Query 046005
Match_columns 169
No_of_seqs 177 out of 246
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 07:45:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046005.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046005hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1160 Fe-S oxidoreductase [E 100.0 3.5E-63 7.6E-68 451.9 10.7 160 1-164 435-594 (601)
2 PF08608 Wyosine_form: Wyosine 100.0 2.4E-31 5.2E-36 185.6 4.6 62 37-101 1-62 (62)
3 COG0731 Fe-S oxidoreductases [ 100.0 5.9E-30 1.3E-34 223.1 8.6 124 1-128 162-288 (296)
4 PRK13762 tRNA-modifying enzyme 99.9 1.5E-24 3.3E-29 188.7 11.1 102 1-105 212-313 (322)
5 TIGR02494 PFLE_PFLC glycyl-rad 96.8 0.0021 4.5E-08 54.3 4.7 78 2-79 206-293 (295)
6 PRK11145 pflA pyruvate formate 95.6 0.059 1.3E-06 44.4 7.6 78 3-80 154-240 (246)
7 PRK14453 chloramphenicol/florf 95.4 0.084 1.8E-06 47.3 8.2 71 6-80 242-318 (347)
8 TIGR01290 nifB nitrogenase cof 95.3 0.058 1.3E-06 49.6 7.2 77 3-80 180-258 (442)
9 PRK14454 ribosomal RNA large s 94.8 0.12 2.6E-06 46.1 7.6 67 7-80 246-314 (342)
10 PRK10076 pyruvate formate lyas 94.6 0.17 3.6E-06 42.4 7.4 76 2-77 119-202 (213)
11 TIGR02493 PFLA pyruvate format 93.5 0.38 8.2E-06 39.1 7.3 77 2-78 148-233 (235)
12 PRK14457 ribosomal RNA large s 93.0 0.49 1.1E-05 42.4 7.8 68 6-80 249-318 (345)
13 PRK14455 ribosomal RNA large s 92.8 0.51 1.1E-05 42.3 7.7 65 9-80 259-325 (356)
14 PRK14459 ribosomal RNA large s 91.8 0.84 1.8E-05 41.7 7.9 67 8-80 277-347 (373)
15 PRK14462 ribosomal RNA large s 91.4 0.87 1.9E-05 41.2 7.5 66 8-80 259-326 (356)
16 PRK11194 ribosomal RNA large s 90.4 1.5 3.2E-05 39.9 8.1 63 11-80 261-325 (372)
17 PRK14470 ribosomal RNA large s 89.9 0.7 1.5E-05 41.3 5.5 60 9-78 243-306 (336)
18 TIGR00048 radical SAM enzyme, 89.8 1.5 3.3E-05 39.3 7.6 68 6-80 252-321 (355)
19 PRK14456 ribosomal RNA large s 86.7 3.4 7.4E-05 37.5 7.9 67 7-80 273-341 (368)
20 PRK00164 moaA molybdenum cofac 86.2 2.3 5.1E-05 36.6 6.3 69 2-75 149-220 (331)
21 PRK14460 ribosomal RNA large s 86.0 3.8 8.3E-05 36.8 7.7 64 9-80 254-320 (354)
22 PRK14463 ribosomal RNA large s 84.2 5.3 0.00012 35.9 7.8 64 10-80 248-313 (349)
23 PRK14468 ribosomal RNA large s 84.2 5.3 0.00012 35.7 7.8 67 7-80 241-309 (343)
24 PRK14467 ribosomal RNA large s 84.1 5.5 0.00012 35.9 7.8 67 8-80 248-317 (348)
25 PRK13361 molybdenum cofactor b 83.5 3.6 7.7E-05 35.9 6.2 71 2-77 145-218 (329)
26 PRK05301 pyrroloquinoline quin 83.0 4.2 9.1E-05 35.7 6.6 73 2-77 146-218 (378)
27 PRK14465 ribosomal RNA large s 80.9 5.6 0.00012 35.9 6.7 65 8-80 251-317 (342)
28 PLN02951 Molybderin biosynthes 79.8 1.5 3.3E-05 39.3 2.7 49 2-53 190-241 (373)
29 TIGR03278 methan_mark_10 putat 78.2 11 0.00024 34.7 7.8 77 3-80 160-242 (404)
30 COG1180 PflA Pyruvate-formate 78.0 6.7 0.00015 33.6 6.0 75 1-77 163-240 (260)
31 PRK14469 ribosomal RNA large s 76.8 11 0.00024 33.4 7.1 63 10-80 249-313 (343)
32 TIGR02109 PQQ_syn_pqqE coenzym 70.0 18 0.00039 31.4 6.7 71 2-75 137-207 (358)
33 TIGR03470 HpnH hopanoid biosyn 69.1 21 0.00044 31.2 6.9 74 2-79 154-227 (318)
34 PF04309 G3P_antiterm: Glycero 67.0 5.7 0.00012 32.9 2.9 39 5-46 86-124 (175)
35 TIGR02666 moaA molybdenum cofa 64.9 20 0.00043 31.0 6.0 50 2-54 144-196 (334)
36 COG1954 GlpP Glycerol-3-phosph 62.7 9.8 0.00021 32.1 3.5 34 9-45 94-127 (181)
37 PRK14466 ribosomal RNA large s 61.4 39 0.00085 30.7 7.4 65 9-80 247-313 (345)
38 COG1489 SfsA DNA-binding prote 59.9 5.3 0.00011 34.8 1.6 14 39-52 126-139 (235)
39 COG0027 PurT Formate-dependent 59.7 9.8 0.00021 35.3 3.3 50 23-76 59-123 (394)
40 PF03749 SfsA: Sugar fermentat 57.8 6 0.00013 33.6 1.5 15 39-53 115-129 (215)
41 PRK14464 ribosomal RNA large s 56.3 51 0.0011 29.9 7.3 64 10-80 240-305 (344)
42 TIGR00238 KamA family protein. 56.0 38 0.00083 30.0 6.3 81 2-87 242-322 (331)
43 TIGR03821 AblA_like_1 lysine-2 51.2 41 0.00089 29.7 5.7 75 2-86 225-304 (321)
44 TIGR02668 moaA_archaeal probab 51.1 53 0.0012 27.8 6.2 38 3-40 140-178 (302)
45 PRK13758 anaerobic sulfatase-m 50.0 84 0.0018 27.3 7.4 74 2-79 149-223 (370)
46 TIGR03544 DivI1A_domain DivIVA 49.0 7.1 0.00015 23.8 0.4 23 14-37 10-32 (34)
47 COG1090 Predicted nucleoside-d 47.0 69 0.0015 29.1 6.4 91 29-124 90-205 (297)
48 TIGR03822 AblA_like_2 lysine-2 44.9 92 0.002 27.3 6.9 80 2-87 219-299 (321)
49 COG1424 BioW Pimeloyl-CoA synt 44.3 34 0.00074 29.8 4.0 85 36-124 39-145 (239)
50 PRK00347 putative DNA-binding 42.6 15 0.00032 31.5 1.6 13 40-52 130-142 (234)
51 PRK14461 ribosomal RNA large s 42.5 1.2E+02 0.0027 28.0 7.6 64 10-80 269-340 (371)
52 TIGR00230 sfsA sugar fermentat 40.6 15 0.00033 31.6 1.3 12 40-51 129-140 (232)
53 KOG2596 Aminopeptidase I zinc 38.2 19 0.0004 34.3 1.6 35 84-118 87-133 (479)
54 PF13020 DUF3883: Domain of un 32.3 17 0.00036 26.0 0.3 14 36-49 38-51 (91)
55 PF07405 DUF1506: Protein of u 30.9 21 0.00045 28.6 0.6 26 17-42 65-90 (127)
56 PF01168 Ala_racemase_N: Alani 30.9 78 0.0017 25.1 3.9 32 22-55 125-157 (218)
57 PF10116 Host_attach: Protein 30.6 30 0.00064 26.4 1.4 40 62-105 63-102 (138)
58 PF15044 CLU_N: Mitochondrial 29.0 87 0.0019 22.2 3.5 30 5-35 16-45 (76)
59 PF11281 DUF3083: Protein of u 29.0 27 0.00059 31.8 1.1 45 75-143 4-48 (316)
60 PRK06242 flavodoxin; Provision 27.0 2.7E+02 0.0058 20.7 6.9 67 11-80 74-149 (150)
61 PF07395 Mig-14: Mig-14; Inte 26.2 29 0.00063 30.7 0.8 25 132-156 186-212 (264)
62 PF02142 MGS: MGS-like domain 26.0 61 0.0013 23.1 2.3 19 69-90 1-19 (95)
63 KOG4808 Uncharacterized conser 25.5 45 0.00098 27.4 1.6 31 130-165 44-75 (151)
64 PF08410 DUF1737: Domain of un 25.3 22 0.00048 24.5 -0.1 19 141-159 28-46 (54)
65 PF09875 DUF2102: Uncharacteri 25.0 52 0.0011 25.6 1.8 20 148-167 62-81 (104)
66 PF01951 Archease: Archease pr 23.1 30 0.00064 26.9 0.2 13 41-53 108-120 (137)
67 PRK15312 antimicrobial resista 21.8 40 0.00086 30.5 0.7 21 135-155 221-241 (298)
68 COG0780 Enzyme related to GTP 21.8 87 0.0019 25.5 2.6 21 29-49 100-120 (149)
69 PRK02256 putative aminopeptida 21.4 49 0.0011 31.2 1.3 35 84-118 94-140 (462)
70 cd01335 Radical_SAM Radical SA 20.9 1E+02 0.0022 22.5 2.7 54 2-55 130-185 (204)
71 PRK00301 aat leucyl/phenylalan 20.1 3.2E+02 0.007 23.8 5.9 99 12-126 81-212 (233)
No 1
>KOG1160 consensus Fe-S oxidoreductase [Energy production and conversion]
Probab=100.00 E-value=3.5e-63 Score=451.93 Aligned_cols=160 Identities=59% Similarity=1.103 Sum_probs=154.9
Q ss_pred ChhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 1 ~sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+||++|+.|+||||||+||||||||+++.+|++||.+|.|+||||||+||||.|..++|||.|+||||||++|+.+|.+.
T Consensus 435 d~l~~lk~K~qrtvyRlTlVkg~n~dd~~Ayfnlv~rglp~fieVkGvty~ges~~s~lTm~nvp~~Ee~v~Fv~eL~~l 514 (601)
T KOG1160|consen 435 DSLKALKKKQQRTVYRLTLVKGWNSDDLPAYFNLVSRGLPDFIEVKGVTYCGESELSNLTMTNVPWHEEVVEFVFELVDL 514 (601)
T ss_pred HHHHHHHHhhcceEEEEEEeccccccccHHHHHHHhccCCceEEEeceeEecccccCcccccCccHHHHHHHHHHHHHHh
Confidence 58999999999999999999999999999999999999999999999999999998999999999999999999999664
Q ss_pred cCCCceEeecCccceEEEeeeccccccCCeeEEeeehhhHHHHHhCCCCCCccccccCCCCccccCCCCCCCCCCCchhh
Q 046005 81 SEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWAVYGAEEGGFDPDQSRYR 160 (169)
Q Consensus 81 ~~~~Y~i~~Eh~~Sr~vLLa~~~kf~i~g~w~TwIdy~kF~~l~~~~~~f~~~dY~~~TP~WA~~g~~e~GFdP~~~R~~ 160 (169)
+..|+|+|||+||||+|++. .+||+||+|||||||+||++|++++++|++.|||+.||+||+||+ +||||.|||++
T Consensus 515 -~~~ye~a~ehahs~~~l~a~-~kFK~dg~w~T~iDynkf~el~~~~kdFt~~DYma~TP~wAlfG~--gGF~P~~tR~~ 590 (601)
T KOG1160|consen 515 -LQEYEIACEHAHSNCLLIAV-TKFKIDGEWETWIDYNKFEELIKKSKDFTAKDYMARTPHWALFGA--GGFDPGDTRHQ 590 (601)
T ss_pred -hhhhhhhhcccCcceeeehh-hhcccCCceeeccchHHHHHHHhccCCCChhhhhhcCCceeeecC--CCCCcccchhh
Confidence 56999999999999999999 799999999999999999999999999999999999999999999 99999999999
Q ss_pred hhcc
Q 046005 161 KERH 164 (169)
Q Consensus 161 ~~~~ 164 (169)
|+++
T Consensus 591 rk~K 594 (601)
T KOG1160|consen 591 RKNK 594 (601)
T ss_pred hccC
Confidence 9874
No 2
>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.
