Query 023313
Match_columns 284
No_of_seqs 192 out of 1000
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 03:04:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023313.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023313hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02606 LpxK: Tetraacyldisacc 100.0 1.6E-60 3.5E-65 448.7 21.7 226 1-282 101-326 (326)
2 TIGR00682 lpxK tetraacyldisacc 100.0 2E-56 4.3E-61 418.4 18.0 201 1-263 94-294 (311)
3 PRK00652 lpxK tetraacyldisacch 100.0 6.5E-56 1.4E-60 417.0 20.7 209 1-282 115-324 (325)
4 PRK01906 tetraacyldisaccharide 100.0 2E-54 4.2E-59 408.7 20.4 211 1-281 121-332 (338)
5 COG1663 LpxK Tetraacyldisaccha 100.0 1E-52 2.3E-57 391.7 16.8 201 1-261 113-314 (336)
6 COG2403 Predicted GTPase [Gene 97.0 0.0034 7.4E-08 60.5 9.0 137 57-217 223-370 (449)
7 COG0378 HypB Ni2+-binding GTPa 86.4 5.4 0.00012 35.6 8.8 81 59-147 97-184 (202)
8 PF02492 cobW: CobW/HypB/UreG, 83.6 1.3 2.8E-05 38.0 3.6 64 72-142 111-177 (178)
9 KOG2743 Cobalamin synthesis pr 83.0 1.3 2.7E-05 42.3 3.4 85 62-147 166-251 (391)
10 PF10087 DUF2325: Uncharacteri 81.6 2.8 6E-05 32.4 4.5 76 13-145 3-82 (97)
11 COG0523 Putative GTPases (G3E 78.0 2.3 5E-05 40.5 3.5 66 78-147 120-185 (323)
12 TIGR00101 ureG urease accessor 77.4 3.5 7.6E-05 36.2 4.3 76 58-142 91-174 (199)
13 PRK10463 hydrogenase nickel in 69.1 12 0.00026 35.2 5.9 81 56-144 182-269 (290)
14 PRK11537 putative GTP-binding 68.1 4.6 0.0001 38.3 3.0 64 76-146 124-187 (318)
15 COG0421 SpeE Spermidine syntha 65.2 3.8 8.3E-05 38.3 1.8 55 61-115 133-189 (282)
16 TIGR00073 hypB hydrogenase acc 64.8 24 0.00052 30.7 6.7 16 105-120 146-161 (207)
17 TIGR02475 CobW cobalamin biosy 54.6 13 0.00027 35.7 3.3 43 103-145 169-212 (341)
18 COG0400 Predicted esterase [Ge 42.6 88 0.0019 27.9 6.6 53 165-218 143-202 (207)
19 cd01524 RHOD_Pyr_redox Member 39.7 51 0.0011 24.3 4.1 14 59-72 76-89 (90)
20 TIGR01282 nifD nitrogenase mol 38.1 71 0.0015 31.9 5.8 32 165-196 332-363 (466)
21 COG4917 EutP Ethanolamine util 36.7 1.1E+02 0.0025 25.7 5.8 71 68-146 49-128 (148)
22 cd01518 RHOD_YceA Member of th 35.0 36 0.00077 25.8 2.5 35 12-72 64-100 (101)
23 cd01976 Nitrogenase_MoFe_alpha 33.7 93 0.002 30.5 5.8 33 165-197 297-329 (421)
24 KOG0345 ATP-dependent RNA heli 29.0 41 0.0009 34.0 2.4 57 170-234 258-314 (567)
25 cd00158 RHOD Rhodanese Homolog 28.3 1.1E+02 0.0023 21.7 4.1 13 59-71 76-88 (89)
26 PRK13663 hypothetical protein; 27.8 55 0.0012 32.6 3.0 34 58-92 148-182 (493)
27 PRK15447 putative protease; Pr 27.0 1.4E+02 0.003 28.0 5.5 44 178-221 15-60 (301)
28 PF13167 GTP-bdg_N: GTP-bindin 26.5 52 0.0011 25.8 2.1 46 13-85 39-87 (95)
29 COG1509 KamA Lysine 2,3-aminom 26.0 3.7E+02 0.0081 26.3 8.2 75 66-143 103-194 (369)
30 cd01968 Nitrogenase_NifE_I Nit 25.2 1.5E+02 0.0033 28.7 5.6 38 166-204 285-322 (410)
31 KOG2839 Diadenosine and diphos 23.7 82 0.0018 26.7 2.9 27 72-99 18-45 (145)
32 PRK00162 glpE thiosulfate sulf 23.4 87 0.0019 23.9 2.9 14 59-72 84-97 (108)
33 cd01983 Fer4_NifH The Fer4_Nif 23.3 2.2E+02 0.0047 20.1 5.0 39 59-116 28-66 (99)
34 PF03853 YjeF_N: YjeF-related 23.3 52 0.0011 28.0 1.8 22 76-103 99-120 (169)
35 TIGR01283 nifE nitrogenase mol 22.8 1.5E+02 0.0032 29.3 5.1 32 166-197 324-355 (456)
36 cd01444 GlpE_ST GlpE sulfurtra 22.8 1.3E+02 0.0028 22.0 3.7 13 59-71 82-94 (96)
37 PLN02760 4-aminobutyrate:pyruv 21.6 1.4E+02 0.003 30.2 4.6 32 61-97 296-339 (504)
38 cd01857 HSR1_MMR1 HSR1/MMR1. 21.5 3.5E+02 0.0076 21.6 6.3 46 76-125 13-60 (141)
39 TIGR01753 flav_short flavodoxi 21.2 2.9E+02 0.0063 21.6 5.7 38 182-220 101-138 (140)
40 PRK10537 voltage-gated potassi 21.1 4.7E+02 0.01 25.6 8.1 14 105-118 299-312 (393)
41 COG4122 Predicted O-methyltran 21.0 68 0.0015 28.9 2.1 64 1-87 76-143 (219)
42 KOG2948 Predicted metal-bindin 20.1 2.8E+02 0.006 26.5 5.9 50 59-108 215-283 (327)
No 1
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=100.00 E-value=1.6e-60 Score=448.73 Aligned_cols=226 Identities=35% Similarity=0.551 Sum_probs=191.4
Q ss_pred CcccccCCCCceEEEccchHHHHHHHHHHhCCCCCCcccccccccCCCCcccccccCcccEEEecCCCCCccccCCceEE
Q 023313 1 MLERHLLERPAKIGVGANRAATAASFIEKYGYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGMQHWSLRRDLEIV 80 (284)
Q Consensus 1 ~l~~~l~~~~~~v~V~~~R~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGfQH~~L~RDl~Iv 80 (284)
|||+++| |||+||+||+++++.++++++ +|||||||||||++|+||+|||
T Consensus 101 lla~~~~---~~V~V~~dR~~~~~~~~~~~~---------------------------~dviilDDGfQh~~L~rDl~Iv 150 (326)
T PF02606_consen 101 LLARKLP---VPVIVGPDRVAAARAALKEFP---------------------------ADVIILDDGFQHRRLKRDLDIV 150 (326)
T ss_pred HHHHhcC---CcEEEeCcHHHHHHHHHHHCC---------------------------CCEEEEcCCcccccccCCcEEE
Confidence 7899987 779999999999999999886 8999999999999999999999
Q ss_pred EEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCccEEEEEEecCeeEEeCCCCCc
Q 023313 81 MVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSK 160 (284)
Q Consensus 81 l~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~vf~~~~~~~~~~~~~~~~~~ 160 (284)
|+|+.+|||||++||+||||||+++|+|||+||+|+.+.........+ .+..|+|++++.+..+.++..
