Query 022402
Match_columns 297
No_of_seqs 105 out of 473
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 03:15:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022402.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022402hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1578 Uncharacterized conser 100.0 3.3E-57 7.1E-62 404.9 23.9 251 5-292 28-284 (285)
2 PLN02902 pantothenate kinase 100.0 3.3E-55 7.1E-60 444.7 27.3 289 6-296 557-875 (876)
3 PF01937 DUF89: Protein of unk 100.0 3E-55 6.4E-60 418.4 15.9 264 20-288 61-354 (355)
4 KOG4584 Uncharacterized conser 100.0 1.4E-48 3.1E-53 352.8 20.6 286 5-290 61-348 (348)
5 KOG3870 Uncharacterized conser 100.0 3.5E-49 7.5E-54 369.0 15.4 267 4-279 93-403 (434)
6 TIGR03006 pepcterm_polyde poly 53.3 65 0.0014 29.7 7.7 105 129-245 29-134 (265)
7 KOG3218 RNA polymerase, 25-kDa 49.4 8.9 0.00019 33.9 1.3 20 272-291 172-191 (208)
8 PRK09570 rpoH DNA-directed RNA 45.6 13 0.00028 28.1 1.5 22 271-292 40-61 (79)
9 PF01191 RNA_pol_Rpb5_C: RNA p 44.0 14 0.00031 27.5 1.5 21 271-291 37-57 (74)
10 cd01080 NAD_bind_m-THF_DH_Cycl 42.7 1.1E+02 0.0023 26.3 6.9 34 142-180 44-77 (168)
11 PF08361 TetR_C_2: MAATS-type 36.0 2.2E+02 0.0047 22.5 9.2 86 6-101 6-99 (121)
12 PF11576 DUF3236: Protein of u 33.0 26 0.00056 29.5 1.5 29 225-253 75-104 (154)
13 COG2012 RPB5 DNA-directed RNA 32.0 30 0.00065 26.1 1.6 19 273-291 45-63 (80)
14 COG1737 RpiR Transcriptional r 31.6 4.1E+02 0.0089 24.4 12.9 122 48-180 91-213 (281)
15 COG0698 RpiB Ribose 5-phosphat 30.8 66 0.0014 27.3 3.6 31 144-177 2-32 (151)
16 PHA02053 hypothetical protein 30.2 42 0.00092 26.4 2.2 36 216-253 56-91 (115)
17 KOG2199 Signal transducing ada 29.2 3.4E+02 0.0074 26.9 8.5 53 1-62 20-72 (462)
18 PLN03111 DNA-directed RNA poly 27.5 37 0.0008 30.3 1.6 22 271-292 169-190 (206)
19 CHL00073 chlN photochlorophyll 27.1 3.3E+02 0.0072 27.3 8.4 46 128-184 303-348 (457)
20 PRK12446 undecaprenyldiphospho 26.8 1.2E+02 0.0025 28.9 5.1 40 143-183 2-41 (352)
21 PTZ00061 DNA-directed RNA poly 26.7 38 0.00083 30.2 1.6 21 271-291 168-188 (205)
22 PLN03050 pyridoxine (pyridoxam 26.6 1.9E+02 0.0041 26.4 6.1 32 143-178 61-94 (246)
23 COG0062 Uncharacterized conser 26.1 1.8E+02 0.0039 25.9 5.7 43 142-189 49-96 (203)
24 COG1921 SelA Selenocysteine sy 25.8 1.3E+02 0.0029 29.5 5.2 90 144-253 133-225 (395)
25 cd01079 NAD_bind_m-THF_DH NAD 24.1 3.6E+02 0.0078 23.9 7.2 31 142-177 62-92 (197)
26 PF01522 Polysacc_deac_1: Poly 23.4 2.1E+02 0.0046 21.8 5.2 101 128-244 18-120 (123)
27 COG4019 Uncharacterized protei 22.4 81 0.0018 26.1 2.6 15 239-253 91-105 (156)
28 PF03033 Glyco_transf_28: Glyc 22.0 1.5E+02 0.0032 23.3 4.2 27 152-179 8-34 (139)
29 PF00070 Pyr_redox: Pyridine n 21.0 3.2E+02 0.0069 19.5 5.6 38 163-201 14-52 (80)
30 PRK11557 putative DNA-binding 20.8 6.2E+02 0.013 22.7 12.5 95 80-180 116-211 (278)
31 COG0528 PyrH Uridylate kinase 20.7 2.6E+02 0.0056 25.6 5.7 77 163-253 87-168 (238)
32 KOG3349 Predicted glycosyltran 20.6 1.5E+02 0.0033 25.5 3.9 23 230-252 69-91 (170)