Probab=99.97 E-value=2.4e-31 Score=185.56 Aligned_cols=62 Identities=48% Similarity=0.738 Sum_probs=44.8
Q ss_pred hcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHhcCCCceEeecCccceEEEeee
Q 046005 37 IGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAK 101 (169)
Q Consensus 37 ~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~~~~~Y~i~~Eh~~Sr~vLLa~ 101 (169)
+|+|||||||||||||+|+ +||||+|||+|+||++||++|++.+ +|.|++||+||||||||+
T Consensus 1 ra~P~fVEvKa~~~~G~s~-~rLt~~nmp~h~eV~~F~~~l~~~~--~y~i~~e~~~SrvvLla~ 62 (62)
T PF08608_consen 1 RAEPDFVEVKAYMHVGYSR-NRLTMGNMPWHEEVLDFAEELAELL--GYEITDEHEHSRVVLLAR 62 (62)
T ss_dssp HHT-SEEEEEE-------------GGGS--HHHHHHHHHHHHTTS--TEEEEEEECCCTEEEEEE
T ss_pred CCCCcEEEEecCccccccc-CccccCCCCcHHHHHHHHHHHHhhc--CCEEEeccccccEEEecC
Confidence 5899999999999999999 7999999999999999999999984 699999999999999986
No 3
>COG0731 Fe-S oxidoreductases [Energy production and conversion]
Probab=99.96 E-value=5.9e-30 Score=223.10 Aligned_cols=124 Identities=34% Similarity=0.436 Sum_probs=117.1
Q ss_pred ChhhhhhcC-CCCeEEEEeeecccCccC--HHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHH
Q 046005 1 DSLKALRDK-QQRTVYRLTLVKGWNTED--IEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEAL 77 (169)
Q Consensus 1 ~sL~iL~~k-~~RTV~RlTLVKg~Nm~~--~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L 77 (169)
++|++|++. ++|||+|+|||||+||++ +++||+|+++++|||||||+||+.|+|+ .+|+++|||.|+|+++|++.|
T Consensus 162 e~L~~~~~~~~~~~vir~tlvkg~N~~~e~~~~~a~ll~~~~Pd~velk~~~rpgas~-~~l~~~~~p~~e~~~~f~~~l 240 (296)
T COG0731 162 EGLEIFRSEYKGRTVIRTTLVKGINDDEEELEEYAELLERINPDFVELKTYMRPGASR-YRLPRSNMPLHEEVLEFAKEL 240 (296)
T ss_pred HHHHHhhhcCCCcEEEEEEEeccccCChHHHHHHHHHHHhcCCCeEEEecCccCChHh-hccCccccchhHHHHHHHHHh
Confidence 479999999 999999999999999986 9999999999999999999999999998 689999999999999999999
Q ss_pred HHhcCCCceEeecCccceEEEeeeccccccCCeeEEeeehhhHHHHHhCCC
Q 046005 78 ALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGR 128 (169)
Q Consensus 78 ~~~~~~~Y~i~~Eh~~Sr~vLLa~~~kf~i~g~w~TwIdy~kF~~l~~~~~ 128 (169)
.+. .+|++++++++||+||+++ ...++...|+++.+++.+.+++.+..
T Consensus 241 ~~~--~~~~~l~~~~~sr~~ll~~-~~e~~~~~~~~~p~~~~~~~~~~~~~ 288 (296)
T COG0731 241 GEE--LGYEILDESEGSRVVLLAN-DEEKILSILSVHPMREEEIELLLNKS 288 (296)
T ss_pred hcc--cCeeeeeccCCceEEEccc-chhhhhhhhccCCCcHHHHHHHhccc
Confidence 987 4799999999999999999 56789999999999999999988765
No 4
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=99.91 E-value=1.5e-24 Score=188.67 Aligned_cols=102 Identities=42% Similarity=0.633 Sum_probs=96.2
Q ss_pred ChhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 1 DSLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 1 ~sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
++|+.|++.+.+|++|+|||+|+|++++++||++++..+|+|||||+||++|.|+ .+|++++||+|+|+.+|++.|.+.
T Consensus 212 ~~L~~l~~~~~~~~ir~tlv~g~Nd~e~~~~a~l~~~~~~~~Iel~~y~~~G~~k-~~l~~~~~p~~eev~~~~~~l~~~ 290 (322)
T PRK13762 212 ETLELLPSKKTRTVIRITLVKGYNMHDPEGFAKLIERANPDFVEVKAYMHVGYSR-NRLTRDNMPSHEEVREFAKELAEY 290 (322)
T ss_pred HHHHHHHhCCCCEEEEEEEECCcCccHHHHHHHHHHHcCCCEEEEECCeECCCcc-ccccccCCcCHHHHHHHHHHHHHh
Confidence 3688899989999999999999999999999999999999999999999999998 689999999999999999999998
Q ss_pred cCCCceEeecCccceEEEeeecccc
Q 046005 81 SEGEYEVACEHVHSCCVLLAKTERF 105 (169)
Q Consensus 81 ~~~~Y~i~~Eh~~Sr~vLLa~~~kf 105 (169)
.+|+|++||+|||||||++.+++
T Consensus 291 --~~~~i~~~~~~s~~~ll~~~~~~ 313 (322)
T PRK13762 291 --TGYEILDESEPSRVVLLSRDDRP 313 (322)
T ss_pred --cCCeEEecCCCceEEEEeecCCc
Confidence 38999999999999999997666
No 5
>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family. This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA, ), benzylsuccinate synthase (BssD, ), gycerol dehydratase (DhaB2, ) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0
Probab=96.77 E-value=0.0021 Score=54.30 Aligned_cols=78 Identities=19% Similarity=0.332 Sum_probs=61.3
Q ss_pred hhhhhhcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCC--CeEEEcceeecccCCC----CCCCCCCC--CChHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNP--DFVEIKGVTYCGSSAT----SKLTMENV--PWHADVK 71 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~P--dFIEvKgyt~~G~S~~----~rLtm~Nm--P~heEV~ 71 (169)
.|+.|.+.+.+..+|++||.|+|++ ++++.++++..-.| +.|++..|...|.+.- ..-.|.+| |.-+++.
T Consensus 206 ~i~~l~~~~~~~~i~~~~v~~~n~~~~ei~~l~~~~~~~~~~v~~v~l~~~~~~g~~~~~~~~~~~~~~~~~~p~~~~~~ 285 (295)
T TIGR02494 206 NLEALAAAGKNVVIRIPVIPGFNDSEENIEAIAAFLRKLEPGVDEIDLLPYHRLGENKYRQLGREYPDSEIPDPAEEQLL 285 (295)
T ss_pred HHHHHHhCCCcEEEEeceeCCcCCCHHHHHHHHHHHHHhccCCceEEecCCCchhHHHHHHhCCCCccCCCCCCCHHHHH
Confidence 4666777778999999999999974 79999999987764 7999999999998752 12344555 8889999
Q ss_pred HHHHHHHH
Q 046005 72 AFSEALAL 79 (169)
Q Consensus 72 ~Fa~~L~~ 79 (169)
+|.+.+.+
T Consensus 286 ~~~~~~~~ 293 (295)
T TIGR02494 286 ELKEIFES 293 (295)
T ss_pred HHHHHHHh
Confidence 98877643
No 6
>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional
Probab=95.63 E-value=0.059 Score=44.37 Aligned_cols=78 Identities=19% Similarity=0.258 Sum_probs=57.4
Q ss_pred hhhhhcCCCCeEEEEeeecccCcc--CHHHHHHHHhh-cCCCeEEEcceeecccCCC------CCCCCCCCCChHHHHHH
Q 046005 3 LKALRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSI-GNPDFVEIKGVTYCGSSAT------SKLTMENVPWHADVKAF 73 (169)
Q Consensus 3 L~iL~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~-g~PdFIEvKgyt~~G~S~~------~rLtm~NmP~heEV~~F 73 (169)
++.|.+.+-+..+|+++++|+|++ +++..|+++.. ..+.+||+=.|-..|.+.- ..+.--.-|..+++.+|
T Consensus 154 i~~l~~~g~~v~i~~~li~g~nd~~~ei~~l~~~l~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~l~~~ 233 (246)
T PRK11145 154 ARYLAKRNQKTWIRYVVVPGWTDDDDSAHRLGEFIKDMGNIEKIELLPYHELGKHKWEAMGEEYKLDGVKPPSKETMERV 233 (246)
T ss_pred HHHHHhCCCcEEEEEEEECCCCCCHHHHHHHHHHHHhcCCcceEEEecCCccchhHHHHcCCcccccCCCCCCHHHHHHH
Confidence 456666677899999999999985 68899998864 3468999988888875421 11221244889999999
Q ss_pred HHHHHHh
Q 046005 74 SEALALR 80 (169)
Q Consensus 74 a~~L~~~ 80 (169)
++.+.+.
T Consensus 234 ~~~~~~~ 240 (246)
T PRK11145 234 KGILEQY 240 (246)
T ss_pred HHHHHHc
Confidence 8777654
No 7
>PRK14453 chloramphenicol/florfenicol resistance protein; Provisional
Probab=95.38 E-value=0.084 Score=47.32 Aligned_cols=71 Identities=15% Similarity=0.160 Sum_probs=56.5
Q ss_pred hhcCCCCeEEEEeeecccCcc--CHHHHHHHHhhc----CCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHH
Q 046005 6 LRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIG----NPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALAL 79 (169)
Q Consensus 6 L~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g----~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~ 79 (169)
+.+.+.|..||..||+|+|++ ++++.++++..- .+..|++=-|+-.|.+. .. -..|.-+++.+|.+.|.+
T Consensus 242 l~~~~~~V~iry~LI~GvNDs~e~a~~L~~~lk~l~~~~~~~~VnLIPyn~~~~~~-~~---~~~ps~e~v~~f~~~L~~ 317 (347)
T PRK14453 242 IRHTGRKVYIAYIMLEGVNDSKEHAEAVVGLLRNRGSWEHLYHVNLIPYNSTDKTP-FK---FQSSSAGQIKQFCSTLKS 317 (347)
T ss_pred HHhcCCcEEEEEEeECCCCCCHHHHHHHHHHHhhccccCCcceEEEecCCCCCCCC-cc---CCCCCHHHHHHHHHHHHH
Confidence 444567899999999999997 889999999753 37889999999887642 11 245899999999999877
Q ss_pred h
Q 046005 80 R 80 (169)
Q Consensus 80 ~ 80 (169)
.
T Consensus 318 ~ 318 (347)
T PRK14453 318 A 318 (347)
T ss_pred C
Confidence 5
No 8
>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB. This model describes NifB, a protein required for the biosynthesis of the iron-molybdenum (or iron-vanadium) cofactor used by the nitrogen-fixing enzyme nitrogenase. Archaeal homologs lack the most C-terminal region and score between the trusted and noise cutoffs of this model.
Probab=95.34 E-value=0.058 Score=49.61 Aligned_cols=77 Identities=14% Similarity=0.142 Sum_probs=56.9
Q ss_pred hhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCC--CCCChHHHHHHHHHHHHh
Q 046005 3 LKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTME--NVPWHADVKAFSEALALR 80 (169)
Q Consensus 3 L~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~--NmP~heEV~~Fa~~L~~~ 80 (169)
|+.|.+.+....+|++||.|+|++++++.++++..-.++-+++--|.-.++- +....+. --|..+++.+|.+.+...
T Consensus 180 l~~l~~~G~~v~v~~vlIpGiND~~i~~l~~~~~~lg~~~~nl~p~~~~p~~-G~~~~~~~~~~ps~e~l~~~~~~~~~~ 258 (442)
T TIGR01290 180 LEKLTERGILVKVNSVLIPGINDEHLVEVSKQVKELGAFLHNVMPLISAPEH-GTVYGLNGQREPDPDELAALRDRLEMG 258 (442)
T ss_pred HHHHHhCCCeEEEEEEeeCCcCHHHHHHHHHHHHhCCCcEEEeecCCCcccc-CCccCcCCCCCcCHHHHHHHHHHHHhh
Confidence 4556666777889999999999999999999998887877888776644321 1122233 448899999988776654
No 9
>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=94.85 E-value=0.12 Score=46.10 Aligned_cols=67 Identities=22% Similarity=0.300 Sum_probs=52.4
Q ss_pred hcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 7 RDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 7 ~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
.+.+.|..||.+||+|+|+. +++.-|+++. +.+..|++=-|--.|.+. . .-|.-+++.+|.+.|.+.