T Consensus 151 l~D~~~~~gng~lLPaG~LREp~~~l~rAD~vi~~~~~~~~~~~~~~~-------~~~~p~~~~~~~~~~~~~~~~---- 219 (326)
T PF02606_consen 151 LVDADRPFGNGFLLPAGPLREPLSALKRADAVIVTGCDASDPAIEKAI-------RPGKPIFSARLKPEGLRNLNT---- 219 (326)
T ss_pred EEeCCCCCcCCccCCCCcccCChhHhCcccEEEEcCCCcchhHHHHhh-------hcCCceEEEEEEecccccccc----
Confidence 999999999999999999999999999999999998654322211111 157899999999987754432
Q ss_pred ccccccCCCeEEEEecCCChHHHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHHHHhhcCCCCCCeEEEcCcCcCC
Q 023313 161 IPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTEKDYDR 240 (284)
Q Consensus 161 ~~~~~l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a~~~~~~~~~~~~iltTEKDaVK 240 (284)
.....++|++++||||||||++||++|+++|+++++++.|||||.||++|++.+...+++. + .||||||||||
T Consensus 220 ~~~~~l~~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~a~~~------~-~iltTeKDaVK 292 (326)
T PF02606_consen 220 GSIEPLKGKPVLAFSGIGNPERFFDTLESLGIEVVGTLAFPDHHRYTEQDLEKLEAEAKAA------G-IILTTEKDAVK 292 (326)
T ss_pred cchhhccCCeeEEEEEcCChHHHHHHHHHcCCeEEEeeECCCCCCCCHHHHHHHHHhhccc------c-eEEecHHHHhh
Confidence 2334589999999999999999999999999999999999999999999999998877643 2 79999999999
Q ss_pred ChhHHhhccCceEEEEeeEEEEeecCCCChHHHHHHHHHhhh
Q 023313 241 DPEILMHLEAYKVLVLCSKLQIIPCRGCTEDSFKLLLKELVD 282 (284)
Q Consensus 241 l~~~~~~~~~~~i~~l~i~~~~~p~~~~~~~~f~~~l~~~l~ 282 (284)
|+..... ...++|+++++++|. +.|.+.|.+.|+
T Consensus 293 l~~~~~~-~~~~~~~l~i~~~~~-------~~~~~~l~~~l~ 326 (326)
T PF02606_consen 293 LPDFAQE-NGLKIWVLPIELEFE-------EEFEEFLLKKLQ 326 (326)
T ss_pred Chhhhhh-cCCeEEEEEEEEEEC-------HHHHHHHHHhhC
Confidence 9863321 123599999999883 678888888764
No 2
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=100.00 E-value=2e-56 Score=418.37 Aligned_cols=201 Identities=29% Similarity=0.397 Sum_probs=161.2
Q ss_pred CcccccCCCCceEEEccchHHHHHHHHHHhCCCCCCcccccccccCCCCcccccccCcccEEEecCCCCCccccCCceEE
Q 023313 1 MLERHLLERPAKIGVGANRAATAASFIEKYGYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGMQHWSLRRDLEIV 80 (284)
Q Consensus 1 ~l~~~l~~~~~~v~V~~~R~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGfQH~~L~RDl~Iv 80 (284)
|||+++ ++||+||+||+++++.++++++ +|||||||||||++|+||+|||
T Consensus 94 lla~~~---~~~V~V~~dR~~a~~~~~~~~~---------------------------~dviilDDGfQh~~l~rD~~Iv 143 (311)
T TIGR00682 94 LLAKYL---HATVVASKDRKDAILLILEQLD---------------------------PDVIILDDGLQHRKLHRDVEIV 143 (311)
T ss_pred Hhhhhc---CCcEEEeChHHHHHHHHHhcCC---------------------------CCEEEECCCCcCccccCCeEEE
Confidence 788885 4789999999999999987776 8999999999999999999999
Q ss_pred EEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCccEEEEEEecCeeEEeCCCCCc
Q 023313 81 MVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSK 160 (284)
Q Consensus 81 l~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~vf~~~~~~~~~~~~~~~~~~ 160 (284)
|+|+++|||||++||+||||||+++|+|||+||+|+...... .+... ..+.+ ..+.++.. .+.
T Consensus 144 lvD~~~~fgng~lLPaGpLREp~~~l~raD~vvv~~~~~~~~----~~~~~------~~~~~------~~~~~~~~-~~~ 206 (311)
T TIGR00682 144 VVDGQRPFGNGFLLPAGPLREFPKRLKSADAVIVNGGENQSG----FIPMF------LMPRI------ACCVNLST-GER 206 (311)
T ss_pred EECCCCCCCCCcccCCcCCCCChhhhhhCCEEEEeCCccccc----hHHhh------cCccc------cceeeccc-ccc
Confidence 999999999999999999999999999999999998532211 11111 11111 11112211 222
Q ss_pred ccccccCCCeEEEEecCCChHHHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHHHHhhcCCCCCCeEEEcCcCcCC
Q 023313 161 IPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTEKDYDR 240 (284)
Q Consensus 161 ~~~~~l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a~~~~~~~~~~~~iltTEKDaVK 240 (284)
.+++.++|+ ++||||||||++||++|+++|+.++.++.|||||.||.+|++.+.+ .+..||||||||||
T Consensus 207 ~~~~~l~~~-v~a~aGIgnP~~F~~~L~~~G~~~~~~~~fpDHh~f~~~d~~~~~~----------~~~~ivtTeKDaVK 275 (311)
T TIGR00682 207 VPFDILKEL-VGAFSGIGNPQRFFAMLKNLGIQVKGTYLFPDHQELNEFCSSFAPE----------QGQILLTTEKDAVK 275 (311)
T ss_pred CChhHhCCe-EEEEEECCChHHHHHHHHHcCCccccceECCCCccCCHHHHHHHHh----------CCCeEEechhHHhh
Confidence 345667887 8999999999999999999999999999999999999999987532 13579999999999
Q ss_pred ChhHHhhccCceEEEEeeEEEEe
Q 023313 241 DPEILMHLEAYKVLVLCSKLQII 263 (284)
Q Consensus 241 l~~~~~~~~~~~i~~l~i~~~~~ 263 (284)
|+. +...++|+++++++|.
T Consensus 276 l~~----~~~~~~~~l~i~~~~~ 294 (311)
T TIGR00682 276 LQA----LAEEIWLYLPVDLERM 294 (311)
T ss_pred chh----ccCCcEEEEEEEEEEC
Confidence 873 2224799999999996
No 3
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=100.00 E-value=6.5e-56 Score=416.98 Aligned_cols=209 Identities=32% Similarity=0.487 Sum_probs=170.0
Q ss_pred CcccccCCCCceEEEccchHHHHHHHHHHhCCCCCCcccccccccCCCCcccccccCcccEEEecCCCCCccccCCceEE
Q 023313 1 MLERHLLERPAKIGVGANRAATAASFIEKYGYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGMQHWSLRRDLEIV 80 (284)
Q Consensus 1 ~l~~~l~~~~~~v~V~~~R~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGfQH~~L~RDl~Iv 80 (284)
|||++ |+ +||+||+||+++++.++++++ +|||||||||||++|+||+|||
T Consensus 115 lla~~-~~--~~V~V~~dR~~~~~~~~~~~~---------------------------~dviilDDGfQh~~l~rdl~Iv 164 (325)
T PRK00652 115 LIARR-TG--APVAVSPDRVAAARALLAAHG---------------------------ADIIILDDGLQHYRLARDIEIV 164 (325)
T ss_pred HhccC-CC--ceEEEcCcHHHHHHHHHhcCC---------------------------CCEEEEcCCccCcccCCCeEEE
Confidence 68888 65 789999999999999988776 8999999999999999999999
Q ss_pred EEeCCCCCCCCccccCCCCCCCccccccccEEEEcCC-cchhhhhHHHHHHHHHhhccCccEEEEEEecCeeEEeCCCCC
Q 023313 81 MVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHA-DLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINS 159 (284)
Q Consensus 81 l~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~-~~~~~~~~~~i~~~~~~~~~~~~vf~~~~~~~~~~~~~~~~~ 159 (284)
|+|++++||||++||+||||||.++|+|||+||+|+. +. ..+.+.+++.+....++ . .+
T Consensus 165 l~d~~~~fgng~~LPaG~LREp~~~l~rAd~vv~~~~~~~------------------~~~~~~~~~~~~~~~~~-~-~~ 224 (325)
T PRK00652 165 VVDGQRGFGNGFLLPAGPLREPPSRLKSVDAVIVNGGGDA------------------RAGEIPMRLEPGEAVNL-T-GE 224 (325)
T ss_pred EECCCCCCCCCccCCCcCccCChhHhccCCEEEEeCCCcc------------------ccccceeeecccccccc-c-cc
Confidence 9999999999999999999999999999999999983 21 11334455554443333 1 12
Q ss_pred cccccccCCCeEEEEecCCChHHHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHHHHhhcCCCCCCeEEEcCcCcC
Q 023313 160 KIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTEKDYD 239 (284)
Q Consensus 160 ~~~~~~l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a~~~~~~~~~~~~iltTEKDaV 239 (284)
..+.+.+ ++++||||||||++|+++|+++|++++.++.|||||.||++|++.+.+. +..|||||||||
T Consensus 225 ~~~~~~l--~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~f~DHh~ft~~dl~~l~~~----------~~~ivtTeKDaV 292 (325)
T PRK00652 225 RRPLASL--QRVVAFAGIGNPQRFFATLRALGIEVVKTHAFPDHYPFTKADLEALVSK----------GLTLLMTEKDAV 292 (325)
T ss_pred cCchhhh--ceEEEEEeCCCHHHHHHHHHHcCCceeeeeeCCCCCCCCHHHHHHHHhc----------CCeEEEchhHHh
Confidence 2234445 7899999999999999999999999999999999999999999988642 247999999999
Q ss_pred CChhHHhhccCceEEEEeeEEEEeecCCCChHHHHHHHHHhhh
Q 023313 240 RDPEILMHLEAYKVLVLCSKLQIIPCRGCTEDSFKLLLKELVD 282 (284)
Q Consensus 240 Kl~~~~~~~~~~~i~~l~i~~~~~p~~~~~~~~f~~~l~~~l~ 282 (284)
||+. +...++|+++++++|. +.|.+.|.+.+.