33 PF03853 YjeF_N: YjeF-related 20.2 1.9E+02 0.0041 24.5 4.6 31 142-176 25-57 (169)
34 PF02684 LpxB: Lipid-A-disacch 20.2 2E+02 0.0042 28.0 5.2 42 132-179 73-116 (373)
35 PF07592 DDE_Tnp_ISAZ013: Rhod 20.1 1.3E+02 0.0028 28.7 3.7 50 125-175 162-218 (311)
No 1
>COG1578 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.3e-57 Score=404.94 Aligned_cols=251 Identities=23% Similarity=0.303 Sum_probs=226.1
Q ss_pred HHHHHHHHHHHHcccCCCCCCCchHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHH
Q 022402 5 ELRNLLKEILEDMKKDPETHGGPPDCILLCRLREQVLRELGFRDIFKKVKDEENAKAISLFGDVVRLNDVIEDEGKRVES 84 (297)
Q Consensus 5 ~~~~~~~~~~~~l~~~~~~~~~~~e~~l~~~i~~~~~~~~g~~DPf~~~K~~~n~~a~~~~~~l~~~l~~~~~~~~~l~~ 84 (297)
.+|.++.+.++.+++.......|+ ++..++|+.+++++|+.|||++.|+++|+.|++.++.+++. +++..++|.+
T Consensus 28 ~~~~~~~~~~~lls~~y~~~~~~a--~~~t~ihr~v~k~~g~eDPyke~K~r~NeiA~~vl~~vr~~---~~~~~~dl~~ 102 (285)
T COG1578 28 LRSRIMSEALKLLSEEYGESAVPA--IAGTLIHREVYKILGNEDPYKEYKRRANEIALKVLPKVREN---IEDTPEDLKT 102 (285)
T ss_pred HHHHHHHHHHHHHHhhhCcCCCcH--HHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHHHhc---ccCChHHHHH
Confidence 489999999998888522233334 49999999999999999999999999999999999999873 3444578999
Q ss_pred HHHHHHhhhhhhccchhhhhhhcccCCCHHHHHhhhCCCCCccCcHHHHHHHhccCCCCeEEEEecCCChhhhhchHHHH
Q 022402 85 LIRGIFAGNIFDLGSAQLAEVFSKDGMSFLASCQNLVPRPWVIDDLETFKVKWSKKAWKKAVIFVDNSGADIILGILPFA 164 (297)
Q Consensus 85 ~lr~al~GN~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dd~~~l~~~L~~~~~~~i~~i~DNaGeeiv~Dll~L~ 164 (297)
++++|+.||.||||+.+.. .+++++.+.++++.++.+||++.+.+.|++ + +|+||+||||| ++||++ |+
T Consensus 103 Avk~ai~GN~iDfgv~G~~------~~~lee~~~~~~~~~l~i~d~~k~~~~l~~--a-~VlYl~DNaGE-i~FD~v-li 171 (285)
T COG1578 103 AVKLAIVGNVIDFGVLGFS------PFDLEEEVEKLLDAELYIDDSPKLLELLKN--A-SVLYLTDNAGE-IVFDKV-LI 171 (285)
T ss_pred HHHHHHHhcceeeccccCC------HhHHHHHHHHhhcCcccccchHHHHHHhcc--C-cEEEEecCCcc-HHHHHH-HH
Confidence 9999999999999998631 367889999999999999999999999985 3 99999999998 999997 99
Q ss_pred HHHHhCCCEEEEEecCCcccccCChHHHHHHHHHhhhhhhhhccccccceeecccCCcccCcCcccccHHHHHHhccCcE
Q 022402 165 RELLRRGTQVILAANDLPSINDVTYPELIEIMSKLKDEKGQLMGVDTSKLLIANSGNDLPVIDLTAVSQELAYLASDADL 244 (297)
Q Consensus 165 ~~L~~~g~~V~~~vK~~P~vnDvT~~D~~~~l~~l~~~d~~l~~l~~~~~~vi~~G~~~~~~~l~~~s~el~~~l~~aDL 244 (297)
+.+.++|.+|+++||++|++||||++|+... ++++ .++||+||+..+|..+.++|.||+++|.+||+
T Consensus 172 e~ik~~~~~vv~vVrg~PIlnDaT~EDak~~------------~i~~-i~~vittG~~~vGi~l~d~s~Ef~~~f~~adl 238 (285)
T COG1578 172 EVIKELGKKVVVVVRGGPILNDATMEDAKEA------------GIDE-IAKVITTGSDIVGIWLEDVSEEFREAFESADL 238 (285)
T ss_pred HHHHhcCCceEEEEcCCceechhhHHHHHHc------------Ccch-hheeecCCCCcceeeHHhccHHHHHHhccCCE
Confidence 9999999999999999999999999999975 8887 67999999999999999999999999999999
Q ss_pred EEEecCCCCC------CcccceeeccccccccccCCHHHHHHhCCcccCEEEEe
Q 022402 245 VILEGMGRGI------ETNLYAQFKCDSLKIGMVKHPEVAQFLGGRLYDCVFKY 292 (297)
Q Consensus 245 VI~KG~~Ny~------~~~i~~~f~~~~l~l~~~KC~~va~~lg~~~~~~v~~~ 292 (297)
||+||||||+ ++++||+| +|||++||+.+|||+|+.|++.