T Consensus 246 ~~~~~rv~iey~LI~gvNDs~eda~~La~llk-~l~~~VnLiPyn~~~~~~-~-----~~ps~e~l~~f~~~l~~~ 314 (342)
T PRK14454 246 NKTNRRITFEYALVKGVNDSKEDAKELGKLLK-GMLCHVNLIPVNEVKENG-F-----KKSSKEKIKKFKNILKKN 314 (342)
T ss_pred HHhCCEEEEEEEeECCCCCCHHHHHHHHHHHh-cCCceEEEEecCCCCCCC-C-----CCCCHHHHHHHHHHHHHC
Confidence 34567999999999999974 6888999885 457888887776666553 1 258889999999888764
No 10
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=94.59 E-value=0.17 Score=42.36 Aligned_cols=76 Identities=18% Similarity=0.262 Sum_probs=54.6
Q ss_pred hhhhhhcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCC----CCCCCCC--CChHHHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATS----KLTMENV--PWHADVKAF 73 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~----rLtm~Nm--P~heEV~~F 73 (169)
+|+.|.+.+-.-.+|++||.|+|++ ++++-|+++..-+++=||+=.|--.|.+.-. .-.|.++ |.-+++.++
T Consensus 119 nl~~l~~~g~~v~iR~~vIPg~nd~~e~i~~ia~~l~~l~~~~~~llpyh~~g~~Ky~~lg~~y~~~~~~~~~~~~l~~~ 198 (213)
T PRK10076 119 NLRLLVSEGVNVIPRLPLIPGFTLSRENMQQALDVLIPLGIKQIHLLPFHQYGEPKYRLLGKTWSMKEVPAPSSADVATM 198 (213)
T ss_pred HHHHHHhCCCcEEEEEEEECCCCCCHHHHHHHHHHHHHcCCceEEEecCCccchhHHHHcCCcCccCCCCCcCHHHHHHH
Confidence 5677777777889999999999974 6899999997666777888888887776421 2234443 555666666
Q ss_pred HHHH
Q 046005 74 SEAL 77 (169)
Q Consensus 74 a~~L 77 (169)
.+.+
T Consensus 199 ~~~~ 202 (213)
T PRK10076 199 REMA 202 (213)
T ss_pred HHHH
Confidence 5444
No 11
>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme. An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue.
Probab=93.45 E-value=0.38 Score=39.06 Aligned_cols=77 Identities=22% Similarity=0.214 Sum_probs=57.4
Q ss_pred hhhhhhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcC-CCeEEEcceeecccC------CCCCCCCCCCCChHHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGN-PDFVEIKGVTYCGSS------ATSKLTMENVPWHADVKA 72 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~-PdFIEvKgyt~~G~S------~~~rLtm~NmP~heEV~~ 72 (169)
.++.|++.+.+..+|+++++|+|. ++++..++++..-. ..+|++-.+.-.|.. ......---.|.-+++.+
T Consensus 148 ~i~~l~~~g~~~~v~~vv~~~~~~n~~ei~~l~~~~~~l~~~~~~~~~p~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~ 227 (235)
T TIGR02493 148 FAKYLAKRNKPIWIRYVLVPGYTDSEEDIEALAEFVKTLPNVERVEVLPYHQLGVYKWEALGIEYPLEGVKPPNKEQLER 227 (235)
T ss_pred HHHHHHhCCCcEEEEEeeeCCcCCCHHHHHHHHHHHHhCCCCceEEecCCCcccHHHHHHcCCcCccCCCCCCCHHHHHH
Confidence 466777777788899999999865 58999999998766 589999888877753 112233335689999988
Q ss_pred HHHHHH
Q 046005 73 FSEALA 78 (169)
Q Consensus 73 Fa~~L~ 78 (169)
+.+.+.
T Consensus 228 ~~~~~~ 233 (235)
T TIGR02493 228 AAEIFK 233 (235)
T ss_pred HHHHHh
Confidence 876654
No 12
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=92.96 E-value=0.49 Score=42.42 Aligned_cols=68 Identities=19% Similarity=0.219 Sum_probs=51.8
Q ss_pred hhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 6 LRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 6 L~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+.+.+.|-.||..||+|+|+ +++++.|+++.. -|..|++=-|-=.|.+. . .-|.-+++.+|.+.|.+.
T Consensus 249 ~~~~gr~I~iey~LIpGvNDs~e~a~~La~~l~~-l~~~VnLIPynp~~~~~-~-----~~ps~e~i~~f~~~L~~~ 318 (345)
T PRK14457 249 VAITGRRVSFEYILLGGVNDLPEHAEELANLLRG-FQSHVNLIPYNPIDEVE-F-----QRPSPKRIQAFQRVLEQR 318 (345)
T ss_pred HHHhCCEEEEEEEEECCcCCCHHHHHHHHHHHhc-CCCeEEEecCCCCCCCC-C-----CCCCHHHHHHHHHHHHHC
Confidence 34446789999999999998 478889998864 46688887776555543 1 258899999999888654
No 13
>PRK14455 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=92.78 E-value=0.51 Score=42.32 Aligned_cols=65 Identities=22% Similarity=0.260 Sum_probs=52.1
Q ss_pred CCCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 9 KQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 9 k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
.+.|..||..||+|+|+ ++++..|+++. +.|..|++=-|+-.|.+.- + -|.-+++.+|.+.|.+.
T Consensus 259 ~~~~v~iey~lI~gvNDs~ed~~~La~ll~-~l~~~VnLIPynp~~~~ky-~-----~ps~e~l~~f~~~L~~~ 325 (356)
T PRK14455 259 TNRRVTFEYILLGGVNDQVEHAEELADLLK-GIKCHVNLIPVNPVPERDY-V-----RTPKEDIFAFEDTLKKN 325 (356)
T ss_pred cCCeEEEEEEEeCCCCCCHHHHHHHHHHHh-cCCCcEEEEecCcCCCCCC-c-----CCCHHHHHHHHHHHHHC
Confidence 35688999999999998 57899999985 4567888889998887642 1 17889999999888765
No 14
>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=91.81 E-value=0.84 Score=41.66 Aligned_cols=67 Identities=12% Similarity=0.038 Sum_probs=52.9
Q ss_pred cCCCCeEEEEeeecccCcc--CHHHHHHHHhhcC--CCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGN--PDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~--PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
..+.|..|+..|++|+|++ ++++-++|+..-. +..|++=-|.=.|.+. -.-|.++.+.+|.+.|.+.
T Consensus 277 ~~grrv~ieyvLi~GvNDs~e~a~~L~~llk~~~~~~~~VNLIpyNp~~~~~------y~~~~~~~~~~F~~~L~~~ 347 (373)
T PRK14459 277 ATGRRVSIEYALIRDINDQPWRADLLGKKLHGRGGGWVHVNLIPLNPTPGSK------WTASPPEVEREFVRRLRAA 347 (373)
T ss_pred HhCCEEEEEEEEeCCCCCCHHHHHHHHHHHhhccCCCeEEEEEccCCCCCCC------CcCCCHHHHHHHHHHHHHC
Confidence 3467999999999999986 5778888887543 7788887787766543 1348999999999999875
No 15
>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=91.42 E-value=0.87 Score=41.24 Aligned_cols=66 Identities=20% Similarity=0.266 Sum_probs=50.8
Q ss_pred cCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
..+.|..||.+||+|+|+. +++.-|+++. +.|..|++=-|-=.+.+. -.-|.-++|.+|.+.|.+.
T Consensus 259 ~~~~~i~ieyvLI~GvNDs~e~a~~La~llk-~l~~~VnLIPyn~~~~~~------~~~ps~e~i~~f~~~l~~~ 326 (356)
T PRK14462 259 DQRKRVMFEYLVIKDVNDDLKSAKKLVKLLN-GIKAKVNLILFNPHEGSK------FERPSLEDMIKFQDYLNSK 326 (356)
T ss_pred HhCCeEEEEEEEECCCCCCHHHHHHHHHHHh-hcCcEEEEEeCCCCCCCC------CCCCCHHHHHHHHHHHHHC
Confidence 4578999999999999984 7888888886 457888887766444332 1448899999999888764
No 16
>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=90.41 E-value=1.5 Score=39.93 Aligned_cols=63 Identities=11% Similarity=0.129 Sum_probs=48.4
Q ss_pred CCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 11 QRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 11 ~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
.|..||.+||+|+|+. ++++.|+++. +.+..|++=-|--.|.+. . .-|.-+++.+|.+.|.+.
T Consensus 261 rrI~irypLIpGvNDs~e~a~~La~ll~-~l~~~VnLIPYN~~~~~~---~---~~ps~e~v~~f~~~L~~~ 325 (372)
T PRK11194 261 GRVTVEYVMLDHVNDGTEHAHQLAELLK-DTPCKINLIPWNPFPGAP---Y---GRSSNSRIDRFSKVLMEY 325 (372)
T ss_pred CeEEEEEEeECCCCCCHHHHHHHHHHHh-cCCceEEEecCCCCCCCC---C---CCCCHHHHHHHHHHHHHC
Confidence 5899999999999985 6788888885 456788887776555332 1 357889999999888664
No 17
>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=89.87 E-value=0.7 Score=41.31 Aligned_cols=60 Identities=20% Similarity=0.267 Sum_probs=42.4
Q ss_pred CCCCeEEEEeeecccCcc--CHHHHHHHHhhc--CCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHH
Q 046005 9 KQQRTVYRLTLVKGWNTE--DIEAYSKLFSIG--NPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALA 78 (169)
Q Consensus 9 k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g--~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~ 78 (169)
.+.|..++.+||+|+|+. +++..|+++..- .++.|.+--+ .+ . -.-|..++|.+|.+.|.
T Consensus 243 ~~rri~ieyvLI~GvNDseeda~~La~llk~l~~~vnlI~~N~~--------~~-~-~~~p~~~~i~~f~~~l~ 306 (336)
T PRK14470 243 LRGRVTLEYVMISGVNVGEEDAAALGRLLAGIPVRLNPIAVNDA--------TG-R-YRPPDEDEWNAFRDALA 306 (336)
T ss_pred hCCCeEEEEEEEecccCCHHHHHHHHHHHhcCCCeEEEeccCCC--------CC-C-ccCCCHHHHHHHHHHHH
Confidence 356888999999999985 588999999733 3333333221 11 1 24589999999999995
No 18
>TIGR00048 radical SAM enzyme, Cfr family. A Staphylococcus sciuri plasmid-borne member of this family, Cfr, has been identified as essential to transferrable resistance to chloramphenicol and florfenicol by an unknown mechanism. A 14-15 residue cluster with four perfectly conserved Cys residues suggests this protein may be an enzyme with an iron-sulfur cluster. The Cys cluster is part of the radical SAM domain, suggested to provide a general mechanism by which the Fe-S center cleaves S-adenosylmethionine to initiate radical-based catalysis. Members of this family lack apparent transmembrane domains.
Probab=89.84 E-value=1.5 Score=39.29 Aligned_cols=68 Identities=18% Similarity=0.238 Sum_probs=47.7
Q ss_pred hhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 6 LRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 6 L~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
++..+.|..||.+||+|+|+ ++++.-|+++.. .|..|++=-|.=.+.+. . --|..+++.+|++.|.+.
T Consensus 252 ~~~~g~~VtieyvLI~GvNDs~e~a~~La~llk~-l~~~VnLIPynp~~~~~---~---~~ps~e~i~~f~~~L~~~ 321 (355)
T TIGR00048 252 LNKTGRRVTFEYVLLDGVNDQVEHAEELAELLKG-TKCKVNLIPWNPFPEAD---Y---ERPSNEQIDRFAKTLMSY 321 (355)
T ss_pred HHHhCCEEEEEEEEECCCCCCHHHHHHHHHHHhc-CCCceEEEecccCCCCC---C---CCCCHHHHHHHHHHHHHC
Confidence 34456788999999999998 578889999864 45556543333222221 1 238899999999998765
No 19
>PRK14456 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=86.75 E-value=3.4 Score=37.46 Aligned_cols=67 Identities=10% Similarity=-0.000 Sum_probs=47.4
Q ss_pred hcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 7 RDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 7 ~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
...+.|..||..||+|+|+. +++.-++++..- +.-|++=-|+-.|.+.- .-|.-+++.+|.+.|.+.
T Consensus 273 ~~~g~~V~ieyvLI~GvNDs~eda~~L~~~l~~~-~~~VnlIpyn~~~~~~~------~~ps~e~i~~F~~~L~~~ 341 (368)
T PRK14456 273 SKTGEPVTLVYMLLEGINDSPEDARKLIRFASRF-FCKINLIDYNSIVNIKF------EPVCSSTRERFRDRLLDA 341 (368)
T ss_pred HhcCCeEEEEEEEEcCCCCCHHHHHHHHHHHhcC-CCeeEEeeeccCCCCCC------CCCCHHHHHHHHHHHHHC
Confidence 33456778999999999986 578888888653 33444445665555542 258889999998888765
No 20
>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed
Probab=86.24 E-value=2.3 Score=36.56 Aligned_cols=69 Identities=16% Similarity=0.125 Sum_probs=45.2
Q ss_pred hhhhhhcCCC-CeEEEEeeecccCccCHHHHHHHHhhcC--CCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHH
Q 046005 2 SLKALRDKQQ-RTVYRLTLVKGWNTEDIEAYSKLFSIGN--PDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSE 75 (169)
Q Consensus 2 sL~iL~~k~~-RTV~RlTLVKg~Nm~~~~~YA~Li~~g~--PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~ 75 (169)
.|+.+.+.+- +..+.+++++|.|++++...++++..-. ..||| +|-.|... ......+...+|+.+..+
T Consensus 149 ~i~~~~~~g~~~v~i~~vv~~g~n~~ei~~l~~~~~~~gv~v~~ie---~~p~~~~~--~~~~~~~~~~~~~~~~l~ 220 (331)
T PRK00164 149 GIDAALAAGLTPVKVNAVLMKGVNDDEIPDLLEWAKDRGIQLRFIE---LMPTGEGN--EWFRKHHLSGAEIRARLA 220 (331)
T ss_pred HHHHHHHCCCCcEEEEEEEECCCCHHHHHHHHHHHHhCCCeEEEEE---eeECCCCc--chhhhcCCCHHHHHHHHH
Confidence 4555666554 6778899999999999999999886533 34566 56666543 344444555566655443
No 21
>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=85.96 E-value=3.8 Score=36.83 Aligned_cols=64 Identities=17% Similarity=0.191 Sum_probs=48.4
Q ss_pred CCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceee-cccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 9 KQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTY-CGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 9 k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~-~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
.+.|-.||..||+|+|++ ++++.++++..- +..|++--|.- .|.. . .-|.-++|.+|.+.|.+.