T Consensus 293 Kl~~----~~~~~~~~l~i~~~~~-------~~~~~~l~~~i~ 324 (325)
T PRK00652 293 KCRA----FAQDNWWYLPVDAELS-------PDFPDALLEKLD 324 (325)
T ss_pred hCcc----ccCCCEEEEEEEEEEC-------HHHHHHHHHHHh
Confidence 9863 1123799999999985 346566665543
No 4
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=100.00 E-value=2e-54 Score=408.71 Aligned_cols=211 Identities=25% Similarity=0.389 Sum_probs=168.5
Q ss_pred CcccccCCCCceEEEccchHHHHHHHHHHh-CCCCCCcccccccccCCCCcccccccCcccEEEecCCCCCccccCCceE
Q 023313 1 MLERHLLERPAKIGVGANRAATAASFIEKY-GYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGMQHWSLRRDLEI 79 (284)
Q Consensus 1 ~l~~~l~~~~~~v~V~~~R~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGfQH~~L~RDl~I 79 (284)
|||++. ++||+||+||++|++.+++++ + +||||||||||||+|+||+||
T Consensus 121 lla~~~---~~~V~V~~dR~~aa~~l~~~~~~---------------------------~dviIlDDGfQH~~L~RDleI 170 (338)
T PRK01906 121 LIARRT---DAPVWVCPDRVAAAQALLAAHPG---------------------------VDVIVSDDGLQHYRLARDVEI 170 (338)
T ss_pred HhhhcC---CCeEEEeCcHHHHHHHHHHhCCC---------------------------CCEEEECCCCccchhcCCcEE
Confidence 688874 478999999999999888754 4 899999999999999999999
Q ss_pred EEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCccEEEEEEecCeeEEeCCCCC
Q 023313 80 VMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINS 159 (284)
Q Consensus 80 vl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~vf~~~~~~~~~~~~~~~~~ 159 (284)
||+|+ ++||||++||+||||||.+++++||++ ++... .. +. ...++|.+++.+..++++..+.+
T Consensus 171 vl~D~-~~~Gng~lLPaGpLREp~~~l~~a~v~--~~~~~------~~----~~---~~~~~~~~~~~~~~~~~~~~~~~ 234 (338)
T PRK01906 171 VVFDH-RLGGNGFLLPAGPLREPLSRRRDATLI--NDPYS------RA----LP---PWPDTYALRLAPGDAWHLDDPAL 234 (338)
T ss_pred EEEcC-CCCCCCcccCCcCCcCChhhcccEEEE--eCcch------hh----hc---ccCcceEEEecccceeecCCccc
Confidence 99999 789999999999999999999987644 44211 00 00 12357788888877666643223
Q ss_pred cccccccCCCeEEEEecCCChHHHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHHHHhhcCCCCCCeEEEcCcCcC
Q 023313 160 KIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTEKDYD 239 (284)
Q Consensus 160 ~~~~~~l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a~~~~~~~~~~~~iltTEKDaV 239 (284)
..+++.++|++++||||||||++||++|+++|+++ .++.|||||.||++|++.+ +...|||||||||
T Consensus 235 ~~~~~~l~~~~v~a~aGIgnP~~F~~~L~~~G~~~-~~~~fpDHh~yt~~dl~~~------------~~~~lvtTeKDaV 301 (338)
T PRK01906 235 RRPLSQFAGERVLAAAGIGAPERFFATLRAAGLAP-ATRALPDHYAFADNPFVDD------------DADAILITEKDAV 301 (338)
T ss_pred cCchhHcCCCeEEEEEECCCHHHHHHHHHHcCCce-eEEeCCCCCCCCHHHHhhc------------CCCeEEECchHhh
Confidence 34567788999999999999999999999999986 5799999999999999754 1346999999999
Q ss_pred CChhHHhhccCceEEEEeeEEEEeecCCCChHHHHHHHHHhh
Q 023313 240 RDPEILMHLEAYKVLVLCSKLQIIPCRGCTEDSFKLLLKELV 281 (284)
Q Consensus 240 Kl~~~~~~~~~~~i~~l~i~~~~~p~~~~~~~~f~~~l~~~l 281 (284)
||.+ +...++|+++++++|. +.|.+.+.+.+
T Consensus 302 Kl~~----~~~~~~~~l~i~~~~~-------~~~~~~l~~~~ 332 (338)
T PRK01906 302 KLGS----WRDARIWVVPVEAALD-------PRLIALVVEKV 332 (338)
T ss_pred cCcc----ccCCCEEEEEEEEEEC-------HHHHHHHHHHH
Confidence 9853 2234799999999995 34655555544
No 5
>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=1e-52 Score=391.75 Aligned_cols=201 Identities=31% Similarity=0.463 Sum_probs=161.5
Q ss_pred CcccccCCCCceEEEccchHHHHHHHHHHh-CCCCCCcccccccccCCCCcccccccCcccEEEecCCCCCccccCCceE
Q 023313 1 MLERHLLERPAKIGVGANRAATAASFIEKY-GYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGMQHWSLRRDLEI 79 (284)
Q Consensus 1 ~l~~~l~~~~~~v~V~~~R~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGfQH~~L~RDl~I 79 (284)
|||++ +.+||+|++||+++++.+++++ | +|+|||||||||++|+||+||
T Consensus 113 LlA~~---t~~pv~v~~~R~~~~~~l~~~~~~---------------------------~diIi~DDG~Qh~rL~rD~eI 162 (336)
T COG1663 113 LLARR---TGAPVAVSPDRKDAAKALLAAHLG---------------------------CDIIVLDDGLQHYRLHRDFEI 162 (336)
T ss_pred HHhhh---cCCcEEEehhHHHHHHHHHhhCCC---------------------------CCEEEEcCcchhhHhhcceeE
Confidence 57776 4478999999999999999865 5 899999999999999999999
Q ss_pred EEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCccEEEEEEecCeeEEeCCCCC
Q 023313 80 VMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINS 159 (284)
Q Consensus 80 vl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~vf~~~~~~~~~~~~~~~~~ 159 (284)
|++|+.++||||++||+||||||+.++++||+|++++...... + +.+++.+.....+....+
T Consensus 163 vvvd~~r~fGng~~lPaGpLRep~~rl~~ad~ii~~g~~~~~~-----------------~-~~~~l~~~~~~~l~~~~~ 224 (336)
T COG1663 163 VVVDGQRGFGNGFLLPAGPLREPPKRLKSADAIITNGGGSRAD-----------------P-IPMRLAPGHAPNLVAPGE 224 (336)
T ss_pred EEEeccccCCCcccccCCcccCChhhhhcCcEEEecCCCcccc-----------------c-hhhhhcccccceeeccce
Confidence 9999999999999999999999999999999999987422110 1 123333222222322223
Q ss_pred cccccccCCCeEEEEecCCChHHHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHHHHhhcCCCCCCeEEEcCcCcC
Q 023313 160 KIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTEKDYD 239 (284)
Q Consensus 160 ~~~~~~l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a~~~~~~~~~~~~iltTEKDaV 239 (284)
..+...+++++++||||||||++||+||+++|+.+++++.|||||.|+++|++.+.+.++. ..|||||||+|
T Consensus 225 ~~~~~~~~~~~v~afaGIg~P~rFf~tL~~~g~~~~~~~~FpDH~~f~~~~l~~l~~~~~~--------~~Ll~TeKDaV 296 (336)
T COG1663 225 RSDVADLKGKRVVAFAGIGNPQRFFATLRNLGIQVVETLAFPDHYDFSAADLEDLAKKAQA--------DGLLTTEKDAV 296 (336)
T ss_pred ecchhhcCCceEEEEEecCChHHHHHHHHHcCcceeeeecCCchhhccHHHHHHHHhhhcc--------ceEEeecccee
Confidence 3445567888999999999999999999999999999999999999999999999876542 35999999999
Q ss_pred CChhHHhhccCceEEEEeeEEE
Q 023313 240 RDPEILMHLEAYKVLVLCSKLQ 261 (284)
Q Consensus 240 Kl~~~~~~~~~~~i~~l~i~~~ 261 (284)
||+. ..+.++|++++...
T Consensus 297 Kl~~----~~~~~~~~l~v~~~ 314 (336)
T COG1663 297 KLRD----FAPENVWNLPVLAI 314 (336)
T ss_pred eccc----ccchhhccceeeEE
Confidence 9874 22356676666543
No 6
>COG2403 Predicted GTPase [General function prediction only]
Probab=97.02 E-value=0.0034 Score=60.52 Aligned_cols=137 Identities=20% Similarity=0.280 Sum_probs=92.3
Q ss_pred CcccEEEecCCCCC-ccccCCceEEEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhh
Q 023313 57 GKIGAVILDDGMQH-WSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDI 135 (284)
Q Consensus 57 ~~~dvIIlDDGfQH-~~L~RDl~Ivl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~ 135 (284)
+..|+||+|-|=-. .-++.|+=||++|+.+|.-+=--+| |++ ++.-||+||+|+.+.++......+...+++.