T Consensus 239 IIaKG~gNfE~LsE~~~~piffLL--------~AKC~~VAr~lgV~~G~~V~~~ 284 (285)
T COG1578 239 IIAKGQGNFETLSEEEDKPIFFLL--------KAKCDPVARELGVPRGANVAKR 284 (285)
T ss_pred EEecCccccccccccCCCcEEeee--------cccCchHHHHhCCCCCCeeeec
Confidence 9999999993 35898877 6999999999999999999985
No 2
>PLN02902 pantothenate kinase
Probab=100.00 E-value=3.3e-55 Score=444.74 Aligned_cols=289 Identities=42% Similarity=0.706 Sum_probs=256.3
Q ss_pred HHHHHHHHHHHcccCCCCCCCchHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHH
Q 022402 6 LRNLLKEILEDMKKDPETHGGPPDCILLCRLREQVLRELGFRDIFKKVKDEENAKAISLFGDVVRLNDVIEDEGKRVESL 85 (297)
Q Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~e~~l~~~i~~~~~~~~g~~DPf~~~K~~~n~~a~~~~~~l~~~l~~~~~~~~~l~~~ 85 (297)
+...|.+.++.+.++|..++++ .|....++++.+++.+|..|||+++|+++|+.|++.++.+.+.++.++ .+++|.++
T Consensus 557 F~~~y~~~L~~l~~~p~a~G~~-~~~~Ll~~rE~~Lre~Gf~DPY~~vK~~eN~~AL~llp~l~~~ld~~~-~edrL~~a 634 (876)
T PLN02902 557 FARAFSAHLARLMEEPAAYGKL-GLANLLELREECLREFHFVDAYRSIKQRENEASLAVLPDLLAELDSMT-EETRLLTL 634 (876)
T ss_pred HHHHHHHHHHHHHhCccccCCc-hHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHHHHHHHHHHhcCC-cchHHHHH
Confidence 6678889999998887765554 588999999999999999999999999999999999999999987666 35899999
Q ss_pred HHHHHhhhhhhccchhhhhhhccc-CCCHHHHHhhhCCCCCccCcHHHHHHHhcc------CCCCeEEEEecCCChhhhh
Q 022402 86 IRGIFAGNIFDLGSAQLAEVFSKD-GMSFLASCQNLVPRPWVIDDLETFKVKWSK------KAWKKAVIFVDNSGADIIL 158 (297)
Q Consensus 86 lr~al~GN~~D~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~dd~~~l~~~L~~------~~~~~i~~i~DNaGeeiv~ 158 (297)
+|++++||+||||+....+..+.+ .+++.+.+++.++++|.+||+++|+++|.. .++++++|++||||+||||
T Consensus 635 Vk~aiAGNifD~Ga~~~v~l~~~~~~~~~~~~~~~~~~rpw~iDD~d~f~erL~~~~~~~~~~~KkvLyf~DNAGaEIVL 714 (876)
T PLN02902 635 IEGVLAANIFDWGSRACVELYHKGTIIEIYRMSRNKMQRPWRVDDFDAFKERMLGSGGKKPKPHKRALLFVDNSGADVVL 714 (876)
T ss_pred HHHHHHHhhhhhhhhhhhhhccccchhhHHHHHHHhhcCCCccCCHHHHHHHHhhcccccCCCccEEEEEecCCCCceec
Confidence 999999999999987554443322 246778888888999999999999999974 2578999999999977999
Q ss_pred chHHHHHHHHhCCCEEEEEecCCcccccCChHHHHHHHHHhhhhhhhhc--------------cccc--------cceee
Q 022402 159 GILPFARELLRRGTQVILAANDLPSINDVTYPELIEIMSKLKDEKGQLM--------------GVDT--------SKLLI 216 (297)
Q Consensus 159 Dll~L~~~L~~~g~~V~~~vK~~P~vnDvT~~D~~~~l~~l~~~d~~l~--------------~l~~--------~~~~v 216 (297)
|++|||++|+++|.+|+++||+.|++||||++|+..+++.++..++.+. ++++ .++.|
T Consensus 715 D~LpLiRELl~rgtkV~lavng~PiINDvT~eDl~~~~~~~a~~~~~l~~A~~aG~~~~~~~~~ld~~~~~~~~~~~l~V 794 (876)
T PLN02902 715 GMLPLARELLRRGTEVVLVANSLPALNDVTAMELPDIVAEAAKHCDILRRAAEAGGLLVDAMVNTDDGSKDDSTSVPLMV 794 (876)
T ss_pred ChHHHHHHHHHcCCEEEEEECCCCchhhhhHHHHHHHHHHHhhcccHHHHHHHhcccccccccccccccccccccceEEE
Confidence 9988999999999999999999999999999999998888765433321 2342 46899
Q ss_pred cccCCcccCcCcccccHHHHHHhccCcEEEEecCCCCCCcccceeeccccccccccCCHHHHHHh-CCcccCEEEEeccC
Q 022402 217 ANSGNDLPVIDLTAVSQELAYLASDADLVILEGMGRGIETNLYAQFKCDSLKIGMVKHPEVAQFL-GGRLYDCVFKYNEV 295 (297)
Q Consensus 217 i~~G~~~~~~~l~~~s~el~~~l~~aDLVI~KG~~Ny~~~~i~~~f~~~~l~l~~~KC~~va~~l-g~~~~~~v~~~~~~ 295 (297)
++||+..||++++++|+||.+++++|||||+||||.-+|+|++..|+|++|||+|+|.+++|++| |.+++||||+++++
T Consensus 795 V~SG~~sPGidL~rvS~E~~~a~~~ADLIIaKGMGRaihTN~~a~f~cd~LklamiK~~~lA~~L~gG~~ydcV~k~e~~ 874 (876)
T PLN02902 795 VENGCGSPCIDLRQVSSELAAAAKDADLIVLEGMGRALHTNFNARFKCEALKLAMVKNQRLAEKLINGNIYDCVCRYEPA 874 (876)
T ss_pred EcCCCCCCCcChHHCCHHHHHHhcCCCEEEEcCcccccccccccceecchhHHhHhccHHHHhhccCCceEEEEEecccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999 99999999999987
Q ss_pred C
Q 022402 296 S 296 (297)
Q Consensus 296 ~ 296 (297)
+
T Consensus 875 ~ 875 (876)
T PLN02902 875 S 875 (876)
T ss_pred C
Confidence 6
No 3
>PF01937 DUF89: Protein of unknown function DUF89; InterPro: IPR002791 This entry contains uncharacterised proteins. Those with structural information consist of two domains: an all-alpha domain with a 3-helical bundle fold, and an alpha-beta domain in 3 layers, alpha/beta/alpha. ; PDB: 2FFJ_B 1XFI_A 2Q40_A 2G8L_B 3PT1_A.