T Consensus 254 ~~~~v~iey~LI~GvNDs~ed~~~l~~~l~~~-~~~VnLIpyn~~~g~~--y-----~~p~~e~v~~f~~~l~~~ 320 (354)
T PRK14460 254 TRERVTFEYLLLGGVNDSLEHARELVRLLSRT-KCKLNLIVYNPAEGLP--Y-----SAPTEERILAFEKYLWSK 320 (354)
T ss_pred cCCeEEEEEEEECCCCCCHHHHHHHHHHHhcC-CCcEEEEcCCCCCCCC--C-----CCCCHHHHHHHHHHHHHC
Confidence 345788999999999985 788889988654 56788888764 3321 1 258899999999988764
No 22
>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=84.22 E-value=5.3 Score=35.85 Aligned_cols=64 Identities=17% Similarity=0.259 Sum_probs=48.9
Q ss_pred CCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 10 QQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 10 ~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+.|..||.+||+|+|+ ++++..++++.. .|..|++--|.-.|.+. ---|.-++|.+|.+.|.+.
T Consensus 248 ~~~v~ieyvLI~GvNDs~e~~~~L~~ll~~-l~~~vnlIPyn~~~~~~------~~~ps~e~i~~f~~~L~~~ 313 (349)
T PRK14463 248 RRKITIEYVMIRGLNDSLEDAKRLVRLLSD-IPSKVNLIPFNEHEGCD------FRSPTQEAIDRFHKYLLDK 313 (349)
T ss_pred CCeEEEEEEEeCCCCCCHHHHHHHHHHHhc-cCceEEEEecCCCCCCC------CCCCCHHHHHHHHHHHHHC
Confidence 4577889999999998 578899999864 46788887775444221 2348899999999998765
No 23
>PRK14468 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=84.20 E-value=5.3 Score=35.71 Aligned_cols=67 Identities=21% Similarity=0.185 Sum_probs=47.1
Q ss_pred hcCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 7 RDKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 7 ~~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+..+.|-.|+.+||+|+|++ +++..++++.. .+..|++=-|+-.+.+ .-.-|.-+++.+|.+.|.+.
T Consensus 241 ~~~~~~V~ieyvLI~GvNDs~e~~~~L~~ll~~-~~~~VnLIPynp~~~~------~~~~ps~e~i~~f~~~L~~~ 309 (343)
T PRK14468 241 AVTGRRVTLEYTMLKGVNDHLWQAELLADLLRG-LVSHVNLIPFNPWEGS------PFQSSPRAQILAFADVLERR 309 (343)
T ss_pred HhcCCeEEEEEEEeCCCcCCHHHHHHHHHHHhc-CCcEEEEEcCCCCCCC------CCCCCCHHHHHHHHHHHHHC
Confidence 33456889999999999986 57888888864 3566666444422211 12358889999999888764
No 24
>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=84.07 E-value=5.5 Score=35.87 Aligned_cols=67 Identities=18% Similarity=0.087 Sum_probs=45.5
Q ss_pred cCCCCeEEEEeeecccCcc--CHHHHHHHHhhc-CCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIG-NPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g-~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
..+.|..||..||+|+|++ ++++-|+++..- ....|++=-|-=.+.+ ----|.-+++.+|.+.|.+.
T Consensus 248 ~~g~~V~ieyvLIpGvNDs~e~a~~La~~l~~l~~~~~VnLIPynp~~~~------~~~~ps~e~i~~f~~~L~~~ 317 (348)
T PRK14467 248 PPGRRIMLEYVLIKGVNDSPEDALRLAQLIGKNKKKFKVNLIPFNPDPEL------PYERPELERVYKFQKILWDN 317 (348)
T ss_pred hcCCeEEEEEEEECCccCCHHHHHHHHHHHhcCCCceEEEEecCCCCCCC------CCCCCCHHHHHHHHHHHHHC
Confidence 3467899999999999974 678888888643 2355665444322211 12447889999998887654
No 25
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=83.45 E-value=3.6 Score=35.86 Aligned_cols=71 Identities=14% Similarity=0.151 Sum_probs=49.3
Q ss_pred hhhhhhcCCC-CeEEEEeeecccCccCHHHHHHHHhhcCCCe--EEEcceeecccCCCCCCCCCCCCChHHHHHHHHHH
Q 046005 2 SLKALRDKQQ-RTVYRLTLVKGWNTEDIEAYSKLFSIGNPDF--VEIKGVTYCGSSATSKLTMENVPWHADVKAFSEAL 77 (169)
Q Consensus 2 sL~iL~~k~~-RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdF--IEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L 77 (169)
.++.+.+.+- +..+.+++++|.|.+++...++++..-..+. || +|-.|... ....+.+..-+|+++.-++.
T Consensus 145 ~i~~~~~~Gi~~v~in~v~~~g~N~~ei~~~~~~~~~~gi~~~~ie---~mP~g~~~--~~~~~~~~~~~e~~~~l~~~ 218 (329)
T PRK13361 145 GIDAAKAAGFERIKLNAVILRGQNDDEVLDLVEFCRERGLDIAFIE---EMPLGEID--ERRRARHCSSDEVRAIIETR 218 (329)
T ss_pred HHHHHHHcCCCceEEEEEEECCCCHHHHHHHHHHHHhcCCeEEEEe---cccCCCcc--chhhccCcCHHHHHHHHHHh
Confidence 3555665554 6788999999999999999999998766553 45 67677533 23344566778887765554
No 26
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=83.03 E-value=4.2 Score=35.71 Aligned_cols=73 Identities=11% Similarity=0.129 Sum_probs=53.2
Q ss_pred hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEAL 77 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L 77 (169)
.++.|++.+.+..+++|+- ..|.++++..++++..-.+++|.+-.+.+.|....++ ..-+|..+++.++.+.+
T Consensus 146 ~i~~l~~~g~~v~i~~vv~-~~N~~~i~~~~~~~~~lgv~~i~~~~~~~~g~~~~~~--~~~~~~~e~~~~~~~~~ 218 (378)
T PRK05301 146 VARLVKAHGYPLTLNAVIH-RHNIDQIPRIIELAVELGADRLELANTQYYGWALLNR--AALMPTREQLERAERIV 218 (378)
T ss_pred HHHHHHHCCCceEEEEEee-cCCHHHHHHHHHHHHHcCCCEEEEecccccChhhhcc--cccCCCHHHHHHHHHHH
Confidence 4667777778889998875 4699999999999999999999988777777543111 12367777776654433
No 27
>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=80.90 E-value=5.6 Score=35.88 Aligned_cols=65 Identities=12% Similarity=0.085 Sum_probs=43.9
Q ss_pred cCCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 8 DKQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 8 ~k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+.+.|..||..||+|+|+. ++++-++++..- +.-|++=-|==.| +. -.=|.-++|.+|.+.|.++
T Consensus 251 ~~~r~v~ieyvLI~GvNDs~eda~~L~~ll~~l-~~kVnLIPyN~~~-~~------~~~ps~e~i~~F~~~L~~~ 317 (342)
T PRK14465 251 ELKRRITFEYVMIPGVNMGRENANKLVKIARSL-DCKINVIPLNTEF-FG------WRRPTDDEVAEFIMLLEPA 317 (342)
T ss_pred HcCCEEEEEEEEECCccCCHHHHHHHHHHHhhC-CCcEEEEccCCCC-CC------CCCCCHHHHHHHHHHHHHC
Confidence 4467889999999999984 788888888752 3444443222111 11 1237889999999988764
No 28
>PLN02951 Molybderin biosynthesis protein CNX2
Probab=79.80 E-value=1.5 Score=39.31 Aligned_cols=49 Identities=16% Similarity=0.240 Sum_probs=35.4
Q ss_pred hhhhhhcCC-CCeEEEEeeecccCccCHHHHHHHHhh--cCCCeEEEcceeeccc
Q 046005 2 SLKALRDKQ-QRTVYRLTLVKGWNTEDIEAYSKLFSI--GNPDFVEIKGVTYCGS 53 (169)
Q Consensus 2 sL~iL~~k~-~RTV~RlTLVKg~Nm~~~~~YA~Li~~--g~PdFIEvKgyt~~G~ 53 (169)
.|+.+.+.+ .+..+++++++|+|++++..++++... .+..|||. |-.|.
T Consensus 190 ~I~~a~~~G~~~vkin~vv~~g~N~~Ei~~li~~a~~~gi~vr~ie~---mP~~~ 241 (373)
T PLN02951 190 SIDTAIELGYNPVKVNCVVMRGFNDDEICDFVELTRDKPINVRFIEF---MPFDG 241 (373)
T ss_pred HHHHHHHcCCCcEEEEEEecCCCCHHHHHHHHHHHHhCCCeEEEEEc---ccCCC
Confidence 345555555 467899999999999999999999876 23455665 55553
No 29
>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The presence of motifs with seven invariant Cys residues in the N-terminal 50 residues, including three instances of CXXC, would be consistent with function as an oxidoreductase with FeS clusters. The exact function is unknown, but likely is linked to methanogenesis. In most genomes, the member of this family is encoded by a gene next to, and divergently transcribed from, the methyl coenzyme M reductase operon.
Probab=78.25 E-value=11 Score=34.70 Aligned_cols=77 Identities=5% Similarity=-0.038 Sum_probs=50.9
Q ss_pred hhhhhcCCCCeEEEEeeecccCc-cCHHHHHHHHhhcCCCeEEEcceeecccCCC----CCCCC-CCCCChHHHHHHHHH
Q 046005 3 LKALRDKQQRTVYRLTLVKGWNT-EDIEAYSKLFSIGNPDFVEIKGVTYCGSSAT----SKLTM-ENVPWHADVKAFSEA 76 (169)
Q Consensus 3 L~iL~~k~~RTV~RlTLVKg~Nm-~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~----~rLtm-~NmP~heEV~~Fa~~ 76 (169)
|+.|.+ .-..+.|+.+|.|+|+ ++.+.-++++..-.|.=|.+=-|=-.|...- ..+.- -+-|.-+|+.+++++
T Consensus 160 L~~L~e-~~~v~~~ivlIPGiND~eel~~ti~~L~~lg~~~V~L~~y~~~g~~ky~lg~~~~~~~~~~~~~~e~~~~v~~ 238 (404)
T TIGR03278 160 LRRFCE-SCEVHAASVIIPGVNDGDVLWKTCADLESWGAKALILMRFANTEEQGLILGNAPIIPGIKPHTVSEFKNIVRE 238 (404)
T ss_pred HHHHHh-cCCEEEEEEEeCCccCcHHHHHHHHHHHHCCCCEEEEEecccccccccccCCcCcccCCCCCCHHHHHHHHHH
Confidence 445555 3578899999999998 4667888888777888555544433343310 11222 245678889999888
Q ss_pred HHHh
Q 046005 77 LALR 80 (169)
Q Consensus 77 L~~~ 80 (169)
+.+.
T Consensus 239 ~~~~ 242 (404)
T TIGR03278 239 THKE 242 (404)
T ss_pred HHHH
Confidence 8775
No 30
>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=77.98 E-value=6.7 Score=33.64 Aligned_cols=75 Identities=16% Similarity=0.196 Sum_probs=51.8
Q ss_pred ChhhhhhcCCCCeEEEEeeecccCc--cCHHHHHHHHh-hcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHH
Q 046005 1 DSLKALRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFS-IGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEAL 77 (169)
Q Consensus 1 ~sL~iL~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~-~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L 77 (169)
++|++|...+.-..+|+++|-|+|+ ++++..|+.|. .+.-.=|++-.|-=-|.-. .+.+.-....+++.+-|++.