T Consensus 223 ~~aD~IlwdGgnndfPfvkpd~~Ivvvda~rpg~ei~~~p-Ge~-----~irlAD~VIItkveea~~~kvrkI~~~I~~i 296 (449)
T COG2403 223 KEADFILWDGGNNDFPFVKPDLHIVVVDALRPGEEIGSFP-GEL-----RIRLADLVIITKVEEAMAEKVRKIVRNIEEI 296 (449)
T ss_pred hhccEEEEeCCCCCCCcccCCeeEEEecCCCCchhhccCC-Cce-----eeeeccEEEEecccccchHHHHHHHHHHHhh
Confidence 44699999987533 3468999999999999854322223 444 4788999999998888888888999999999
Q ss_pred ccCccEEEE--EEecCeeEEeCCCCCcccccccCCCeEEEEecCCChHH-------HHHHHHHh-CCcccceecCCCCCC
Q 023313 136 KKSLSIFFT--RMVPSYLFEVGNINSKIPLTAVCNANVLCVSAIGSANA-------FVQSLQKL-GPCSVNRLDFNDHHS 205 (284)
Q Consensus 136 ~~~~~vf~~--~~~~~~~~~~~~~~~~~~~~~l~g~~v~a~sGIgnP~~-------F~~~L~~~-G~~~~~~~~FpDHh~ 205 (284)
++...+..+ .+++. +...++||+++.++- .|+. -..+|+.. |.+++ =-|-|.
T Consensus 297 NP~A~Vi~~~~~~~~~------------~~~~ieGKrvlvved--aPt~thgg~~y~agyla~~~~~~i~----~vdPrp 358 (449)
T COG2403 297 NPKAEVILAASVFRPD------------PPEDIEGKRVLVVED--APTSTHGGMPYGAGYLAAKKGGEIV----GVDPRP 358 (449)
T ss_pred CCCcEEEecccccccC------------ChhhcCCcEEEEEec--CCcccccchhhhhhHHHHhhccceE----EeCCCc
Confidence 888877665 33332 233568898877653 2332 22344432 43333 236688
Q ss_pred CCHHHHHHHHHH
Q 023313 206 FQARDIEMIKKK 217 (284)
Q Consensus 206 ft~~dl~~i~~~ 217 (284)
|+...|.+-.++
T Consensus 359 ynrg~i~~~y~k 370 (449)
T COG2403 359 YNRGVIREDYEK 370 (449)
T ss_pred ccchHHHHHHHh
Confidence 887777655443
No 7
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=86.38 E-value=5.4 Score=35.58 Aligned_cols=81 Identities=19% Similarity=0.313 Sum_probs=56.2
Q ss_pred ccEEEecCCC-----CCccccCCceEEEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhh--hHHHHHHH
Q 023313 59 IGAVILDDGM-----QHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQ--NLKDIELE 131 (284)
Q Consensus 59 ~dvIIlDDGf-----QH~~L~RDl~Ivl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~--~~~~i~~~ 131 (284)
.|+++..-|= -.+.|.-.+.|+|+|.+. |.+-..=.|| .+.+||++|+||.|.++.- +++.....
T Consensus 97 ~Dll~iEs~GNL~~~~sp~L~d~~~v~Vidvte--Ge~~P~K~gP------~i~~aDllVInK~DLa~~v~~dlevm~~d 168 (202)
T COG0378 97 LDLLFIESVGNLVCPFSPDLGDHLRVVVIDVTE--GEDIPRKGGP------GIFKADLLVINKTDLAPYVGADLEVMARD 168 (202)
T ss_pred CCEEEEecCcceecccCcchhhceEEEEEECCC--CCCCcccCCC------ceeEeeEEEEehHHhHHHhCccHHHHHHH
Confidence 6888887764 234566668999999764 3332222233 4777999999998765433 34777778
Q ss_pred HHhhccCccEEEEEEe
Q 023313 132 MRDIKKSLSIFFTRMV 147 (284)
Q Consensus 132 ~~~~~~~~~vf~~~~~ 147 (284)
.++.++..|++++...
T Consensus 169 a~~~np~~~ii~~n~k 184 (202)
T COG0378 169 AKEVNPEAPIIFTNLK 184 (202)
T ss_pred HHHhCCCCCEEEEeCC
Confidence 8888899999887765
No 8
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=83.56 E-value=1.3 Score=37.99 Aligned_cols=64 Identities=20% Similarity=0.272 Sum_probs=42.9
Q ss_pred cccCCceEEEEeCCCCCCCCccccCC-CCCC-CccccccccEEEEcCCcchhhhh-HHHHHHHHHhhccCccEE
Q 023313 72 SLRRDLEIVMVNGLMPWGNRKLLPLG-PLRE-PLMALKRADIAVVHHADLISEQN-LKDIELEMRDIKKSLSIF 142 (284)
Q Consensus 72 ~L~RDl~Ivl~D~~~~fgng~lLPaG-~LRE-p~~~l~rAD~vvvt~~~~~~~~~-~~~i~~~~~~~~~~~~vf 142 (284)
.+.-+.-|.++|+.+. +.+ ...+ -...++.||+||+||.|.+++++ .+.+.+.++..++..+++
T Consensus 111 ~~~~~~iI~vVDa~~~-------~~~~~~~~~~~~Qi~~ADvIvlnK~D~~~~~~~i~~~~~~ir~lnp~a~Iv 177 (178)
T PF02492_consen 111 DFRLDSIITVVDATNF-------DELENIPELLREQIAFADVIVLNKIDLVSDEQKIERVREMIRELNPKAPIV 177 (178)
T ss_dssp HESESEEEEEEEGTTH-------GGHTTHCHHHHHHHCT-SEEEEE-GGGHHHH--HHHHHHHHHHH-TTSEEE
T ss_pred cccccceeEEeccccc-------cccccchhhhhhcchhcCEEEEeccccCChhhHHHHHHHHHHHHCCCCEEe
Confidence 3446778899998653 111 1111 23579999999999998887773 488889999998888875
No 9
>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]
Probab=83.01 E-value=1.3 Score=42.28 Aligned_cols=85 Identities=21% Similarity=0.285 Sum_probs=64.8
Q ss_pred EEecCCCCCccccCCceEEEEeCCCCC-CCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCcc
Q 023313 62 VILDDGMQHWSLRRDLEIVMVNGLMPW-GNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLS 140 (284)
Q Consensus 62 IIlDDGfQH~~L~RDl~Ivl~D~~~~f-gng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~ 140 (284)
+=+||++-. .++=|-=+-++|+.... --+-.=|-|..-|-...++-||.||+||.|..++++...+++++++++.-.+
T Consensus 166 Fw~dd~l~s-dVkLDGIVTvvD~K~~~~~Lde~k~~g~i~EA~~QiA~AD~II~NKtDli~~e~~~~l~q~I~~INslA~ 244 (391)
T KOG2743|consen 166 FWLDDELGS-DVKLDGIVTVVDAKHILKHLDEEKPDGLINEATRQIALADRIIMNKTDLVSEEEVKKLRQRIRSINSLAQ 244 (391)
T ss_pred HhhhhhhcC-ceeeeeEEEEEehhhHHhhhcccCcccchHHHHHHHhhhheeeeccccccCHHHHHHHHHHHHHhhhHHH
Confidence 335666644 34556667889986422 2244568899999888999999999999999999999999999999877777
Q ss_pred EEEEEEe
Q 023313 141 IFFTRMV 147 (284)
Q Consensus 141 vf~~~~~ 147 (284)
++++.+.
T Consensus 245 m~~Tky~ 251 (391)
T KOG2743|consen 245 MIETKYS 251 (391)
T ss_pred hhhhhhc
Confidence 7766553
No 10
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=81.64 E-value=2.8 Score=32.43 Aligned_cols=76 Identities=22% Similarity=0.399 Sum_probs=51.3
Q ss_pred EEEcc--chHHHHHHHHHHhCCCCCCcccccccccCCCCcccccccCcccEEEe--cCCCCCccccCCceEEEEeCCCCC
Q 023313 13 IGVGA--NRAATAASFIEKYGYVDPRDCASSQKNCINPKVGSHLKSGKIGAVIL--DDGMQHWSLRRDLEIVMVNGLMPW 88 (284)
Q Consensus 13 v~V~~--~R~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIl--DDGfQH~~L~RDl~Ivl~D~~~~f 88 (284)
++||. ++....+.+++++| ..++.. |+|+.+..