Probab=100.00 E-value=3e-55 Score=418.43 Aligned_cols=264 Identities=28% Similarity=0.342 Sum_probs=201.1
Q ss_pred CCCCCCCc---hHHHHHHHHHHHHH--HhcCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhhhh
Q 022402 20 DPETHGGP---PDCILLCRLREQVL--RELGFRDIFKKVKDEENAKAISLFGDVVRLNDVIEDEGKRVESLIRGIFAGNI 94 (297)
Q Consensus 20 ~~~~~~~~---~e~~l~~~i~~~~~--~~~g~~DPf~~~K~~~n~~a~~~~~~l~~~l~~~~~~~~~l~~~lr~al~GN~ 94 (297)
.++|+..| .+||+||++++++. ..++++|||+++|+++|+.|++.++.+.+.++++++..+.|.+++++|+|||.
T Consensus 61 ~~~w~~~pWL~~e~ylyr~i~~~~~~~~~~~~~DPf~~~K~~~~~~al~~~~~l~~~l~~~~~~~~~~~~~l~~al~GN~ 140 (355)
T PF01937_consen 61 GPTWFNAPWLFAECYLYRRILEIFGYSSYLKNYDPFAEQKQESNEIALKLIPELAERLESLPDPRERFREALKLALWGNI 140 (355)
T ss_dssp T-BTTBSBHHHHHHHHHHHHHHHHTHSTTTTTS-TTHHHHHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHCG
T ss_pred cccccccchHHHHHHHHHHHHHhcccccccCCCCchHHHHHHHHHHHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHhcC
Confidence 35667777 79999999998886 67889999999999999999999999999988776655679999999999999
Q ss_pred hhccchhhhhhhcccCCCHHHHHhhhCCCCCccCcHHHHHHHhccCCCCeEEEEecCCChhhhhchHHHHHHHHh--CCC
Q 022402 95 FDLGSAQLAEVFSKDGMSFLASCQNLVPRPWVIDDLETFKVKWSKKAWKKAVIFVDNSGADIILGILPFARELLR--RGT 172 (297)
Q Consensus 95 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dd~~~l~~~L~~~~~~~i~~i~DNaGeeiv~Dll~L~~~L~~--~g~ 172 (297)
+|+|+.+..+.. ..+....+.+..+++|++||++++|+.|.+.++++|+||+||||.|+|+|++ ||++|++ +|.
T Consensus 141 ~Dls~~~~~~~~---~~~~~~~~~~~~~~~~l~dd~~~~~~~l~~~~~~~v~~v~DNaG~Elv~D~l-l~~~L~~~~~~~ 216 (355)
T PF01937_consen 141 IDLSLSPGHEVG---EFDQEEEIEKALEKPILVDDSDEFWEKLENKKAKRVDIVLDNAGFELVFDLL-LAEFLLESGPGS 216 (355)
T ss_dssp --CCCHTSHHCH---HHHHHHHHHHHHHSTESEE-HHHHHHHHCTCHTSEEEEE--BTTHHHHHHHH-HHHHHHHTCTTS
T ss_pred cccCccccchhc---ccchHHHHHHhhhcCCccccHHHHHHHhhccCCCEEEEEEcCCCcHHHhhHH-HHHHHHHhCCCC
Confidence 999998721111 1233455556668899999999999999443468999999999966999999 9999999 789
Q ss_pred EEEEEecCCc-ccccCChHHHHHHHHHhhhhh-hh----hccccc--cceeecccCCc--ccCcCcccccHHHHHHhccC
Q 022402 173 QVILAANDLP-SINDVTYPELIEIMSKLKDEK-GQ----LMGVDT--SKLLIANSGND--LPVIDLTAVSQELAYLASDA 242 (297)
Q Consensus 173 ~V~~~vK~~P-~vnDvT~~D~~~~l~~l~~~d-~~----l~~l~~--~~~~vi~~G~~--~~~~~l~~~s~el~~~l~~a 242 (297)
+|++|||++| |+||||++|+.|+|+++..++ .. ..++++ ...+++.+|.. ++|++++++|+++++.|++|
T Consensus 217 ~V~~~vK~~P~~vnDvT~~D~~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~fw~~~~~~~~~~~el~~~l~~a 296 (355)
T PF01937_consen 217 KVVFHVKGIPWFVNDVTMEDAEWLLERLADSDDFSLSALGKGLDKYLESGRVIVSGDDFWTPGLDLWEMSPELYEELSEA 296 (355)
T ss_dssp EEEEEEBSS--TTTB-BHHHHHHHHHHHH-TTTCHHHHHHTTHHHHHHTSEEEEESSCGGSSS--CCGSHHHHHHHHCC-
T ss_pred eEEEEECCCCCeeccCcHHHHHHHHHHHHhcccccccccccchhhccccCeEEecCCCccCCCCChHHcCHHHHHHHhhC
Confidence 9999999999 999999999999999999753 32 223332 12346666655 99999999999999999999
Q ss_pred cEEEEecCCCCC----Ccccc---------eeeccccccccccCCHHHHHHhCCcccCE
Q 022402 243 DLVILEGMGRGI----ETNLY---------AQFKCDSLKIGMVKHPEVAQFLGGRLYDC 288 (297)
Q Consensus 243 DLVI~KG~~Ny~----~~~i~---------~~f~~~~l~l~~~KC~~va~~lg~~~~~~ 288 (297)
||||+||||||. +.+.- -.+.+|+++|+++||++||+.+ +++|+.