T Consensus 163 ~~~~~l~~~g~~ve~r~lviPg~~d~~e~i~~i~~~i~~~~~~~p~~~l~fhp~~~~~--~~p~~~~~~le~~~~~a~~~ 240 (260)
T COG1180 163 ENLELLADLGVHVEIRTLVIPGYNDDEEEIRELAEFIADLGPEIPIHLLRFHPDYKLK--DLPPTPVETLEEAKKLAKEE 240 (260)
T ss_pred HHHHHHHcCCCeEEEEEEEECCCCCCHHHHHHHHHHHHhcCCcccEEEeccccCcccc--ccCCCcHHHHHHhHhhhHHH
Confidence 3678888888899999999999977 47899999998 5555567776665555432 22333344455566656555
No 31
>PRK14469 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=76.77 E-value=11 Score=33.43 Aligned_cols=63 Identities=25% Similarity=0.343 Sum_probs=44.7
Q ss_pred CCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 10 QQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 10 ~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+.|..||..||+|+|+. +++..|+++. +.+..|++=.|.-... --.-|.-+++.+|.+.|.+.
T Consensus 249 ~~~v~i~yvlI~g~NDs~ed~~~La~llk-~~~~~VnLIpynp~~~-------~~~~ps~e~l~~f~~~l~~~ 313 (343)
T PRK14469 249 GNRVTIEYILIKGFNDEIEDAKKLAELLK-GLKVFVNLIPVNPTVP-------GLEKPSRERIERFKEILLKN 313 (343)
T ss_pred CCeEEEEEEEECCCCCCHHHHHHHHHHHh-ccCcEEEEEecCCCCc-------cCCCCCHHHHHHHHHHHHHC
Confidence 56889999999999985 6788888875 4466676644432211 12347789999999888664
No 32
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E. This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.
Probab=69.99 E-value=18 Score=31.41 Aligned_cols=71 Identities=15% Similarity=0.190 Sum_probs=49.2
Q ss_pred hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSE 75 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~ 75 (169)
.++.|++.+-+..+++|+-+ .|.++++..+++...-.++.|.+-...+.|....+. -.-+|..+++.++.+
T Consensus 137 ~i~~l~~~g~~v~v~~vv~~-~N~~~l~~~~~~~~~lg~~~i~~~~~~~~g~~~~~~--~~~~p~~~~~~~~~~ 207 (358)
T TIGR02109 137 MARAVKAAGLPLTLNFVIHR-HNIDQIPEIIELAIELGADRVELATTQYYGWALLNR--AALMPTRAQLEEATR 207 (358)
T ss_pred HHHHHHhCCCceEEEEEecc-CCHHHHHHHHHHHHHcCCCEEEEEeeeccCchhcch--hhcCCCHHHHHHHHH
Confidence 45667777777888888765 699999999999988888988887666666432111 123677776655443
No 33
>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH. The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH
Probab=69.12 E-value=21 Score=31.24 Aligned_cols=74 Identities=9% Similarity=0.062 Sum_probs=50.3
Q ss_pred hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALAL 79 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~ 79 (169)
+++.|++.+-+..+.+|++.+.|.++++..++++..-..+.|-+--+...|.+ ...+....-+|.++.-+++.+
T Consensus 154 ~I~~l~~~G~~v~v~~tv~~~~n~~ei~~~~~~~~~lGv~~i~i~p~~~~~~a----~~~~~~l~~~e~~~~~~~~~~ 227 (318)
T TIGR03470 154 AIREAKARGFRVTTNTTLFNDTDPEEVAEFFDYLTDLGVDGMTISPGYAYEKA----PDQDHFLGRRQTKKLFREVLS 227 (318)
T ss_pred HHHHHHHCCCcEEEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCcccccc----cccccccCHHHHHHHHHHHHh
Confidence 45667766778888889999999999999999998877777665422222222 233445566777776655544
No 34
>PF04309 G3P_antiterm: Glycerol-3-phosphate responsive antiterminator; InterPro: IPR006699 Glycerol enters bacterial cells via facilitated diffusion, an energy-independent transport process catalysed by the glycerol transport facilitator GlpF, an integral membrane protein of the aquaporin family. Intracellular glycerol is usually converted to glycerol-3-P in an ATP-requiring phosphorylation reaction catalysed by glycerol kinase (GlpK). Glycerol-3-P, the inducer of the glpFK operon, is not a substrate for GlpF and hence remains entrapped in the cell where it is metabolized further. In some bacterial species, for example Bacillus firmus, glycerol-3-P activates the antiterminator GlpP []. In B. subtilis, glpF and glpK are organised in an operon followed by the glycerol-3-P dehydrogenase-encoding glpD gene and preceded by glpP coding for an antiterminator regulating the expression of glpFK, glpD and glpTQ. Their induction requires the inducer glycerol-3-P, which activates the antiterminator GlpP by allowing it to bind to the leader region of glpD and presumably also of glpFK and glpTQ mRNAs.; GO: 0006355 regulation of transcription, DNA-dependent, 0009607 response to biotic stimulus; PDB: 1VKF_A 3KTS_G.
Probab=66.97 E-value=5.7 Score=32.94 Aligned_cols=39 Identities=26% Similarity=0.261 Sum_probs=26.7
Q ss_pred hhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEc
Q 046005 5 ALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIK 46 (169)
Q Consensus 5 iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvK 46 (169)
.-++.+-.|+.|+-|+-.-. ++.=-++++..+||+|||=
T Consensus 86 ~Ak~~gl~tIqRiFliDS~a---l~~~~~~i~~~~PD~vEil 124 (175)
T PF04309_consen 86 RAKKLGLLTIQRIFLIDSSA---LETGIKQIEQSKPDAVEIL 124 (175)
T ss_dssp HHHHTT-EEEEEEE-SSHHH---HHHHHHHHHHHT-SEEEEE
T ss_pred HHHHcCCEEEEEeeeecHHH---HHHHHHHHhhcCCCEEEEc
Confidence 34455678999999995543 4455678999999999983
No 35
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=64.90 E-value=20 Score=30.96 Aligned_cols=50 Identities=14% Similarity=0.214 Sum_probs=36.2
Q ss_pred hhhhhhcCCCC-eEEEEeeecccCccCHHHHHHHHhhcC--CCeEEEcceeecccC
Q 046005 2 SLKALRDKQQR-TVYRLTLVKGWNTEDIEAYSKLFSIGN--PDFVEIKGVTYCGSS 54 (169)
Q Consensus 2 sL~iL~~k~~R-TV~RlTLVKg~Nm~~~~~YA~Li~~g~--PdFIEvKgyt~~G~S 54 (169)
.|+.|.+.+-+ ..+.+++++|.|.+++..+++++..-. +.||| +|-.|..
T Consensus 144 ~i~~l~~~G~~~v~in~vv~~g~n~~ei~~l~~~~~~~gv~~~~ie---~mp~~~~ 196 (334)
T TIGR02666 144 GIDAALAAGLEPVKLNTVVMRGVNDDEIVDLAEFAKERGVTLRFIE---LMPLGEG 196 (334)
T ss_pred HHHHHHHcCCCcEEEEEEEeCCCCHHHHHHHHHHHHhcCCeEEEEe---ccCCCCC
Confidence 45666666654 788999999999999998888886543 45666 4655544
No 36
>COG1954 GlpP Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]
Probab=62.72 E-value=9.8 Score=32.13 Aligned_cols=34 Identities=24% Similarity=0.354 Sum_probs=26.6
Q ss_pred CCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEE
Q 046005 9 KQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEI 45 (169)
Q Consensus 9 k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEv 45 (169)
.+-+++.|+-|+..- ..+.=-++|+.-+||||||
T Consensus 94 ~~~~aIqR~FilDS~---Al~~~~~~i~~~~pD~iEv 127 (181)
T COG1954 94 LGILAIQRLFILDSI---ALEKGIKQIEKSEPDFIEV 127 (181)
T ss_pred cCCceeeeeeeecHH---HHHHHHHHHHHcCCCEEEE
Confidence 467899999998544 3445567889999999998
No 37
>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=61.43 E-value=39 Score=30.68 Aligned_cols=65 Identities=22% Similarity=0.212 Sum_probs=48.0
Q ss_pred CCCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 9 KQQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 9 k~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
.+.|-.|=.+|++|+|+. ++...++++. +.|+.|-+=-|.=...+. -.=|.-+.|.+|.+.|.+.
T Consensus 247 ~~rri~~Ey~Li~gvND~~e~a~~L~~ll~-~~~~~VNLIp~Np~~~~~------~~~~s~~~~~~F~~~L~~~ 313 (345)
T PRK14466 247 KQRRVSFEYIVFKGLNDSLKHAKELVKLLR-GIDCRVNLIRFHAIPGVD------LEGSDMARMEAFRDYLTSH 313 (345)
T ss_pred hCCEEEEEEEEeCCCCCCHHHHHHHHHHHc-CCCceEEEEecCCCCCCC------CcCCCHHHHHHHHHHHHHC
Confidence 356778888999999985 5888999985 667777776666222221 2337889999999999875
No 38
>COG1489 SfsA DNA-binding protein, stimulates sugar fermentation [General function prediction only]
Probab=59.94 E-value=5.3 Score=34.83 Aligned_cols=14 Identities=36% Similarity=0.456 Sum_probs=11.5
Q ss_pred CCCeEEEcceeecc
Q 046005 39 NPDFVEIKGVTYCG 52 (169)
Q Consensus 39 ~PdFIEvKgyt~~G 52 (169)
.++||||||+|+.=
T Consensus 126 ~~~~vEVK~vtL~~ 139 (235)
T COG1489 126 PDCYVEVKSVTLVE 139 (235)
T ss_pred CceEEEEeeEEEee
Confidence 46799999999763
No 39
>COG0027 PurT Formate-dependent phosphoribosylglycinamide formyltransferase (GAR transformylase) [Nucleotide transport and metabolism]
Probab=59.67 E-value=9.8 Score=35.31 Aligned_cols=50 Identities=22% Similarity=0.379 Sum_probs=42.1
Q ss_pred cCccCHHHHHHHHhhcCCCeE---------------EEcceeecccCCCCCCCCCCCCChHHHHHHHHH
Q 046005 23 WNTEDIEAYSKLFSIGNPDFV---------------EIKGVTYCGSSATSKLTMENVPWHADVKAFSEA 76 (169)
Q Consensus 23 ~Nm~~~~~YA~Li~~g~PdFI---------------EvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~ 76 (169)
.||-|.+.-..+|++-+|||| |--||+-+=+.++.+|||. .|.++++|.+
T Consensus 59 i~MlD~~al~avv~rekPd~IVpEiEAI~td~L~elE~~G~~VVP~ArAt~ltMn----RegiRrlAAe 123 (394)
T COG0027 59 IDMLDGDALRAVVEREKPDYIVPEIEAIATDALVELEEEGYTVVPNARATKLTMN----REGIRRLAAE 123 (394)
T ss_pred eeccCHHHHHHHHHhhCCCeeeehhhhhhHHHHHHHHhCCceEccchHHHHhhhc----HHHHHHHHHH
Confidence 488899999999999999998 4568888888887789996 5788888754
No 40
>PF03749 SfsA: Sugar fermentation stimulation protein; InterPro: IPR005224 The sugar fermentation stimulation protein is a probable regulatory factor involved in maltose metabolism. It contains a putative DNA-binding domain, and was isolated as a gene which enabled Escherichia coli W3110 (strain MK2001) to use maltose [].
Probab=57.76 E-value=6 Score=33.56 Aligned_cols=15 Identities=33% Similarity=0.468 Sum_probs=12.4
Q ss_pred CCCeEEEcceeeccc
Q 046005 39 NPDFVEIKGVTYCGS 53 (169)
Q Consensus 39 ~PdFIEvKgyt~~G~ 53 (169)
.+.|||||++|.+-.
T Consensus 115 ~~~~vEVKsvtL~~~ 129 (215)
T PF03749_consen 115 GKCYVEVKSVTLVED 129 (215)
T ss_pred CCEEEEEeeeEeccC
Confidence 378999999998753
No 41
>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=56.30 E-value=51 Score=29.90 Aligned_cols=64 Identities=17% Similarity=0.258 Sum_probs=46.5
Q ss_pred CCCeEEEEeeecccCcc--CHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 10 QQRTVYRLTLVKGWNTE--DIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 10 ~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+.|-.|=.+|++|+|+. +++.-++++. +.|..|-+.-|=-+..+ + ---|.-+++.+|.+.|.+.
T Consensus 240 grri~~EyvLl~GVNDs~e~a~~L~~~l~-~~~~~vNLIPyN~v~g~-----~-~~rp~~~~i~~f~~~L~~~ 305 (344)
T PRK14464 240 GYPIQYQWTLLEGVNDSDEEMDGIVRLLK-GKYAVMNLIPYNSVDGD-----A-YRRPSGERIVAMARYLHRR 305 (344)
T ss_pred CCEEEEEEEEeCCCCCCHHHHHHHHHHHh-ccccccceecCCccCCC-----C-ccCCCHHHHHHHHHHHHHC
Confidence 45667788999999984 6777888874 67888777777322221 2 2347799999999999775
No 42
>TIGR00238 KamA family protein. Note that the E. coli homolog was expressed in E. coli and purified and found not to display display lysine 2,3-aminomutase activity. Active site residues are found in 100 residue extension in B. subtilis. Name changed to KamA family protein.