T Consensus 3 liVGG~~~~~~~~~~~~~~~G---------------------------~~~~~hg~~~~~~~~~---------------- 39 (97)
T PF10087_consen 3 LIVGGREDRERRYKRILEKYG---------------------------GKLIHHGRDGGDEKKA---------------- 39 (97)
T ss_pred EEEcCCcccHHHHHHHHHHcC---------------------------CEEEEEecCCCCccch----------------
Confidence 45777 88889999999998 788888 77777653
Q ss_pred CCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCccEEEEE
Q 023313 89 GNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTR 145 (284)
Q Consensus 89 gng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~vf~~~ 145 (284)
+.-.+.+++||+||+.- +..++.....+++..+++ +.|+++++
T Consensus 40 -----------~~l~~~i~~aD~VIv~t-~~vsH~~~~~vk~~akk~--~ip~~~~~ 82 (97)
T PF10087_consen 40 -----------SRLPSKIKKADLVIVFT-DYVSHNAMWKVKKAAKKY--GIPIIYSR 82 (97)
T ss_pred -----------hHHHHhcCCCCEEEEEe-CCcChHHHHHHHHHHHHc--CCcEEEEC
Confidence 00135789999988753 244555566666655553 56665554
No 11
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=78.01 E-value=2.3 Score=40.53 Aligned_cols=66 Identities=18% Similarity=0.159 Sum_probs=47.9
Q ss_pred eEEEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCccEEEEEEe
Q 023313 78 EIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMV 147 (284)
Q Consensus 78 ~Ivl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~vf~~~~~ 147 (284)
=|.|+|+.+. .++.-- .-.+-..+++-||.||+||.|.+++++++.++..+++.++..+++.+...
T Consensus 120 vvtvVDa~~~-~~~~~~---~~~~~~~Qia~AD~ivlNK~Dlv~~~~l~~l~~~l~~lnp~A~i~~~~~~ 185 (323)
T COG0523 120 VVTVVDAAHF-LEGLDA---IAELAEDQLAFADVIVLNKTDLVDAEELEALEARLRKLNPRARIIETSYG 185 (323)
T ss_pred EEEEEeHHHh-hhhHHH---HHHHHHHHHHhCcEEEEecccCCCHHHHHHHHHHHHHhCCCCeEEEcccc
Confidence 4667888643 211100 11223457999999999999999888889999999999999998876654
No 12
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=77.38 E-value=3.5 Score=36.21 Aligned_cols=76 Identities=20% Similarity=0.351 Sum_probs=46.2
Q ss_pred cccEEEecC-C--CC---CccccCCceEEEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchh--hhhHHHHH
Q 023313 58 KIGAVILDD-G--MQ---HWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLIS--EQNLKDIE 129 (284)
Q Consensus 58 ~~dvIIlDD-G--fQ---H~~L~RDl~Ivl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~--~~~~~~i~ 129 (284)
+.|.+|.+- | .. ...+ .|.-|+++|+...-- .+ ++....+..||++++||.|... ..+.+.+.
T Consensus 91 ~~D~iiIEt~G~~l~~~~~~~l-~~~~i~vvD~~~~~~----~~----~~~~~qi~~ad~~~~~k~d~~~~~~~~~~~~~ 161 (199)
T TIGR00101 91 PLEMVFIESGGDNLSATFSPEL-ADLTIFVIDVAAGDK----IP----RKGGPGITRSDLLVINKIDLAPMVGADLGVME 161 (199)
T ss_pred CCCEEEEECCCCCcccccchhh-hCcEEEEEEcchhhh----hh----hhhHhHhhhccEEEEEhhhccccccccHHHHH
Confidence 467666653 2 11 1222 577899999864321 11 2333478899999999987653 24566666
Q ss_pred HHHHhhccCccEE
Q 023313 130 LEMRDIKKSLSIF 142 (284)
Q Consensus 130 ~~~~~~~~~~~vf 142 (284)
+.++.+++..++|
T Consensus 162 ~~~~~~~~~~~i~ 174 (199)
T TIGR00101 162 RDAKKMRGEKPFI 174 (199)
T ss_pred HHHHHhCCCCCEE
Confidence 7777665555554
No 13
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=69.07 E-value=12 Score=35.23 Aligned_cols=81 Identities=14% Similarity=0.295 Sum_probs=49.5
Q ss_pred cCcccEEEecCCCC--C---ccccCCceEEEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchh--hhhHHHH
Q 023313 56 SGKIGAVILDDGMQ--H---WSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLIS--EQNLKDI 128 (284)
Q Consensus 56 ~~~~dvIIlDDGfQ--H---~~L~RDl~Ivl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~--~~~~~~i 128 (284)
..+.|++|++=-=. . ..|..++.+++++...+ .+. ++.-| ..++.||++|+||.|.++ ..+.+.+
T Consensus 182 ~~~~d~liIEnvGnLvcPa~fdlge~~~v~vlsV~eg--~dk-----plKyp-~~f~~ADIVVLNKiDLl~~~~~dle~~ 253 (290)
T PRK10463 182 LDDNGILFIENVGNLVCPASFDLGEKHKVAVLSVTEG--EDK-----PLKYP-HMFAAASLMLLNKVDLLPYLNFDVEKC 253 (290)
T ss_pred hcCCcEEEEECCCCccCCCccchhhceeEEEEECccc--ccc-----chhcc-chhhcCcEEEEEhHHcCcccHHHHHHH
Confidence 34567777764211 1 13556677888887643 222 22323 458999999999987764 3356666
Q ss_pred HHHHHhhccCccEEEE
Q 023313 129 ELEMRDIKKSLSIFFT 144 (284)
Q Consensus 129 ~~~~~~~~~~~~vf~~ 144 (284)
.+.++..++..++|..
T Consensus 254 ~~~lr~lnp~a~I~~v 269 (290)
T PRK10463 254 IACAREVNPEIEIILI 269 (290)
T ss_pred HHHHHhhCCCCcEEEE
Confidence 6666666666666543
No 14
>PRK11537 putative GTP-binding protein YjiA; Provisional
Probab=68.08 E-value=4.6 Score=38.29 Aligned_cols=64 Identities=13% Similarity=0.150 Sum_probs=44.0
Q ss_pred CceEEEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccCccEEEEEE
Q 023313 76 DLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRM 146 (284)
Q Consensus 76 Dl~Ivl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~~~vf~~~~ 146 (284)
|-=|.++|+.+... .+.. ..+....+.-||.||+||.+.+++. +.+.+.++.+++..+++.+.+
T Consensus 124 ~~vvtvvDa~~~~~---~~~~--~~~~~~Qi~~AD~IvlnK~Dl~~~~--~~~~~~l~~lnp~a~i~~~~~ 187 (318)
T PRK11537 124 DGVIALVDAVHADE---QMNQ--FTIAQSQVGYADRILLTKTDVAGEA--EKLRERLARINARAPVYTVVH 187 (318)
T ss_pred ccEEEEEEhhhhhh---hccc--cHHHHHHHHhCCEEEEeccccCCHH--HHHHHHHHHhCCCCEEEEecc
Confidence 44578889865221 1221 1234467999999999998876543 578888888888889876554
No 15
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=65.16 E-value=3.8 Score=38.33 Aligned_cols=55 Identities=25% Similarity=0.370 Sum_probs=39.8
Q ss_pred EEEecCCCCCccccC-CceEEEEeCCCCCCCCccccCCCCCCCcc-ccccccEEEEc
Q 023313 61 AVILDDGMQHWSLRR-DLEIVMVNGLMPWGNRKLLPLGPLREPLM-ALKRADIAVVH 115 (284)
Q Consensus 61 vIIlDDGfQH~~L~R-Dl~Ivl~D~~~~fgng~lLPaG~LREp~~-~l~rAD~vvvt 115 (284)
=|+.|||+|.-+-.. .+|++++|.+.|.|-+..|.....-|-.. .|+..-+++..
T Consensus 133 ~i~i~Dg~~~v~~~~~~fDvIi~D~tdp~gp~~~Lft~eFy~~~~~~L~~~Gi~v~q 189 (282)
T COG0421 133 EIIIDDGVEFLRDCEEKFDVIIVDSTDPVGPAEALFTEEFYEGCRRALKEDGIFVAQ 189 (282)
T ss_pred EEEeccHHHHHHhCCCcCCEEEEcCCCCCCcccccCCHHHHHHHHHhcCCCcEEEEe
Confidence 467899999988666 49999999999988666666666666554 44554455444
No 16
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=64.82 E-value=24 Score=30.73 Aligned_cols=16 Identities=44% Similarity=0.679 Sum_probs=12.4
Q ss_pred ccccccEEEEcCCcch
Q 023313 105 ALKRADIAVVHHADLI 120 (284)
Q Consensus 105 ~l~rAD~vvvt~~~~~ 120 (284)
.+.+++++++||.|..
T Consensus 146 ~~~~a~iiv~NK~Dl~ 161 (207)
T TIGR00073 146 MFKEADLIVINKADLA 161 (207)
T ss_pred HHhhCCEEEEEHHHcc
Confidence 3667899999997754
No 17
>TIGR02475 CobW cobalamin biosynthesis protein CobW. A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).
Probab=54.55 E-value=13 Score=35.68 Aligned_cols=43 Identities=21% Similarity=0.268 Sum_probs=34.8
Q ss_pred ccccccccEEEEcCCcchhhhhHHHHHHHHHhhccC-ccEEEEE
Q 023313 103 LMALKRADIAVVHHADLISEQNLKDIELEMRDIKKS-LSIFFTR 145 (284)
Q Consensus 103 ~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~-~~vf~~~ 145 (284)
...++.||.||+||.+.+++++++.+++.++..++. .+++.+.