T Consensus 297 dLVI~KG~~Nyr~L~~d~~~~~t~~f~~~~~~~p~~i~~L~~~Kc~~va~~~-~~~~d~ 354 (355)
T PF01937_consen 297 DLVIFKGDLNYRKLLGDRNWPPTTPFKTALGFFPAPILFLRTVKCDVVAGLL-VGQGDK 354 (355)
T ss_dssp SEEEEEHHHHHHHHTTSCTTTTTSEHHHHTGTSS--EEEEEE--SHHHHHHH-STTTHC
T ss_pred CEEEEeCCHHHhhhhcCcCCCCCCCccccchhHHHHHHHhHhhCCHHHhCCC-ccCcCC
Confidence 999999999992 11110 1345567778899999999999 988874
No 4
>KOG4584 consensus Uncharacterized conserved protein [General function prediction only]
Probab=100.00 E-value=1.4e-48 Score=352.77 Aligned_cols=286 Identities=59% Similarity=0.949 Sum_probs=267.5
Q ss_pred HHHHHHHHHHHHcccCCCCCCCchHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHH
Q 022402 5 ELRNLLKEILEDMKKDPETHGGPPDCILLCRLREQVLRELGFRDIFKKVKDEENAKAISLFGDVVRLNDVIEDEGKRVES 84 (297)
Q Consensus 5 ~~~~~~~~~~~~l~~~~~~~~~~~e~~l~~~i~~~~~~~~g~~DPf~~~K~~~n~~a~~~~~~l~~~l~~~~~~~~~l~~ 84 (297)
++-..|-+.++.+.++|..+|.||-|....++++.+.+.+|..|||.++|+++|..|++.+|.+.+.++.+.+.+.++.+
T Consensus 61 ~F~~~y~~~Le~lk~~P~a~G~~~~g~~Ll~lRE~~LrE~gF~Diy~kvK~~ENa~Aia~fP~vv~~lDal~dE~~Rle~ 140 (348)
T KOG4584|consen 61 KFAQRYAGILEDLKKDPEAYGGPPLGINLLRLREQILRELGFRDIYKKVKDEENAKAIALFPQVVRLLDALEDEGTRLEN 140 (348)
T ss_pred HHHHHHHHHHHHHHhChHhcCCCcchHHHHHHHHHHHHHhCCccHHHHHHHhhhhhHHHHhHHHHHHHhhhcchhHHHHH
Confidence 35667888888988888889999999999999999999999999999999999999999999999999999887789999
Q ss_pred HHHHHHhhhhhhccchhhhhhhccc-CCCHHHHHhhhCCCCCccCcHHHHHHHhccCCCCeEEEEecCCChhhhhchHHH
Q 022402 85 LIRGIFAGNIFDLGSAQLAEVFSKD-GMSFLASCQNLVPRPWVIDDLETFKVKWSKKAWKKAVIFVDNSGADIILGILPF 163 (297)
Q Consensus 85 ~lr~al~GN~~D~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~dd~~~l~~~L~~~~~~~i~~i~DNaGeeiv~Dll~L 163 (297)
++|..++||+||||+.....+.+.+ .+.|..++++++++||++|+++.+.++|.+.++++++++.||||.++++.++|+
T Consensus 141 LvrGilAGNiFDwGa~~~~~il~~~~~f~f~~a~~~l~~RPWl~D~ld~f~~r~~~~p~K~~lif~DNSG~DvILGilPf 220 (348)
T KOG4584|consen 141 LVRGILAGNIFDWGAKAVVKILESASVFGFLAALQNLESRPWLVDDLDSFLARLKGKPHKCALIFVDNSGFDVILGILPF 220 (348)
T ss_pred HHHHHHhcchhhhHHHHHHHHHhccccchHHHHHhhhhcCCeeeccHHHHHHHhcCCCcceEEEEecCCCcceeeeecHH
Confidence 9999999999999998766666544 467899999999999999999999999998888999999999999999999999
Q ss_pred HHHHHhCCCEEEEEecCCcccccCChHHHHHHHHHhhhhhh-hhccccccceeecccCCcccCcCcccccHHHHHHhccC
Q 022402 164 ARELLRRGTQVILAANDLPSINDVTYPELIEIMSKLKDEKG-QLMGVDTSKLLIANSGNDLPVIDLTAVSQELAYLASDA 242 (297)
Q Consensus 164 ~~~L~~~g~~V~~~vK~~P~vnDvT~~D~~~~l~~l~~~d~-~l~~l~~~~~~vi~~G~~~~~~~l~~~s~el~~~l~~a 242 (297)
+++|++.|.+|+++..+.|.+||||..++..++..++.++. ...+++.+.+.++.+|+..|+++|.++|.|+...-++|
T Consensus 221 ~Rellr~gt~vil~ans~palNdvt~~el~~l~~~~~~~~~~l~~~~~~~~ll~~~~G~~~pciDlrrvsqeLa~l~~da 300 (348)
T KOG4584|consen 221 ARELLRRGTEVILCANSSPALNDVTYSELKELAAELANDCNVLLKAIDTGQLLVVQNGQDSPCIDLRRVSQELAYLSSDA 300 (348)
T ss_pred HHHHHhCCCeEEEEecCcchhccccHHHHHHHHHhhccCChHHHHHhhhcceEEeecCCCCceeeHHhhhHHHHHHhcCC
Confidence 99999999999999999999999999999999999997544 45678877899999999999999999999999999999
Q ss_pred cEEEEecCCCCCCcccceeeccccccccccCCHHHHHHhCCcccCEEE
Q 022402 243 DLVILEGMGRGIETNLYAQFKCDSLKIGMVKHPEVAQFLGGRLYDCVF 290 (297)
Q Consensus 243 DLVI~KG~~Ny~~~~i~~~f~~~~l~l~~~KC~~va~~lg~~~~~~v~ 290 (297)
||||..|||..+|+|.+..|+|++||+.++|..++|++||..++++||
T Consensus 301 DLVViEGMGRalhTN~~aqf~CeSLK~avik~~wlA~~LGgrlf~vVf 348 (348)
T KOG4584|consen 301 DLVVIEGMGRALHTNLNAQFKCESLKLAVIKNLWLAERLGGRLFSVVF 348 (348)
T ss_pred CEEEEeccchhhhhhhhhhhcccHhHHHHHhhHHHHHHhCCchheecC
Confidence 999999999999999999999999999999999999999999999986
No 5
>KOG3870 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.5e-49 Score=368.96 Aligned_cols=267 Identities=19% Similarity=0.230 Sum_probs=224.8
Q ss_pred HHHHHHHHHHHHHccc-CCCCCCCc---hHHHHHHHHHHHHH--HhcCCCCchHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 022402 4 SELRNLLKEILEDMKK-DPETHGGP---PDCILLCRLREQVL--RELGFRDIFKKVKDEENAKAISLFGDVVRLNDVIED 77 (297)
Q Consensus 4 ~~~~~~~~~~~~~l~~-~~~~~~~~---~e~~l~~~i~~~~~--~~~g~~DPf~~~K~~~n~~a~~~~~~l~~~l~~~~~ 77 (297)
++.||.+.+ .+++ ..+|+..| +||||||||+.+|. ..+..+|||.++|++....+...+..+..+++.+..