Probab=55.98 E-value=38 Score=29.95 Aligned_cols=81 Identities=19% Similarity=0.089 Sum_probs=47.9
Q ss_pred hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHhc
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRS 81 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~~ 81 (169)
+++.|++.+-....+.||+||.|++ ++.-++|++... -+.|+.|...--....+ +..-.-.-++-.++-++|...+
T Consensus 242 ai~~L~~aGi~v~~qtvLl~gvnD~-~~~l~~L~~~l~--~~gV~pyyl~~~~~~~g-~~~f~~~~~~~~~i~~~l~~~~ 317 (331)
T TIGR00238 242 AMKKLRTVNVTLLNQSVLLRGVNDR-AQILAKLSIALF--KVGIIPYYLHYLDKVQG-AKHFLVPDAEAAQIVKELARLT 317 (331)
T ss_pred HHHHHHHcCCEEEeecceECCcCCC-HHHHHHHHHHHh--hcCeecCeecCcCCCCC-cccccCCHHHHHHHHHHHHhcC
Confidence 5677888888899999999999963 555555555432 13566653221111111 1222334566677777777764
Q ss_pred CCCceE
Q 046005 82 EGEYEV 87 (169)
Q Consensus 82 ~~~Y~i 87 (169)
+||-+
T Consensus 318 -sG~~~ 322 (331)
T TIGR00238 318 -SGYLV 322 (331)
T ss_pred -CCCcc
Confidence 46643
No 43
>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in E. coli, Buchnera, Yersinia, etc.
Probab=51.16 E-value=41 Score=29.69 Aligned_cols=75 Identities=16% Similarity=0.075 Sum_probs=45.5
Q ss_pred hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcceee-----cccCCCCCCCCCCCCChHHHHHHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVTY-----CGSSATSKLTMENVPWHADVKAFSEA 76 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt~-----~G~S~~~rLtm~NmP~heEV~~Fa~~ 76 (169)
+++.|++.+-....+.||.||+|++ ++.-++|++... -+-|+.|.. +|... .-....++-.++-+.
T Consensus 225 ai~~L~~~Gi~v~~qtvllkgiNDn-~~~l~~L~~~l~--~~gv~pyyl~~~~p~gg~~------~f~v~~~~~~~i~~~ 295 (321)
T TIGR03821 225 ALAKLRNAGITLLNQSVLLRGVNDN-ADTLAALSERLF--DAGVLPYYLHLLDKVQGAA------HFDVDDERARALMAE 295 (321)
T ss_pred HHHHHHHcCCEEEecceeeCCCCCC-HHHHHHHHHHHH--HcCCeeCcccccCCCCCcc------cccCCHHHHHHHHHH
Confidence 5677888888889999999999974 444444444332 123444432 33211 134556777777777
Q ss_pred HHHhcCCCce
Q 046005 77 LALRSEGEYE 86 (169)
Q Consensus 77 L~~~~~~~Y~ 86 (169)
|.+.+ +||-
T Consensus 296 l~~~~-sG~~ 304 (321)
T TIGR03821 296 LLARL-PGYL 304 (321)
T ss_pred HHHhC-CCCc
Confidence 77764 4554
No 44
>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal. This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).
Probab=51.08 E-value=53 Score=27.78 Aligned_cols=38 Identities=16% Similarity=0.286 Sum_probs=28.6
Q ss_pred hhhhhcCCCC-eEEEEeeecccCccCHHHHHHHHhhcCC
Q 046005 3 LKALRDKQQR-TVYRLTLVKGWNTEDIEAYSKLFSIGNP 40 (169)
Q Consensus 3 L~iL~~k~~R-TV~RlTLVKg~Nm~~~~~YA~Li~~g~P 40 (169)
++.+.+.+-. ..+.+++++|.|++++..+++++..-.-
T Consensus 140 i~~~~~~G~~~v~i~~v~~~g~n~~ei~~~~~~~~~~g~ 178 (302)
T TIGR02668 140 IESAVDAGLTPVKLNMVVLKGINDNEIPDMVEFAAEGGA 178 (302)
T ss_pred HHHHHHcCCCcEEEEEEEeCCCCHHHHHHHHHHHHhcCC
Confidence 4555555443 6788999999999999999998866443
No 45
>PRK13758 anaerobic sulfatase-maturase; Provisional
Probab=50.01 E-value=84 Score=27.32 Aligned_cols=74 Identities=8% Similarity=0.007 Sum_probs=48.4
Q ss_pred hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEcc-eeecccCCCCCCCCCCCCChHHHHHHHHHHHH
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKG-VTYCGSSATSKLTMENVPWHADVKAFSEALAL 79 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKg-yt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~ 79 (169)
.|+.|.+.+-+..+++|+.+. |.++++..++++..-..+++.+-. ++..|...+ .. +.....++..+|-+.|.+
T Consensus 149 ~i~~l~~~~~~~~i~~~v~~~-n~~~l~~i~~~~~~~g~~~~~~~~~~~p~~~~~~--~~-~~~l~~~~~~~~~~~l~~ 223 (370)
T PRK13758 149 AAELFKKYKVEFNILCVVTSN-TARHVNKIYKYFKEKDFKFLQFINCLDPLYEEKG--KY-NYSLKPKDYTKFLKNLFD 223 (370)
T ss_pred HHHHHHHhCCCceEEEEeccc-cccCHHHHHHHHHHcCCCeEeeeeccCccccccC--CC-cCccCHHHHHHHHHHHHH
Confidence 467777777788899888875 888899988888777777776543 234443321 11 123455777777666655
No 46
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=48.95 E-value=7.1 Score=23.83 Aligned_cols=23 Identities=13% Similarity=0.488 Sum_probs=17.8
Q ss_pred EEEEeeecccCccCHHHHHHHHhh
Q 046005 14 VYRLTLVKGWNTEDIEAYSKLFSI 37 (169)
Q Consensus 14 V~RlTLVKg~Nm~~~~~YA~Li~~ 37 (169)
.|+.++ +|||+++++.|-+.+..
T Consensus 10 ~F~~~~-rGY~~~eVD~fLd~v~~ 32 (34)
T TIGR03544 10 RFKKKL-RGYDAAEVDAFLDRVAD 32 (34)
T ss_pred cCCCCC-CCCCHHHHHHHHHHHHH
Confidence 455564 89999999999877654
No 47
>COG1090 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]
Probab=47.04 E-value=69 Score=29.05 Aligned_cols=91 Identities=25% Similarity=0.450 Sum_probs=55.3
Q ss_pred HHHHHHHh--hcCC-CeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHhcCCCceEeecCccceEEEe------
Q 046005 29 EAYSKLFS--IGNP-DFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLL------ 99 (169)
Q Consensus 29 ~~YA~Li~--~g~P-dFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~~~~~Y~i~~Eh~~Sr~vLL------ 99 (169)
+.-.++|. ...| -||=-=|+.|-|+|...-+| +|=|.+++ |..+||..- -.-...++....|||||
T Consensus 90 ~~L~e~I~~~~~~P~~~isaSAvGyYG~~~~~~~t-E~~~~g~~---Fla~lc~~W-E~~a~~a~~~gtRvvllRtGvVL 164 (297)
T COG1090 90 EKLVELIAASETKPKVLISASAVGYYGHSGDRVVT-EESPPGDD---FLAQLCQDW-EEEALQAQQLGTRVVLLRTGVVL 164 (297)
T ss_pred HHHHHHHHhccCCCcEEEecceEEEecCCCceeee-cCCCCCCC---hHHHHHHHH-HHHHhhhhhcCceEEEEEEEEEe
Confidence 34455665 5567 79999999999999743344 45677764 666666530 01112234445688773
Q ss_pred eecc----------cccc------CCeeEEeeehhhHHHHH
Q 046005 100 AKTE----------RFKV------NGQWFTWIDYEKFHDLV 124 (169)
Q Consensus 100 a~~~----------kf~i------~g~w~TwIdy~kF~~l~ 124 (169)
+.+. +|.+ +.+|-.||..|--..++
T Consensus 165 s~~GGaL~~m~~~fk~glGG~~GsGrQ~~SWIhieD~v~~I 205 (297)
T COG1090 165 SPDGGALGKMLPLFKLGLGGKLGSGRQWFSWIHIEDLVNAI 205 (297)
T ss_pred cCCCcchhhhcchhhhccCCccCCCCceeeeeeHHHHHHHH
Confidence 2111 1223 33799999999877666
No 48
>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.
Probab=44.92 E-value=92 Score=27.33 Aligned_cols=80 Identities=20% Similarity=0.048 Sum_probs=43.2
Q ss_pred hhhhhhcCCCCeEEEEeeecccCccCHHHHHHHHhhcCCCeEEEccee-ecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNTEDIEAYSKLFSIGNPDFVEIKGVT-YCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li~~g~PdFIEvKgyt-~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+++.|++.+-....+.||+||.|.+ .+..++|++...= .-|+.|. |.-.-. .. +..-.-..++-.++-++|...
T Consensus 219 ai~~L~~~Gi~v~~q~vLl~gvNd~-~~~l~~l~~~l~~--~gv~pyyl~~~~p~-~g-~~~f~~~~~~~~~i~~~l~~~ 293 (321)
T TIGR03822 219 ACARLIDAGIPMVSQSVLLRGVNDD-PETLAALMRAFVE--CRIKPYYLHHLDLA-PG-TAHFRVTIEEGQALVRALRGR 293 (321)
T ss_pred HHHHHHHcCCEEEEEeeEeCCCCCC-HHHHHHHHHHHHh--cCCeeEEEEecCCC-CC-cccccCcHHHHHHHHHHHHHh
Confidence 4667777777788999999999974 4444444432110 0122221 211110 01 111124567777888888777
Q ss_pred cCCCceE
Q 046005 81 SEGEYEV 87 (169)
Q Consensus 81 ~~~~Y~i 87 (169)
+ +||-+
T Consensus 294 ~-~g~~~ 299 (321)
T TIGR03822 294 I-SGLAQ 299 (321)
T ss_pred C-CCCcc
Confidence 4 46643
No 49
>COG1424 BioW Pimeloyl-CoA synthetase [Coenzyme metabolism]
Probab=44.34 E-value=34 Score=29.85 Aligned_cols=85 Identities=22% Similarity=0.282 Sum_probs=53.1
Q ss_pred hhcCCCeEEEcceeecccCCCCCCCCCCCCC-------hHHHHHHHHHHHHhcC-------CCceEeecCccce-EEEee
Q 046005 36 SIGNPDFVEIKGVTYCGSSATSKLTMENVPW-------HADVKAFSEALALRSE-------GEYEVACEHVHSC-CVLLA 100 (169)
Q Consensus 36 ~~g~PdFIEvKgyt~~G~S~~~rLtm~NmP~-------heEV~~Fa~~L~~~~~-------~~Y~i~~Eh~~Sr-~vLLa 100 (169)
+.|+|||+-||==--- .+ --++.++|- -||-+++|+.|..... ..|+++.+-..-| .|||.
T Consensus 39 enG~pDFmnIkieki~-e~---i~~i~~L~I~t~~~k~~Ee~re~a~~ll~~eGv~e~vi~ka~e~i~k~~~~rGAvild 114 (239)
T COG1424 39 ENGQPDFMNIKIEKIK-EP---IQQIKALPIHTNEVKCPEEARENAQKLLQEEGVTEQVINKAYEIIKKGGVMRGAVILD 114 (239)
T ss_pred ccCCCCeeeeeHHhhh-hh---HhhhhccceeccccCCHHHHHHHHHHHHHhcCCcHHHHHHHHHhhccCCceeeeEEEE
Confidence 3488999998842111 11 234555555 8999999999987632 2699988865444 34433
Q ss_pred e-----ccccccCCeeEEeeehh-h-HHHHH
Q 046005 101 K-----TERFKVNGQWFTWIDYE-K-FHDLV 124 (169)
Q Consensus 101 ~-----~~kf~i~g~w~TwIdy~-k-F~~l~ 124 (169)
- .+.++=.|.--+++|++ | |-+..