T Consensus 169 ~~Qi~~AD~IvlnK~Dl~~~~~l~~~~~~l~~~~~~~a~i~~~~ 212 (341)
T TIGR02475 169 EDQLACADLVILNKADLLDAAGLARVRAEIAAELPRAVKIVEAS 212 (341)
T ss_pred HHHHHhCCEEEEeccccCCHHHHHHHHHHHHHhCCCCCEEEEcc
Confidence 468999999999999988888899999999875554 4676554
No 18
>COG0400 Predicted esterase [General function prediction only]
Probab=42.62 E-value=88 Score=27.86 Aligned_cols=53 Identities=13% Similarity=0.162 Sum_probs=44.7
Q ss_pred ccCCCeEEEEecCCCh-------HHHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHH
Q 023313 165 AVCNANVLCVSAIGSA-------NAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKL 218 (284)
Q Consensus 165 ~l~g~~v~a~sGIgnP-------~~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a 218 (284)
.+++.++++..|--+| ++..++|++.|..+ ....|++=|.-+.++++.+.+..
T Consensus 143 ~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~~v-~~~~~~~GH~i~~e~~~~~~~wl 202 (207)
T COG0400 143 DLAGTPILLSHGTEDPVVPLALAEALAEYLTASGADV-EVRWHEGGHEIPPEELEAARSWL 202 (207)
T ss_pred ccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCCCE-EEEEecCCCcCCHHHHHHHHHHH
Confidence 4688999999999999 67888999999874 46688899999999999877643
No 19
>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.
Probab=39.70 E-value=51 Score=24.33 Aligned_cols=14 Identities=29% Similarity=0.434 Sum_probs=11.6
Q ss_pred ccEEEecCCCCCcc
Q 023313 59 IGAVILDDGMQHWS 72 (284)
Q Consensus 59 ~dvIIlDDGfQH~~ 72 (284)
+++.+||+|++-|+
T Consensus 76 ~~v~~l~GG~~~w~ 89 (90)
T cd01524 76 FKVKNLDGGYKTYS 89 (90)
T ss_pred CCEEEecCCHHHhc
Confidence 68999999997653
No 20
>TIGR01282 nifD nitrogenase molybdenum-iron protein alpha chain. Nitrogenase consists of alpha (NifD) and beta (NifK) subunits of the molybdenum-iron protein and an ATP-binding iron-sulfur protein (NifH). This model describes a large clade of NifD proteins, but excludes a lineage that contains putative NifD and NifD homologs from species with vanadium-dependent nitrogenases.
Probab=38.10 E-value=71 Score=31.92 Aligned_cols=32 Identities=9% Similarity=0.082 Sum_probs=28.8
Q ss_pred ccCCCeEEEEecCCChHHHHHHHHHhCCcccc
Q 023313 165 AVCNANVLCVSAIGSANAFVQSLQKLGPCSVN 196 (284)
Q Consensus 165 ~l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~ 196 (284)
.|+||+++++.|-..|......|+++|.+++.
T Consensus 332 ~L~GKrv~i~~g~~~~~~~~~~l~ELGmevv~ 363 (466)
T TIGR01282 332 RLEGKTVMLYVGGLRPRHVIGAFEDLGMEVIG 363 (466)
T ss_pred hcCCCEEEEECCCCcHHHHHHHHHHCCCEEEE
Confidence 47899999999988999999999999998864
No 21
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=36.70 E-value=1.1e+02 Score=25.70 Aligned_cols=71 Identities=23% Similarity=0.259 Sum_probs=44.5
Q ss_pred CCCccc-------cCCceE--EEEeCCCCCCCCccccCCCCCCCccccccccEEEEcCCcchhhhhHHHHHHHHHhhccC
Q 023313 68 MQHWSL-------RRDLEI--VMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKS 138 (284)
Q Consensus 68 fQH~~L-------~RDl~I--vl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~~~~~~~~~~~~i~~~~~~~~~~ 138 (284)
|+|+++ ..|.++ .+-.++.+. ..||.|-+-=..+ . -+=||||.|.+++++.+..++.+... ..
T Consensus 49 ~~~~~~Y~aL~tt~~dadvi~~v~~and~~---s~f~p~f~~~~~k---~-vIgvVTK~DLaed~dI~~~~~~L~ea-Ga 120 (148)
T COG4917 49 FEHPRWYHALITTLQDADVIIYVHAANDPE---SRFPPGFLDIGVK---K-VIGVVTKADLAEDADISLVKRWLREA-GA 120 (148)
T ss_pred hhhhHHHHHHHHHhhccceeeeeecccCcc---ccCCccccccccc---c-eEEEEecccccchHhHHHHHHHHHHc-CC
Confidence 677776 344444 344455553 3788887753322 2 56778998887777777777777764 35
Q ss_pred ccEEEEEE
Q 023313 139 LSIFFTRM 146 (284)
Q Consensus 139 ~~vf~~~~ 146 (284)
.+||....
T Consensus 121 ~~IF~~s~ 128 (148)
T COG4917 121 EPIFETSA 128 (148)
T ss_pred cceEEEec
Confidence 67765443
No 22
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=34.99 E-value=36 Score=25.76 Aligned_cols=35 Identities=14% Similarity=0.311 Sum_probs=23.7
Q ss_pred eEEEcc--chHHHHHHHHHHhCCCCCCcccccccccCCCCcccccccCcccEEEecCCCCCcc
Q 023313 12 KIGVGA--NRAATAASFIEKYGYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGMQHWS 72 (284)
Q Consensus 12 ~v~V~~--~R~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGfQH~~ 72 (284)
-|++|. .|...+...+...|. -+|.+|++|++.|.
T Consensus 64 ivvyC~~G~rs~~a~~~L~~~G~--------------------------~~v~~l~GG~~~W~ 100 (101)
T cd01518 64 VLMYCTGGIRCEKASAYLKERGF--------------------------KNVYQLKGGILKYL 100 (101)
T ss_pred EEEECCCchhHHHHHHHHHHhCC--------------------------cceeeechhHHHHh
Confidence 456665 366666566666672 36999999998763
No 23
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=33.70 E-value=93 Score=30.54 Aligned_cols=33 Identities=12% Similarity=0.111 Sum_probs=29.1
Q ss_pred ccCCCeEEEEecCCChHHHHHHHHHhCCcccce
Q 023313 165 AVCNANVLCVSAIGSANAFVQSLQKLGPCSVNR 197 (284)
Q Consensus 165 ~l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~ 197 (284)
.++|++++++.|-..|..+...++++|.+++..
T Consensus 297 ~L~Gkrv~i~~g~~~~~~~~~~l~elGmevv~~ 329 (421)
T cd01976 297 RLEGKTVMLYVGGLRPRHYIGAYEDLGMEVVGT 329 (421)
T ss_pred HcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEE
Confidence 478999999999899999999999999987653
No 24
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=29.02 E-value=41 Score=34.03 Aligned_cols=57 Identities=12% Similarity=0.173 Sum_probs=34.2
Q ss_pred eEEEEecCCChHHHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHHHHhhcCCCCCCeEEEc
Q 023313 170 NVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVT 234 (284)
Q Consensus 170 ~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a~~~~~~~~~~~~iltT 234 (284)
-++-|+-=+..+-|-..+..+- .-.. .|+=|-.-+...-.+....+.+. .+..++||
T Consensus 258 ~iVFF~TCasVeYf~~~~~~~l-~~~~--i~~iHGK~~q~~R~k~~~~F~~~-----~~~vl~~T 314 (567)
T KOG0345|consen 258 CIVFFPTCASVEYFGKLFSRLL-KKRE--IFSIHGKMSQKARAKVLEAFRKL-----SNGVLFCT 314 (567)
T ss_pred EEEEecCcchHHHHHHHHHHHh-CCCc--EEEecchhcchhHHHHHHHHHhc-----cCceEEee
Confidence 3566777788888877777661 1122 45556666655555555555542 13468888
No 25
>cd00158 RHOD Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.
Probab=28.29 E-value=1.1e+02 Score=21.74 Aligned_cols=13 Identities=31% Similarity=0.654 Sum_probs=11.1
Q ss_pred ccEEEecCCCCCc
Q 023313 59 IGAVILDDGMQHW 71 (284)
Q Consensus 59 ~dvIIlDDGfQH~ 71 (284)
.++.++++||+-|
T Consensus 76 ~~v~~l~gG~~~w 88 (89)
T cd00158 76 TNVYNLEGGMLAW 88 (89)
T ss_pred ccEEEecCChhhc
Confidence 6899999999765
No 26
>PRK13663 hypothetical protein; Provisional
Probab=27.77 E-value=55 Score=32.65 Aligned_cols=34 Identities=21% Similarity=0.397 Sum_probs=27.7
Q ss_pred cccEEEecCCC-CCccccCCceEEEEeCCCCCCCCc
Q 023313 58 KIGAVILDDGM-QHWSLRRDLEIVMVNGLMPWGNRK 92 (284)
Q Consensus 58 ~~dvIIlDDGf-QH~~L~RDl~Ivl~D~~~~fgng~ 92 (284)
+++.||+|+|| .+-+++-.=.||++.+-.| |.|.