T Consensus 93 ~d~wN~~L~---~l~~~~~~wf~a~WL~aECYlYRrI~s~F~~s~~l~~yD~F~~~K~~~~~~s~~~i~ela~~~~~l~~ 169 (434)
T KOG3870|consen 93 IDSWNEFLK---KLPEAKRTWFKAPWLHAECYLYRRISSIFQRSSELKKYDYFFDQKESTLTSSLPAIEELAKRTRGLER 169 (434)
T ss_pred HHHHHHHHH---hCChhhhhhccchhhhhhHHHHHHHHHHHHhhhhhhhcChHHHHhHHHHhhhHHHHHHHHHHHHhhhh
Confidence 457887777 5555 35778888 99999999999996 478999999999999999999999999988888776
Q ss_pred hhH----HHHHHHHHHHhhhhhhccchhhhhhhcccCCCHHHHHhhhCCCCCccCcHHHHHHHhccC---CCCeEEEEec
Q 022402 78 EGK----RVESLIRGIFAGNIFDLGSAQLAEVFSKDGMSFLASCQNLVPRPWVIDDLETFKVKWSKK---AWKKAVIFVD 150 (297)
Q Consensus 78 ~~~----~l~~~lr~al~GN~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dd~~~l~~~L~~~---~~~~i~~i~D 150 (297)
+.+ .|.+++|+++|||.+|+|+.++.+..+ +....+.+.+. ++.+++||++.+|+.|.++ ++++|++|+|
T Consensus 170 ~~~~~~~~F~~llkisLWGN~~Dlsl~~~~~~~~--~~q~~~~va~~-~~~iLvnd~~~vW~~L~~~k~s~~~rVDfVlD 246 (434)
T KOG3870|consen 170 SLESIHEVFVELLKISLWGNATDLSLNGGTESKQ--NIQVLKAVADL-DEFILVNDTEDVWSKLSNAKHSRNGRVDFVLD 246 (434)
T ss_pred hhhHHHHHHHHHHHHhhhcccccccccccccccc--hhHHHHHHHhh-ccceeecChHHHHHHhhcchhcCCceEEEEEe
Confidence 666 899999999999999999966533222 23445666654 7889999999999999876 5679999999
Q ss_pred CCChhhhhchHHHHHHHHhCC--CEEEEEecCCc-ccccCChHHHHHHHHHhhh-hhhhhccccccceeecccC------
Q 022402 151 NSGADIILGILPFARELLRRG--TQVILAANDLP-SINDVTYPELIEIMSKLKD-EKGQLMGVDTSKLLIANSG------ 220 (297)
Q Consensus 151 NaGeeiv~Dll~L~~~L~~~g--~~V~~~vK~~P-~vnDvT~~D~~~~l~~l~~-~d~~l~~l~~~~~~vi~~G------ 220 (297)
|||+|++.|++ ||++|++.| .+|+||||+.| ||||||.+|+.|+|+.|.+ .+..++.+++.+...+.+|
T Consensus 247 NaGfEL~~DLi-lAeyli~~glA~kV~fH~KaiPWFVSDvt~~Df~wll~~L~~~~~~~ls~~g~k~~~~~~~Gk~vl~~ 325 (434)
T KOG3870|consen 247 NAGFELFTDLI-LAEYLISSGLATKVRFHVKAIPWFVSDVTEKDFDWLLEFLRDHEDEELSAFGKKLEKFIKEGKIVLRP 325 (434)
T ss_pred CCccchhHHHH-HHHHHHhccccceEEEcccCCceeeecccccchHHHHHHHhccCcHHHHHHHHHHHHHHhcCcEEEcc
Confidence 99999999999 999999998 89999999999 8999999999999999996 4666666666666677777
Q ss_pred -----CcccCcCcccccHHHHHHhccCcEEEEecCCCC--C-------Cc-------ccceeeccccccccccCCHHHHH
Q 022402 221 -----NDLPVIDLTAVSQELAYLASDADLVILEGMGRG--I-------ET-------NLYAQFKCDSLKIGMVKHPEVAQ 279 (297)
Q Consensus 221 -----~~~~~~~l~~~s~el~~~l~~aDLVI~KG~~Ny--~-------~~-------~i~~~f~~~~l~l~~~KC~~va~ 279 (297)
+++++..|+++.|+++..+++|+||||||++|| + .+ +=|. .|+..-|+++||++++.
