr~---~LR-~ipGVPliyi~~~~~ 95 (205)
.+...+++.+ -+...+ ..+.+-...+.+.+...+...|++.+.+..+.+ +|+ ..||+-|+.....-+
T Consensus 14 ~~i~~~~~~~-g~~~~~rv~g~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f 85 (172)
T PF03808_consen 14 MPIVWAARLL-GRPLPERVTGSDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYF 85 (172)
T ss_pred HHHHHHHHHc-CCCCCcccCHHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCC
Confidence 3344445544 444433 234455555666666666778999999987763 444 579999997665433
No 41
>PRK09468 ompR osmolarity response regulator; Provisional
Probab=22.48 E-value=88 Score=25.29 Aligned_cols=30 Identities=20% Similarity=0.292 Sum_probs=21.7
Q ss_pred HHHHHhhcCCCCc--EEEecCceEEEeCCChh
Q 043680 74 DLRKKLQEVPGVP--LIFGLRNALLLEPPSSF 103 (205)
Q Consensus 74 ~Lr~~LR~ipGVP--liyi~~~~~~LE~PS~a 103 (205)
.||++|...|+.| |..+++-+|.|++|+.+
T Consensus 208 ~LR~kl~~~~~~~~~I~tv~g~GY~~~~~~~~ 239 (239)
T PRK09468 208 RLRRLIEEDPAHPRYIQTVWGLGYVFVPDGAK 239 (239)
T ss_pred HHHHHhccCCCCCCeEEEeCCCCeEEccCCCC
Confidence 4777777555444 77888888999987753
No 42
>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=22.21 E-value=1.5e+02 Score=20.03 Aligned_cols=30 Identities=10% Similarity=0.040 Sum_probs=21.8
Q ss_pred ccEEEEccCHHHHHHhhcC--CCCcEEEecCc
Q 043680 64 EHFFVATQDVDLRKKLQEV--PGVPLIFGLRN 93 (205)
Q Consensus 64 ~~yiVATQD~~Lr~~LR~i--pGVPliyi~~~ 93 (205)
..++=.++|.+++..++.. .+||+|++...
T Consensus 26 ~~~~di~~~~~~~~~~~~~g~~~vP~v~~~g~ 57 (72)
T TIGR02194 26 FEEINIDEQPEAIDYVKAQGFRQVPVIVADGD 57 (72)
T ss_pred eEEEECCCCHHHHHHHHHcCCcccCEEEECCC
Confidence 3455567888888888754 37999999754
No 43
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.02 E-value=1.3e+02 Score=20.07 Aligned_cols=26 Identities=23% Similarity=0.323 Sum_probs=19.8
Q ss_pred cEEEEccCHH-----HHHHhhcCCCCcEEEe
Q 043680 65 HFFVATQDVD-----LRKKLQEVPGVPLIFG 90 (205)
Q Consensus 65 ~yiVATQD~~-----Lr~~LR~ipGVPliyi 90 (205)
+|.|.+.|.+ |.++||++|||.=+++
T Consensus 44 ~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 44 TISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 4667777775 6779999999977665
No 44
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.10 E-value=4.4e+02 Score=21.64 Aligned_cols=64 Identities=13% Similarity=0.106 Sum_probs=35.3
Q ss_pred HHHHHHHhh--cceeecCCC-CCCCHHHHHHHHHhccCCccEEEEcc--C-HHHHHHhhcCCCCcEEEecCc
Q 043680 28 SEAVEAAYK--VAIARCEHE-KLKSADACLMEVIGEKNPEHFFVATQ--D-VDLRKKLQEVPGVPLIFGLRN 93 (205)
Q Consensus 28 ~~Al~iaK~--f~~~kC~H~-~~~~a~~CI~~~v~~~N~~~yiVATQ--D-~~Lr~~LR~ipGVPliyi~~~ 93 (205)
.+..+.|+. +...-+... +.-....+|..++. .+-+-+||... | ..+.+.+++ .|+|+|++.+.
T Consensus 19 ~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~~~~~~~~~~~~-~~ipvV~i~~~ 88 (269)
T cd06281 19 SGAEDRLRAAGYSLLIANSLNDPERELEILRSFEQ-RRMDGIIIAPGDERDPELVDALAS-LDLPIVLLDRD 88 (269)
T ss_pred HHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHH-cCCCEEEEecCCCCcHHHHHHHHh-CCCCEEEEecc
Confidence 445555655 333333222 22234567766654 34445665443 2 445666776 48999999764
No 45
>PTZ00062 glutaredoxin; Provisional
Probab=20.10 E-value=93 Score=26.56 Aligned_cols=41 Identities=17% Similarity=0.328 Sum_probs=26.7
Q ss_pred HHHHhccC-CccEEEEccCHHHHHHhhcC---CCCcEEEecCceE
Q 043680 55 MEVIGEKN-PEHFFVATQDVDLRKKLQEV---PGVPLIFGLRNAL 95 (205)
Q Consensus 55 ~~~v~~~N-~~~yiVATQD~~Lr~~LR~i---pGVPliyi~~~~~ 95 (205)
.+++...+ +..++=-.+|.++|..|.+. |.||.|||++..+
T Consensus 135 k~~L~~~~i~y~~~DI~~d~~~~~~l~~~sg~~TvPqVfI~G~~I 179 (204)
T PTZ00062 135 VNMLNSSGVKYETYNIFEDPDLREELKVYSNWPTYPQLYVNGELI 179 (204)
T ss_pred HHHHHHcCCCEEEEEcCCCHHHHHHHHHHhCCCCCCeEEECCEEE
Confidence 34554432 22333345788999988765 7799999997654
Done!