T Consensus 115 i~tGkRld~~kerGVRv~~~d~~Dk~~~e~~ 145 (239)
T COG1424 115 IITGKRLDSDKERGVRVTHFDWEDKNFEEKN 145 (239)
T ss_pred eccccccCcccccceEEEeccCccchhHHHh
Confidence 2 12345567788888887 3 55544
No 50
>PRK00347 putative DNA-binding transcriptional regulator; Reviewed
Probab=42.59 E-value=15 Score=31.51 Aligned_cols=13 Identities=38% Similarity=0.437 Sum_probs=11.1
Q ss_pred CCeEEEcceeecc
Q 046005 40 PDFVEIKGVTYCG 52 (169)
Q Consensus 40 PdFIEvKgyt~~G 52 (169)
..|||||++|.+-
T Consensus 130 ~~~vEVKsvtL~~ 142 (234)
T PRK00347 130 DCYVEVKSVTLEE 142 (234)
T ss_pred cEEEEEcCEEeCC
Confidence 5799999999863
No 51
>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=42.49 E-value=1.2e+02 Score=27.97 Aligned_cols=64 Identities=19% Similarity=0.243 Sum_probs=43.2
Q ss_pred CCCeEEEEeeecccCcc--CHHHHHHHHhhcC------CCeEEEcceeecccCCCCCCCCCCCCChHHHHHHHHHHHHh
Q 046005 10 QQRTVYRLTLVKGWNTE--DIEAYSKLFSIGN------PDFVEIKGVTYCGSSATSKLTMENVPWHADVKAFSEALALR 80 (169)
Q Consensus 10 ~~RTV~RlTLVKg~Nm~--~~~~YA~Li~~g~------PdFIEvKgyt~~G~S~~~rLtm~NmP~heEV~~Fa~~L~~~ 80 (169)
+.|-.|=-+|++|+|+. +...-|+|++ +. |+.|=+=-|=-+..+ .. + -|..++|.+|.+.|.++
T Consensus 269 ~rrit~EYvLi~gvNDs~e~A~~L~~llk-~~~~~~~l~~~VNLIp~Np~~~~---~~--~-~ps~~~i~~F~~~L~~~ 340 (371)
T PRK14461 269 RRRVSFEYVLLQGKNDHPEQAAALARLLR-GEAPPGPLLVHVNLIPWNPVPGT---PL--G-RSERERVTTFQRILTDY 340 (371)
T ss_pred CCEEEEEEEEECCCCCCHHHHHHHHHHHc-CCccccCCceEEEEecCCCCCCC---CC--C-CCCHHHHHHHHHHHHHC
Confidence 56778888999999984 6788888885 44 445444333221111 11 1 27899999999999875
No 52
>TIGR00230 sfsA sugar fermentation stimulation protein. probable regulatory factor involved in maltose metabolism contains a putative DNA binding domain. Isolated as a gene which enabled E.coli strain MK2001 to use maltose.
Probab=40.62 E-value=15 Score=31.63 Aligned_cols=12 Identities=33% Similarity=0.409 Sum_probs=10.6
Q ss_pred CCeEEEcceeec
Q 046005 40 PDFVEIKGVTYC 51 (169)
Q Consensus 40 PdFIEvKgyt~~ 51 (169)
+.|||||++|.+
T Consensus 129 ~~~vEVKsvtL~ 140 (232)
T TIGR00230 129 RMYVEVKSATLK 140 (232)
T ss_pred cEEEEEccEEeC
Confidence 569999999986
No 53
>KOG2596 consensus Aminopeptidase I zinc metalloprotease (M18) [Amino acid transport and metabolism]
Probab=38.16 E-value=19 Score=34.33 Aligned_cols=35 Identities=29% Similarity=0.725 Sum_probs=26.7
Q ss_pred CceEeecCccceEEEeeecc-----cc-cc------CCeeEEeeehh
Q 046005 84 EYEVACEHVHSCCVLLAKTE-----RF-KV------NGQWFTWIDYE 118 (169)
Q Consensus 84 ~Y~i~~Eh~~Sr~vLLa~~~-----kf-~i------~g~w~TwIdy~ 118 (169)
|+.|+.-|..|-|+-|-... .| +| +|-||||.|-|
T Consensus 87 Gf~iigaHtDSpcLrlKP~Sk~s~~gylqVgV~tYGGgiw~tWfDRD 133 (479)
T KOG2596|consen 87 GFSIIGAHTDSPCLRLKPVSKRSAEGYLQVGVETYGGGIWHTWFDRD 133 (479)
T ss_pred ceeEEEecCCCcceeecccccccccceEEEEEeecCCccchhhcccc
Confidence 89999999999999875432 23 22 67799999976
No 54
>PF13020 DUF3883: Domain of unknown function (DUF3883)
Probab=32.33 E-value=17 Score=25.99 Aligned_cols=14 Identities=36% Similarity=0.620 Sum_probs=12.0
Q ss_pred hhcCCCeEEEccee
Q 046005 36 SIGNPDFVEIKGVT 49 (169)
Q Consensus 36 ~~g~PdFIEvKgyt 49 (169)
..|..-||||||.+
T Consensus 38 ~~g~~~~IEVKst~ 51 (91)
T PF13020_consen 38 EDGEERFIEVKSTT 51 (91)
T ss_pred CCCCEEEEEEEEEe
Confidence 45678999999998
No 55
>PF07405 DUF1506: Protein of unknown function (DUF1506); InterPro: IPR010875 This entry represents proteins found primarily in Borrelia species. Their function is unknown.
Probab=30.90 E-value=21 Score=28.61 Aligned_cols=26 Identities=38% Similarity=0.539 Sum_probs=23.0
Q ss_pred EeeecccCccCHHHHHHHHhhcCCCe
Q 046005 17 LTLVKGWNTEDIEAYSKLFSIGNPDF 42 (169)
Q Consensus 17 lTLVKg~Nm~~~~~YA~Li~~g~PdF 42 (169)
++.+-|-||.|..+||+|...++=+|
T Consensus 65 ~v~i~~sNi~D~~~y~klYT~~~l~f 90 (127)
T PF07405_consen 65 LVEIYDSNIFDIQGYSKLYTYQNLNF 90 (127)
T ss_pred eeeeccCCchhhhhhhheeehhhccc
Confidence 57789999999999999998888776
No 56
>PF01168 Ala_racemase_N: Alanine racemase, N-terminal domain; InterPro: IPR001608 Alanine racemase plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine. Proteins containing this domain are found in both prokaryotes and eukaryotes [,]. The molecular structure of alanine racemase from Bacillus stearothermophilus was determined by X-ray crystallography to a resolution of 1.9 A []. The alanine racemase monomer is composed of two domains, an eight-stranded alpha/beta barrel at the N terminus, and a C-terminal domain essentially composed of beta-strands. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the alpha/beta barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first beta-strand of the alpha/beta barrel. This domain is also found in the PROSC (proline synthetase co-transcribed bacterial homolog) family of proteins, which are not known to have alanine racemase activity.; PDB: 3KW3_A 1B54_A 1CT5_A 2ODO_B 2RJG_A 3B8V_D 2RJH_D 3B8T_D 3B8W_B 3B8U_A ....
Probab=30.87 E-value=78 Score=25.10 Aligned_cols=32 Identities=16% Similarity=0.376 Sum_probs=23.2
Q ss_pred ccCccCHHHHHHHHhhcCCCeEEEccee-ecccCC
Q 046005 22 GWNTEDIEAYSKLFSIGNPDFVEIKGVT-YCGSSA 55 (169)
Q Consensus 22 g~Nm~~~~~YA~Li~~g~PdFIEvKgyt-~~G~S~ 55 (169)
|+..+++...++.+... |. |++.|+| |.|.+.
T Consensus 125 G~~~~~~~~l~~~i~~~-~~-l~l~Gl~th~~~~d 157 (218)
T PF01168_consen 125 GVRPEELEELAEAIKAL-PN-LRLEGLMTHFAHAD 157 (218)
T ss_dssp SBECHHHHHHHHHHHHT-TT-EEEEEEEEBGSSTT
T ss_pred CCCHHHHHHHHHHHhcC-CC-ceEeeEeccccccC
Confidence 55555667777777654 66 9999976 888875
No 57
>PF10116 Host_attach: Protein required for attachment to host cells; InterPro: IPR019291 Members of this family of bacterial proteins are required for the attachment of the bacterium to host cells [, ].
Probab=30.56 E-value=30 Score=26.44 Aligned_cols=40 Identities=23% Similarity=0.225 Sum_probs=31.5
Q ss_pred CCCCChHHHHHHHHHHHHhcCCCceEeecCccceEEEeeecccc
Q 046005 62 ENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERF 105 (169)
Q Consensus 62 ~NmP~heEV~~Fa~~L~~~~~~~Y~i~~Eh~~Sr~vLLa~~~kf 105 (169)
..-|..+|-..||++|++.+ -....+++-.+.||+|. ..|
T Consensus 63 ~~~~~~~~~~~Fa~~vA~~L---~~~~~~~~~~~LvlvA~-p~~ 102 (138)
T PF10116_consen 63 RTDPKEEEEERFAREVADRL---EKARRAGKFDRLVLVAP-PRF 102 (138)
T ss_pred CCCHHHHHHHHHHHHHHHHH---HHHHHhCCCCeEEEEEC-HHH
Confidence 34577788999999999986 34677888889999998 444
No 58
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=28.98 E-value=87 Score=22.24 Aligned_cols=30 Identities=17% Similarity=0.149 Sum_probs=19.0
Q ss_pred hhhcCCCCeEEEEeeecccCccCHHHHHHHH
Q 046005 5 ALRDKQQRTVYRLTLVKGWNTEDIEAYSKLF 35 (169)
Q Consensus 5 iL~~k~~RTV~RlTLVKg~Nm~~~~~YA~Li 35 (169)
...+-..+|.|.|.+ +|-+.++...-.++.
T Consensus 16 ~~~~t~~~Tn~~L~~-~g~~L~~~~el~~i~ 45 (76)
T PF15044_consen 16 ESPETCYLTNFSLEH-NGQRLDDFVELSEIE 45 (76)
T ss_pred hCccccceeEEEEEE-CCCccCCchhhhhhh
Confidence 344457899999995 888755433333333
No 59
>PF11281 DUF3083: Protein of unknown function (DUF3083); InterPro: IPR021433 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=28.95 E-value=27 Score=31.79 Aligned_cols=45 Identities=18% Similarity=0.231 Sum_probs=33.6
Q ss_pred HHHHHhcCCCceEeecCccceEEEeeeccccccCCeeEEeeehhhHHHHHhCCCCCCccccccCCCCcc
Q 046005 75 EALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVASGRPFSSKDYMAASPHWA 143 (169)
Q Consensus 75 ~~L~~~~~~~Y~i~~Eh~~Sr~vLLa~~~kf~i~g~w~TwIdy~kF~~l~~~~~~f~~~dY~~~TP~WA 143 (169)
+.|+..+ |++++||+-.+|-+||+++-+.|- |+.+-|..+|-+=-
T Consensus 4 Q~ls~~~---F~l~ee~eL~Nvh~IaNdKLpvVR---------------------fh~E~y~~~T~eQi 48 (316)
T PF11281_consen 4 QRLSRQF---FELCEEHELHNVHVIANDKLPVVR---------------------FHTEAYCLQTAEQI 48 (316)
T ss_pred HHHHHHH---HHhhhhhcceeeEEEecCCcceEE---------------------ecccceeeccccEE
Confidence 4566653 889999999999999995545555 77777777776543
No 60
>PRK06242 flavodoxin; Provisional
Probab=26.96 E-value=2.7e+02 Score=20.69 Aligned_cols=67 Identities=15% Similarity=0.164 Sum_probs=37.2
Q ss_pred CCeEEEEeeecccC-ccCHHHHHHHHhhcCCCeEEEcceeecccCCCCCCC-----CCCCC---ChHHHHHHHHHHHHh
Q 046005 11 QRTVYRLTLVKGWN-TEDIEAYSKLFSIGNPDFVEIKGVTYCGSSATSKLT-----MENVP---WHADVKAFSEALALR 80 (169)
Q Consensus 11 ~RTV~RlTLVKg~N-m~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~~~rLt-----m~NmP---~heEV~~Fa~~L~~~ 80 (169)
.+.|+=++-- |+. ....+.++++++..+=.++ -+++..|......+. ..+-| ..+++.+|+++|++.
T Consensus 74 ~k~~~~f~t~-g~~~~~~~~~l~~~l~~~g~~~~--~~~~~~g~~~~~~~~~~~~~~~~~p~~~d~~~~~~~gk~l~~~ 149 (150)
T PRK06242 74 GKKAFIFSTS-GLPFLKYHKALKKKLKEKGFEIV--GEFSCKGFDTFGPFKLIGGINKGHPNEKDLENAKEFAENLKKK 149 (150)
T ss_pred CCeEEEEECC-CCCcchHHHHHHHHHHHCCCEEE--EEEecCCcccccchhhcCCccCCCcCHHHHHHHHHHHHHHhhc
Confidence 3555444433 333 2346777777765443333 335555543322332 36678 577889999999864
No 61
>PF07395 Mig-14: Mig-14; InterPro: IPR009977 This family contains a number of bacterial mig-14 proteins (approximately 270 residues long). In Salmonella, mig-14 contributes to resistance to antimicrobial peptides, although the mechanism is not fully understood [].