T Consensus 326 ~~FWTsph~y~~M~~~~p~Ly~~L~~S~LvIFKGDLNYRKL~GD~~W~~Tt~F~t~Lrgf~--p~n~caLRTiKadvv~G 403 (434)
T KOG3870|consen 326 HYFWTSPHDYYRMPQVAPDLYDDLQKSSLVIFKGDLNYRKLTGDRKWDPTTPFSTALRGFA--PSNICALRTIKADVVVG 403 (434)
T ss_pred CccccCcchhhcccccchHHHHHHhhCcEEEEeccccHHHHhccCCCCCCCcHHHHhCCCC--CCccceeeeeeeeeeec
Confidence 457899999999999999999999999999999 1 11 1111 67777899999999863
No 6
>TIGR03006 pepcterm_polyde polysaccharide deactylase family protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide deacetylases (pfam01522). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene. The highest scoring homologs below the trusted cutoff for this model are found in several species of Methanosarcina, an archaeal genus.
Probab=53.25 E-value=65 Score=29.69 Aligned_cols=105 Identities=9% Similarity=0.017 Sum_probs=64.1
Q ss_pred cHHHHHHHhccCCCC-eEEEEecCCChhhhhchHHHHHHHHhCCCEEEEEecCCcccccCChHHHHHHHHHhhhhhhhhc
Q 022402 129 DLETFKVKWSKKAWK-KAVIFVDNSGADIILGILPFARELLRRGTQVILAANDLPSINDVTYPELIEIMSKLKDEKGQLM 207 (297)
Q Consensus 129 d~~~l~~~L~~~~~~-~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~~P~vnDvT~~D~~~~l~~l~~~d~~l~ 207 (297)
.+.++.+.|++.+-+ ++.+++.++.. .-+ +++.+.+.|++|-.|.-+++.+++.|.+++..-|.+.... +.
T Consensus 29 nt~riL~lL~~~gikATFFv~g~~~e~--~p~---lir~i~~~GhEIgsHg~sH~~l~~ls~ee~~~eI~~s~~~---Le 100 (265)
T TIGR03006 29 NTDRILDLLDRHGVKATFFTLGWVAER--YPE---LVRRIVAAGHELASHGYGHERVTTQTPEAFRADIRRSKAL---LE 100 (265)
T ss_pred hHHHHHHHHHHcCCcEEEEEeccchhh--CHH---HHHHHHHcCCEeeeccccCcCchhCCHHHHHHHHHHHHHH---HH
Confidence 466777777654333 55555554433 223 4589999999999999999988999988877655443321 11
Q ss_pred cccccceeecccCCcccCcCcccccHHHHHHhccCcEE
Q 022402 208 GVDTSKLLIANSGNDLPVIDLTAVSQELAYLASDADLV 245 (297)
Q Consensus 208 ~l~~~~~~vi~~G~~~~~~~l~~~s~el~~~l~~aDLV 245 (297)
.+.. .-..|-..|+......++...+.++++...
T Consensus 101 ~itG----~~~~gfRaP~~s~~~~t~~a~~iL~e~Gy~ 134 (265)
T TIGR03006 101 DLSG----QPVRGYRAPSFSIGKKNLWALDVLAEAGYR 134 (265)
T ss_pred HHhC----CCceEEECCCCCCCCCcHHHHHHHHHCCCE
Confidence 1110 112345566666666665556666665433
No 7
>KOG3218 consensus RNA polymerase, 25-kDa subunit (common to polymerases I, II and III) [Transcription]
Probab=49.35 E-value=8.9 Score=33.87 Aligned_cols=20 Identities=25% Similarity=0.187 Sum_probs=18.1
Q ss_pred cCCHHHHHHhCCcccCEEEE
Q 022402 272 VKHPEVAQFLGGRLYDCVFK 291 (297)
Q Consensus 272 ~KC~~va~~lg~~~~~~v~~ 291 (297)
-||+|||+++|.+.|++|=+
T Consensus 172 q~~DpvaRYyGLKrGqVVKI 191 (208)
T KOG3218|consen 172 QKKDPVARYYGLKRGQVVKI 191 (208)
T ss_pred eccChHHhhhccccCcEEEE
Confidence 59999999999999999855
No 8
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=45.55 E-value=13 Score=28.12 Aligned_cols=22 Identities=14% Similarity=0.143 Sum_probs=19.0
Q ss_pred ccCCHHHHHHhCCcccCEEEEe
Q 022402 271 MVKHPEVAQFLGGRLYDCVFKY 292 (297)
Q Consensus 271 ~~KC~~va~~lg~~~~~~v~~~ 292 (297)
+.+.+|+|+++|.++||+|=+.