T Consensus 148 dv~~IVSdeGyGkN~yIeTtrpLVVVTAPGP-GSGK 182 (493)
T PRK13663 148 DVDHIVSDEGYGKNDYIETTRPLVVVTAPGP-GSGK 182 (493)
T ss_pred CCCceECcCCCCCCCceeccCCeEEEeCCCC-CccH
Confidence 48899999999 7888888889999998644 5554
No 27
>PRK15447 putative protease; Provisional
Probab=26.99 E-value=1.4e+02 Score=27.95 Aligned_cols=44 Identities=9% Similarity=0.063 Sum_probs=35.6
Q ss_pred CChHHHHHHHHHhCCcc--cceecCCCCCCCCHHHHHHHHHHHHHh
Q 023313 178 GSANAFVQSLQKLGPCS--VNRLDFNDHHSFQARDIEMIKKKLEEL 221 (284)
Q Consensus 178 gnP~~F~~~L~~~G~~~--~~~~~FpDHh~ft~~dl~~i~~~a~~~ 221 (284)
|+.+.|...+.+.|++- ++.-.|+....|+.+++.++.+.+.+.
T Consensus 15 ~~~~~~~~~~~~~gaDaVY~g~~~~~~R~~f~~~~l~e~v~~~~~~ 60 (301)
T PRK15447 15 ETVRDFYQRAADSPVDIVYLGETVCSKRRELKVGDWLELAERLAAA 60 (301)
T ss_pred CCHHHHHHHHHcCCCCEEEECCccCCCccCCCHHHHHHHHHHHHHc
Confidence 78899999999988764 334457777789999999999888764
No 28
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=26.52 E-value=52 Score=25.80 Aligned_cols=46 Identities=17% Similarity=0.392 Sum_probs=35.9
Q ss_pred EEEccchHHHHHHHHHHhCCCCCCcccccccccCCCCcccccccCcccEEEecCCC---CCccccCCceEEEEeCC
Q 023313 13 IGVGANRAATAASFIEKYGYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGM---QHWSLRRDLEIVMVNGL 85 (284)
Q Consensus 13 v~V~~~R~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGf---QH~~L~RDl~Ivl~D~~ 85 (284)
-.+|+-.++.+..+.+..+ +|+||.|+-+ |.|-|.+-+.+=++|-+
T Consensus 39 ~~iG~GK~eei~~~~~~~~---------------------------~d~vvfd~~Lsp~Q~rNLe~~~~~~V~DRt 87 (95)
T PF13167_consen 39 TYIGSGKVEEIKELIEELD---------------------------ADLVVFDNELSPSQQRNLEKALGVKVIDRT 87 (95)
T ss_pred eeechhHHHHHHHHHhhcC---------------------------CCEEEECCCCCHHHHHHHHHHHCCeeeccc
Confidence 5567777777777776655 8999999988 88888888888888743
No 29
>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]
Probab=25.98 E-value=3.7e+02 Score=26.27 Aligned_cols=75 Identities=16% Similarity=0.171 Sum_probs=42.8
Q ss_pred CCCCCccccCCceEEEEeCCCCCCCCccccCCCCCC-----Cccccc----------cccEEEEcCCcc--hhhhhHHHH
Q 023313 66 DGMQHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLRE-----PLMALK----------RADIAVVHHADL--ISEQNLKDI 128 (284)
Q Consensus 66 DGfQH~~L~RDl~Ivl~D~~~~fgng~lLPaG~LRE-----p~~~l~----------rAD~vvvt~~~~--~~~~~~~~i 128 (284)
+|++|++ +|-=++++....+..-.+|+=...... +.+.+. ...=|++||+|. +++.+++++
T Consensus 103 pgl~HrY--~drvLll~t~~C~vyCRyCfRr~~~~~~~~~~~~~~~~~al~YIa~hPeI~eVllSGGDPL~ls~~~L~~l 180 (369)
T COG1509 103 PGLTHRY--PDRVLLLVTGVCAVYCRYCFRRRFVGQDNQGFNKEEWDKALDYIAAHPEIREVLLSGGDPLSLSDKKLEWL 180 (369)
T ss_pred CCceeec--CCeEEEEecCcccceeeecccccccccccccCCHHHHHHHHHHHHcCchhheEEecCCCccccCHHHHHHH
Confidence 6889995 676777777665544444432222111 211111 122378888764 577888888
Q ss_pred HHHHHhhccCccEEE
Q 023313 129 ELEMRDIKKSLSIFF 143 (284)
Q Consensus 129 ~~~~~~~~~~~~vf~ 143 (284)
-++++.+ ++..++.
T Consensus 181 l~~L~~I-pHv~iiR 194 (369)
T COG1509 181 LKRLRAI-PHVKIIR 194 (369)
T ss_pred HHHHhcC-CceeEEE
Confidence 8888865 4444443
No 30
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=25.21 E-value=1.5e+02 Score=28.73 Aligned_cols=38 Identities=16% Similarity=0.065 Sum_probs=29.9
Q ss_pred cCCCeEEEEecCCChHHHHHHHHHhCCcccceecCCCCC
Q 023313 166 VCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHH 204 (284)
Q Consensus 166 l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~FpDHh 204 (284)
++|++++.+++-...-.+-+.|+++|++++.. ..+++|
T Consensus 285 l~gkrv~i~~~~~~~~~la~~l~elGm~v~~~-~~~~~~ 322 (410)
T cd01968 285 LEGKKAALYTGGVKSWSLVSALQDLGMEVVAT-GTQKGT 322 (410)
T ss_pred hCCCEEEEEcCCchHHHHHHHHHHCCCEEEEE-ecccCC
Confidence 68999988888778888889999999987644 444444
No 31
>KOG2839 consensus Diadenosine and diphosphoinositol polyphosphate phosphohydrolase [Signal transduction mechanisms]
Probab=23.65 E-value=82 Score=26.71 Aligned_cols=27 Identities=19% Similarity=0.405 Sum_probs=22.3
Q ss_pred cccCC-ceEEEEeCCCCCCCCccccCCCC
Q 023313 72 SLRRD-LEIVMVNGLMPWGNRKLLPLGPL 99 (284)
Q Consensus 72 ~L~RD-l~Ivl~D~~~~fgng~lLPaG~L 99 (284)
++.++ ++++|+.++++ +.++++|-|-+
T Consensus 18 r~~~~~ieVLlvsSs~~-~~~wi~PKGGw 45 (145)
T KOG2839|consen 18 RSDKEKIEVLLVSSSKK-PHRWIVPKGGW 45 (145)
T ss_pred eecCcceEEEEEecCCC-CCCccCCCCCC
Confidence 45665 99999999875 67899999976
No 32
>PRK00162 glpE thiosulfate sulfurtransferase; Validated
Probab=23.36 E-value=87 Score=23.92 Aligned_cols=14 Identities=21% Similarity=0.496 Sum_probs=11.8
Q ss_pred ccEEEecCCCCCcc
Q 023313 59 IGAVILDDGMQHWS 72 (284)
Q Consensus 59 ~dvIIlDDGfQH~~ 72 (284)
.+|.++++||+.|.
T Consensus 84 ~~v~~l~GG~~~w~ 97 (108)
T PRK00162 84 DVVYSIDGGFEAWR 97 (108)
T ss_pred hheEEecCCHHHHH
Confidence 46999999998874
No 33
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=23.32 E-value=2.2e+02 Score=20.06 Aligned_cols=39 Identities=26% Similarity=0.373 Sum_probs=26.2
Q ss_pred ccEEEecCCCCCccccCCceEEEEeCCCCCCCCccccCCCCCCCccccccccEEEEcC
Q 023313 59 IGAVILDDGMQHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHH 116 (284)
Q Consensus 59 ~dvIIlDDGfQH~~L~RDl~Ivl~D~~~~fgng~lLPaG~LREp~~~l~rAD~vvvt~ 116 (284)
..++++| |++++|.....+....+ ....+..+|.+++.-
T Consensus 28 ~~v~~~~------------d~iivD~~~~~~~~~~~-------~~~~~~~~~~vi~v~ 66 (99)
T cd01983 28 KRVLLID------------DYVLIDTPPGLGLLVLL-------CLLALLAADLVIIVT 66 (99)
T ss_pred CeEEEEC------------CEEEEeCCCCccchhhh-------hhhhhhhCCEEEEec
Confidence 7899999 99999986554433222 245677778766643
No 34
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=23.30 E-value=52 Score=27.96 Aligned_cols=22 Identities=32% Similarity=0.807 Sum_probs=11.5
Q ss_pred CceEEEEeCCCCCCCCccccCCCCCCCc
Q 023313 76 DLEIVMVNGLMPWGNRKLLPLGPLREPL 103 (284)
Q Consensus 76 Dl~Ivl~D~~~~fgng~lLPaG~LREp~ 103 (284)
+.+++ +|+- ||.|+- |+||++.