Probab=26.24 E-value=29 Score=30.73 Aligned_cols=25 Identities=32% Similarity=0.828 Sum_probs=21.0
Q ss_pred ccc--cccCCCCccccCCCCCCCCCCC
Q 046005 132 SKD--YMAASPHWAVYGAEEGGFDPDQ 156 (169)
Q Consensus 132 ~~d--Y~~~TP~WA~~g~~e~GFdP~~ 156 (169)
|.| |.+++|.|=.|.-..+|+||+-
T Consensus 186 Aiqlv~k~es~~wv~~D~iNgG~Dp~~ 212 (264)
T PF07395_consen 186 AIQLVYKVESPKWVYFDYINGGYDPEC 212 (264)
T ss_pred EEEEEEEecCCCeEEEecccCccCccc
Confidence 445 4578999999999999999974
No 62
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=26.03 E-value=61 Score=23.12 Aligned_cols=19 Identities=16% Similarity=0.329 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHhcCCCceEeec
Q 046005 69 DVKAFSEALALRSEGEYEVACE 90 (169)
Q Consensus 69 EV~~Fa~~L~~~~~~~Y~i~~E 90 (169)
|+++||++|.+. ||+|.+-
T Consensus 1 e~~~~a~~l~~l---G~~i~AT 19 (95)
T PF02142_consen 1 EIVPLAKRLAEL---GFEIYAT 19 (95)
T ss_dssp THHHHHHHHHHT---TSEEEEE
T ss_pred CHHHHHHHHHHC---CCEEEEC
Confidence 578999999886 6888763
No 63
>KOG4808 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.47 E-value=45 Score=27.42 Aligned_cols=31 Identities=16% Similarity=0.355 Sum_probs=24.4
Q ss_pred CCccccccCCCC-ccccCCCCCCCCCCCchhhhhccC
Q 046005 130 FSSKDYMAASPH-WAVYGAEEGGFDPDQSRYRKERHH 165 (169)
Q Consensus 130 f~~~dY~~~TP~-WA~~g~~e~GFdP~~~R~~~~~~~ 165 (169)
....+|-.+||. |-- -||||+|+-.++|+.|
T Consensus 44 ~~~~~~~nptpk~Wq~-----~~~d~~De~~d~k~~~ 75 (151)
T KOG4808|consen 44 VDGKAPPNPTPKLWQE-----DSPDPEDENKDEKNPD 75 (151)
T ss_pred ccccCCCCCCcccchh-----cCCChhhhhhhhhCcc
Confidence 455688889998 864 5689999998887765
No 64
>PF08410 DUF1737: Domain of unknown function (DUF1737); InterPro: IPR013619 This domain of unknown function is found at the N terminus of bacterial and viral hypothetical proteins.
Probab=25.28 E-value=22 Score=24.48 Aligned_cols=19 Identities=26% Similarity=0.511 Sum_probs=15.6
Q ss_pred CccccCCCCCCCCCCCchh
Q 046005 141 HWAVYGAEEGGFDPDQSRY 159 (169)
Q Consensus 141 ~WA~~g~~e~GFdP~~~R~ 159 (169)
-|.+||||---||+...++
T Consensus 28 GW~l~GsP~~t~~~~~~~~ 46 (54)
T PF08410_consen 28 GWQLYGSPTYTFDGGGMIC 46 (54)
T ss_pred CCEecCCceEEECCCcEEE
Confidence 3999999999999965554
No 65
>PF09875 DUF2102: Uncharacterized protein conserved in archaea (DUF2102); InterPro: IPR012025 The exact functionof this protein unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=25.00 E-value=52 Score=25.63 Aligned_cols=20 Identities=20% Similarity=0.443 Sum_probs=15.2
Q ss_pred CCCCCCCCCchhhhhccCCC
Q 046005 148 EEGGFDPDQSRYRKERHHKS 167 (169)
Q Consensus 148 ~e~GFdP~~~R~~~~~~~~~ 167 (169)
.++||-|.|.|.=|..+++.
T Consensus 62 KdRGFppgD~RRCRa~rgGg 81 (104)
T PF09875_consen 62 KDRGFPPGDPRRCRATRGGG 81 (104)
T ss_pred ecCCCCCCccHHhhhccCCC
Confidence 35999999999877655543
No 66
>PF01951 Archease: Archease protein family (MTH1598/TM1083); InterPro: IPR023572 The archease superfamily of proteins are represented in all three domains of life. Archease genes are generally located adjacent to genes encoding proteins involved in DNA or RNA processing and therefore been predicted to be modulators or chaperones involved in DNA or RNA metabolism. Many of the roles of archeases remain to be established experimentally. The function of one of the archeases from the hyperthermophile Pyrococcus abyssi has been determined. The gene encoding the archease (PAB1946) is located in a bicistronic operon immediately upstream from a second open reading frame (PAB1947), which encodes a tRNA m5C methyltransferase. The methyl transferase catalyses m5C formation at several cytosine's within tRNAs with preference for C49; the specificity of the methyltransferase reaction being increased by the archease. The archease exists in monomeric and oligomeric states, with only the oligomeric forms able to bind the methyltransferase. Binding prevents aggregation and hinders dimerisation of the methyltransferase-tRNA complex []. The function of this family of archeases as chaperones is supported by structural analysis of O27635 from SWISSPROT from Methanobacterium thermoautotrophicum, which shows homology to heat shock protein 33, which is a chaperone protein that inhibits the aggregation of partially denatured proteins []. Structurally, the archeases are composed of a single three layer beta-alpha-beta sandwich domain similar to those found in other chaperones.; PDB: 1J5U_A 1JW3_A.
Probab=23.13 E-value=30 Score=26.89 Aligned_cols=13 Identities=46% Similarity=0.452 Sum_probs=5.0
Q ss_pred CeEEEcceeeccc
Q 046005 41 DFVEIKGVTYCGS 53 (169)
Q Consensus 41 dFIEvKgyt~~G~ 53 (169)
--.||||+||.|-
T Consensus 108 ~~~eVKAvTyh~l 120 (137)
T PF01951_consen 108 FGTEVKAVTYHGL 120 (137)
T ss_dssp -S----EE-STT-
T ss_pred CCCcEEEccccCc
Confidence 3489999999874
No 67
>PRK15312 antimicrobial resistance protein Mig-14; Provisional
Probab=21.83 E-value=40 Score=30.51 Aligned_cols=21 Identities=10% Similarity=0.177 Sum_probs=19.3
Q ss_pred cccCCCCccccCCCCCCCCCC
Q 046005 135 YMAASPHWAVYGAEEGGFDPD 155 (169)
Q Consensus 135 Y~~~TP~WA~~g~~e~GFdP~ 155 (169)
|.++.|.|--|.-..+|+||+
T Consensus 221 ~k~eSp~wi~~D~iNgG~Dpe 241 (298)
T PRK15312 221 LKSESQMNVYFDVPNGAVKNE 241 (298)
T ss_pred EEecCCCcEEEecccCccCcc
Confidence 457899999999999999998
No 68
>COG0780 Enzyme related to GTP cyclohydrolase I [General function prediction only]
Probab=21.80 E-value=87 Score=25.50 Aligned_cols=21 Identities=19% Similarity=0.502 Sum_probs=18.8
Q ss_pred HHHHHHHhhcCCCeEEEccee
Q 046005 29 EAYSKLFSIGNPDFVEIKGVT 49 (169)
Q Consensus 29 ~~YA~Li~~g~PdFIEvKgyt 49 (169)
+-|-+|++..+|.+++|+|.-
T Consensus 100 ~I~~dl~~~l~P~~l~V~~~~ 120 (149)
T COG0780 100 RIFNDLKALLKPEYLEVYGKF 120 (149)
T ss_pred HHHHHHHHHhCCCEEEEEEEE
Confidence 568899999999999999954
No 69
>PRK02256 putative aminopeptidase 1; Provisional
Probab=21.38 E-value=49 Score=31.15 Aligned_cols=35 Identities=11% Similarity=0.223 Sum_probs=24.7
Q ss_pred CceEeecCccceEEEeeeccccc------------cCCeeEEeeehh
Q 046005 84 EYEVACEHVHSCCVLLAKTERFK------------VNGQWFTWIDYE 118 (169)
Q Consensus 84 ~Y~i~~Eh~~Sr~vLLa~~~kf~------------i~g~w~TwIdy~ 118 (169)
++.|+.-|-.|-|.-|--..... =++-||||.|=|
T Consensus 94 g~~iv~aHtDsP~lklKP~~~~~~~g~~~l~ve~YGG~l~~tW~DRd 140 (462)
T PRK02256 94 GLNIIGAHIDSPRLDLKPNPLYEDEGLALLKTHYYGGIKKYQWVAIP 140 (462)
T ss_pred ceEEEEEecCCCCceecCCCccccCCeeEeCeEecCCcccccccCCC
Confidence 68899999999888765422111 156799998854
No 70
>cd01335 Radical_SAM Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme o
Probab=20.90 E-value=1e+02 Score=22.51 Aligned_cols=54 Identities=22% Similarity=0.214 Sum_probs=39.3
Q ss_pred hhhhhhcCCCCeEEEEeeecccCc--cCHHHHHHHHhhcCCCeEEEcceeecccCC
Q 046005 2 SLKALRDKQQRTVYRLTLVKGWNT--EDIEAYSKLFSIGNPDFVEIKGVTYCGSSA 55 (169)
Q Consensus 2 sL~iL~~k~~RTV~RlTLVKg~Nm--~~~~~YA~Li~~g~PdFIEvKgyt~~G~S~ 55 (169)
+++.+.+.+-+....+.+-.+.+. +-.+.++.+.+.+.|+.|-+..++-.|.+.
T Consensus 130 ~i~~~~~~~~~~~~~~i~g~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~p~~~t~ 185 (204)
T cd01335 130 ALKELREAGLGLSTTLLVGLGDEDEEDDLEELELLAEFRSPDRVSLFRLLPEEGTP 185 (204)
T ss_pred HHHHHHHcCCCceEEEEEecCCChhHHHHHHHHHHHhhcCcchhhhhhhcccCCCe
Confidence 455566556677777777777775 345667777777669999999999888765
No 71
>PRK00301 aat leucyl/phenylalanyl-tRNA--protein transferase; Reviewed
Probab=20.15 E-value=3.2e+02 Score=23.84 Aligned_cols=99 Identities=22% Similarity=0.293 Sum_probs=62.0
Q ss_pred CeEEEEeeecccCc-------------------cCHHHHHHHHhhcCCCeEEEc--------------ceeecccCCCCC
Q 046005 12 RTVYRLTLVKGWNT-------------------EDIEAYSKLFSIGNPDFVEIK--------------GVTYCGSSATSK 58 (169)
Q Consensus 12 RTV~RlTLVKg~Nm-------------------~~~~~YA~Li~~g~PdFIEvK--------------gyt~~G~S~~~r 58 (169)
+.-|++|+=+.|+- +=++.|.+|-+.|..+=|||- |-+|||.|.=
T Consensus 81 ~~~f~itin~aF~~Vi~~Ca~~~~~~~~TWI~~e~~~aY~~LH~~G~AHSVE~W~~~~LvGGlYGv~iG~~F~GESMF-- 158 (233)
T PRK00301 81 KSPFRVTVDTAFAAVIRACAAPRPGQEGTWITPEIIEAYLELHELGHAHSVEVWQGGELVGGLYGVALGRAFFGESMF-- 158 (233)
T ss_pred CCCeEEEEcccHHHHHHHHccCCCCCCCCCCCHHHHHHHHHHHHcCceEEEEEEECCEEEeeeeccccCCEEeecccc--
Confidence 45677887666641 125899999999999999997 6679999862
Q ss_pred CCCCCCCChHHHHHHHHHHHHhcCCCceEeecCccceEEEeeeccccccCCeeEEeeehhhHHHHHhC
Q 046005 59 LTMENVPWHADVKAFSEALALRSEGEYEVACEHVHSCCVLLAKTERFKVNGQWFTWIDYEKFHDLVAS 126 (169)
Q Consensus 59 Ltm~NmP~heEV~~Fa~~L~~~~~~~Y~i~~Eh~~Sr~vLLa~~~kf~i~g~w~TwIdy~kF~~l~~~ 126 (169)
+..+=-+---...+++.|... +|.+.|-+-+.- + .-..+. .=|+-+.|.++++.
T Consensus 159 -s~~~nASKvAl~~L~~~L~~~---g~~liD~Q~~t~-----H--L~slGa---~~i~R~~fl~~L~~ 212 (233)
T PRK00301 159 -SRATDASKVALAALVEHLRRH---GFKLIDCQVLNP-----H--LASLGA---REIPRAEFLALLAQ 212 (233)
T ss_pred -cCCCChHHHHHHHHHHHHHHC---CceEEEECCCCH-----H--HHhcCC---EEcCHHHHHHHHHH
Confidence 222222233445666666554 788887543321 1 112333 34667778888864
Done!