T Consensus 99 ~~dlI-IDal--~G~G~~---~~l~~~~ 120 (169)
T PF03853_consen 99 PADLI-IDAL--FGTGFS---GPLRGPI 120 (169)
T ss_dssp CESEE-EEES---STTGG---SCGSTCH
T ss_pred cccEE-EEec--ccCCCC---CCcCHHH
Confidence 45554 6763 555443 6666653
No 35
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=22.80 E-value=1.5e+02 Score=29.34 Aligned_cols=32 Identities=19% Similarity=0.111 Sum_probs=27.6
Q ss_pred cCCCeEEEEecCCChHHHHHHHHHhCCcccce
Q 023313 166 VCNANVLCVSAIGSANAFVQSLQKLGPCSVNR 197 (284)
Q Consensus 166 l~g~~v~a~sGIgnP~~F~~~L~~~G~~~~~~ 197 (284)
|+|+++++++|-..+-.+-+.|.++|++++..
T Consensus 324 L~Gkrv~i~~g~~~~~~l~~~l~elGmevv~~ 355 (456)
T TIGR01283 324 LKGKKAAIYTGGVKSWSLVSALQDLGMEVVAT 355 (456)
T ss_pred cCCCEEEEEcCCchHHHHHHHHHHCCCEEEEE
Confidence 78999988888888888999999999987643
No 36
>cd01444 GlpE_ST GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a catalytically active cysteine.
Probab=22.80 E-value=1.3e+02 Score=22.05 Aligned_cols=13 Identities=23% Similarity=0.588 Sum_probs=10.7
Q ss_pred ccEEEecCCCCCc
Q 023313 59 IGAVILDDGMQHW 71 (284)
Q Consensus 59 ~dvIIlDDGfQH~ 71 (284)
.+|.++++||.-|
T Consensus 82 ~~v~~l~gG~~~w 94 (96)
T cd01444 82 TDVRSLAGGFEAW 94 (96)
T ss_pred ceEEEcCCCHHHh
Confidence 4799999999765
No 37
>PLN02760 4-aminobutyrate:pyruvate transaminase
Probab=21.59 E-value=1.4e+02 Score=30.20 Aligned_cols=32 Identities=19% Similarity=0.511 Sum_probs=22.3
Q ss_pred EEEecC---CC---------CCccccCCceEEEEeCCCCCCCCccccCC
Q 023313 61 AVILDD---GM---------QHWSLRRDLEIVMVNGLMPWGNRKLLPLG 97 (284)
Q Consensus 61 vIIlDD---Gf---------QH~~L~RDl~Ivl~D~~~~fgng~lLPaG 97 (284)
++|+|+ || ||+-+.+| |+.+ ..++|+|+ +|.|
T Consensus 296 lLI~DEV~TGfGRtG~~~a~e~~gv~PD--ivtl--gK~lggG~-~Pig 339 (504)
T PLN02760 296 LFIADEVICAFGRLGTMFGCDKYNIKPD--LVSL--AKALSSAY-MPIG 339 (504)
T ss_pred EEEecchhhCCcccchhhHHHhcCCCCc--EEEe--cccccCCc-cccc
Confidence 678888 67 88888887 3333 46778875 5654
No 38
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=21.51 E-value=3.5e+02 Score=21.61 Aligned_cols=46 Identities=22% Similarity=0.367 Sum_probs=22.2
Q ss_pred CceEEEEeCCCCCCCCccccCCCCCCCcccc--ccccEEEEcCCcchhhhhH
Q 023313 76 DLEIVMVNGLMPWGNRKLLPLGPLREPLMAL--KRADIAVVHHADLISEQNL 125 (284)
Q Consensus 76 Dl~Ivl~D~~~~fgng~lLPaG~LREp~~~l--~rAD~vvvt~~~~~~~~~~ 125 (284)
|+=++++|+++|+..... .+-+-.... ..-=++|+||.|...+.+.
T Consensus 13 D~vl~ViD~~~p~~~~~~----~l~~~l~~~~~~k~~iivlNK~DL~~~~~~ 60 (141)
T cd01857 13 DIVVQIVDARNPLLFRPP----DLERYVKEVDPRKKNILLLNKADLLTEEQR 60 (141)
T ss_pred CEEEEEEEccCCcccCCH----HHHHHHHhccCCCcEEEEEechhcCCHHHH
Confidence 444668888877653210 000111111 2234677788876544433
No 39
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=21.16 E-value=2.9e+02 Score=21.63 Aligned_cols=38 Identities=8% Similarity=0.221 Sum_probs=22.9
Q ss_pred HHHHHHHHhCCcccceecCCCCCCCCHHHHHHHHHHHHH
Q 023313 182 AFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEE 220 (284)
Q Consensus 182 ~F~~~L~~~G~~~~~~~~FpDHh~ft~~dl~~i~~~a~~ 220 (284)
.+-+.|++.|..++.. .+..+-..+++|++++.+.+++
T Consensus 101 ~~~~~l~~~g~~~v~~-~~~~~~~p~~~~~~~~~~~~~~ 138 (140)
T TIGR01753 101 DWEERLKEAGATIIAE-GLKVDGDPEEEDLDKCREFAKD 138 (140)
T ss_pred HHHHHHHHCCCEEecC-CeeeecCCCHHHHHHHHHHHHH
Confidence 3455667778775442 3333445677888877665543
No 40
>PRK10537 voltage-gated potassium channel; Provisional
Probab=21.09 E-value=4.7e+02 Score=25.58 Aligned_cols=14 Identities=14% Similarity=0.159 Sum_probs=11.0
Q ss_pred ccccccEEEEcCCc
Q 023313 105 ALKRADIAVVHHAD 118 (284)
Q Consensus 105 ~l~rAD~vvvt~~~ 118 (284)
++++|++||++..+
T Consensus 299 gI~~A~aVI~~t~d 312 (393)
T PRK10537 299 GAARARAILALRDN 312 (393)
T ss_pred CcccCCEEEEcCCC
Confidence 57899999887644
No 41
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=20.98 E-value=68 Score=28.95 Aligned_cols=64 Identities=22% Similarity=0.311 Sum_probs=41.9
Q ss_pred CcccccCC--CCceEEEccchHHHHHHHHHHhCCCCCCcccccccccCCCCcccccccCcccEEEecCCCCCcc--ccCC
Q 023313 1 MLERHLLE--RPAKIGVGANRAATAASFIEKYGYVDPRDCASSQKNCINPKVGSHLKSGKIGAVILDDGMQHWS--LRRD 76 (284)
Q Consensus 1 ~l~~~l~~--~~~~v~V~~~R~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIIlDDGfQH~~--L~RD 76 (284)
.||+.+|. .-+-|=+.++|++-|+..+++.| +++ .+.+++-.|+.+-.. +.--
T Consensus 76 ~mA~~l~~~g~l~tiE~~~e~~~~A~~n~~~ag-~~~----------------------~i~~~~~gdal~~l~~~~~~~ 132 (219)
T COG4122 76 WMALALPDDGRLTTIERDEERAEIARENLAEAG-VDD----------------------RIELLLGGDALDVLSRLLDGS 132 (219)
T ss_pred HHHhhCCCCCeEEEEeCCHHHHHHHHHHHHHcC-Ccc----------------------eEEEEecCcHHHHHHhccCCC
Confidence 37788883 22455567889999999999887 222 234444346664433 4577
Q ss_pred ceEEEEeCCCC
Q 023313 77 LEIVMVNGLMP 87 (284)
Q Consensus 77 l~Ivl~D~~~~ 87 (284)
+|+|.+|+..+
T Consensus 133 fDliFIDadK~ 143 (219)
T COG4122 133 FDLVFIDADKA 143 (219)
T ss_pred ccEEEEeCChh
Confidence 88888888654
No 42
>KOG2948 consensus Predicted metal-binding protein [General function prediction only]
Probab=20.07 E-value=2.8e+02 Score=26.46 Aligned_cols=50 Identities=14% Similarity=0.250 Sum_probs=30.9
Q ss_pred ccEEEecCCCC-----------CccccCCceEEEEeCCCC--------CCCCccccCCCCCCCcccccc
Q 023313 59 IGAVILDDGMQ-----------HWSLRRDLEIVMVNGLMP--------WGNRKLLPLGPLREPLMALKR 108 (284)
Q Consensus 59 ~dvIIlDDGfQ-----------H~~L~RDl~Ivl~D~~~~--------fgng~lLPaG~LREp~~~l~r 108 (284)
-..|+++++|- -+.+...+..||....++ .--+...=.=||+||+.+|..
T Consensus 215 sG~i~v~~~~cPWk~hlfelE~e~~ie~~i~fvlf~d~~~~wRVqaVpv~p~sFe~R~pLp~~WRGLrd 283 (327)
T KOG2948|consen 215 SGIILVLKQFCPWKEHLFELEKEYKIEVKIKFVLFTDESGSWRVQAVPVDPGSFESRKPLPEPWRGLRD 283 (327)
T ss_pred CceEEEecCCCchHHHHHHHHHHhCCCcceEEEEEeCCCCcEEEEEEecCCCcccccCCCchhhccccc
Confidence 55888899885 344455666788775541 122333345578888877755
Done!