T Consensus 40 I~~~DPv~r~~g~k~GdVvkI~ 61 (79)
T PRK09570 40 IKASDPVVKAIGAKPGDVIKIV 61 (79)
T ss_pred eeccChhhhhcCCCCCCEEEEE
Confidence 4589999999999999998653
No 9
>PF01191 RNA_pol_Rpb5_C: RNA polymerase Rpb5, C-terminal domain; InterPro: IPR000783 Prokaryotes contain a single DNA-dependent RNA polymerase (RNAP; 2.7.7.6 from EC) that is responsible for the transcription of all genes, while eukaryotes have three classes of RNAPs (I-III) that transcribe different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. Certain subunits of RNAPs, including RPB5 (POLR2E in mammals), are common to all three eukaryotic polymerases. RPB5 plays a role in the transcription activation process. Eukaryotic RPB5 has a bipartite structure consisting of a unique N-terminal region (IPR005571 from INTERPRO), plus a C-terminal region that is structurally homologous to the prokaryotic RPB5 homologue, subunit H (gene rpoH) [, , , ]. This entry represents prokaryotic subunit H and the C-terminal domain of eukaryotic RPB5, which share a two-layer alpha/beta fold, with a core structure of beta/alpha/beta/alpha/beta(2). ; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1EIK_A 2Y0S_Z 1DZF_A 3GTG_E 2VUM_E 3GTP_E 3GTO_E 3S17_E 3S1R_E 1I3Q_E ....
Probab=43.99 E-value=14 Score=27.48 Aligned_cols=21 Identities=29% Similarity=0.407 Sum_probs=16.4
Q ss_pred ccCCHHHHHHhCCcccCEEEE
Q 022402 271 MVKHPEVAQFLGGRLYDCVFK 291 (297)
Q Consensus 271 ~~KC~~va~~lg~~~~~~v~~ 291 (297)
+.+.+|+|+.+|.++||+|=.
T Consensus 37 I~~~DPv~r~~g~k~GdVvkI 57 (74)
T PF01191_consen 37 ILSSDPVARYLGAKPGDVVKI 57 (74)
T ss_dssp EETTSHHHHHTT--TTSEEEE
T ss_pred ccccChhhhhcCCCCCCEEEE
Confidence 358899999999999999855
No 10
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=42.71 E-value=1.1e+02 Score=26.29 Aligned_cols=34 Identities=32% Similarity=0.434 Sum_probs=26.0
Q ss_pred CCeEEEEecCCChhhhhchHHHHHHHHhCCCEEEEEecC
Q 022402 142 WKKAVIFVDNSGADIILGILPFARELLRRGTQVILAAND 180 (297)
Q Consensus 142 ~~~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~ 180 (297)
.++|++|+- |+ + .-. |+++.|.++|.+|++.-|.
T Consensus 44 gk~vlViG~--G~-~-~G~-~~a~~L~~~g~~V~v~~r~ 77 (168)
T cd01080 44 GKKVVVVGR--SN-I-VGK-PLAALLLNRNATVTVCHSK 77 (168)
T ss_pred CCEEEEECC--cH-H-HHH-HHHHHHhhCCCEEEEEECC
Confidence 478999974 76 3 344 3889999999889888875
No 11
>PF08361 TetR_C_2: MAATS-type transcriptional repressor, C-terminal region; InterPro: IPR013572 This entry is named after the various transcriptional regulatory proteins that it contains, including MtrR (Q6RV06 from SWISSPROT), AcrR (P34000 from SWISSPROT), ArpR (Q9KJC4 from SWISSPROT), TtgR (Q9AIU0 from SWISSPROT) and SmeT (Q8KLP4 from SWISSPROT). These are members of the TetR (tetracycline resistance) family of transcriptional repressors, that are involved in the control of expression of multidrug resistance proteins [, , ]. ; GO: 0003677 DNA binding; PDB: 3BCG_B 2QOP_A 2UXP_B 2XDN_C 2UXH_A 2UXI_B 2UXO_A 2UXU_B 2WUI_A 2W53_A ....
Probab=35.99 E-value=2.2e+02 Score=22.52 Aligned_cols=86 Identities=15% Similarity=0.197 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHcccCCCCCCCchHHHHHHHHHHHHH---HhcCCCCchHHHHHHHHHHHHHHHHHHHHH-hh--hhhh--
Q 022402 6 LRNLLKEILEDMKKDPETHGGPPDCILLCRLREQVL---RELGFRDIFKKVKDEENAKAISLFGDVVRL-ND--VIED-- 77 (297)
Q Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~e~~l~~~i~~~~~---~~~g~~DPf~~~K~~~n~~a~~~~~~l~~~-l~--~~~~-- 77 (297)
.++.+...++.+..++ -+|++++++. ++++..+|..+..++....+...+..+... .. .++.
T Consensus 6 Lr~~~~~~l~~l~~d~----------~~Rrv~~I~~~kcE~~~e~~~~~~r~~~~~~~~~~~i~~~l~~A~~~g~L~~~l 75 (121)
T PF08361_consen 6 LREALIEALRRLAEDE----------RQRRVFEILFHKCEYVEEMAPVRERRREAQREALARIERLLRRAQARGQLPADL 75 (121)
T ss_dssp HHHHHHHHHHHHHHSH----------HHHHHHHHHHHS--SSTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSS-TTB
T ss_pred HHHHHHHHHHHHhhCH----------HHHHHHHHHHHhcccCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCC
Confidence 5667777777777765 7899999886 467777899888888888887777544332 21 1221
Q ss_pred hhHHHHHHHHHHHhhhhhhccchh
Q 022402 78 EGKRVESLIRGIFAGNIFDLGSAQ 101 (297)
Q Consensus 78 ~~~~l~~~lr~al~GN~~D~~~~~ 101 (297)
+.+.....+...+-|-..+|-..+
T Consensus 76 d~~~AA~~l~a~~~Gl~~~WL~~p 99 (121)
T PF08361_consen 76 DPRLAAIMLHALLSGLIQNWLLDP 99 (121)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHST
T ss_pred CHHHHHHHHHHHHHHHHHHHHcCC
Confidence 234567777888888887776544
No 12
>PF11576 DUF3236: Protein of unknown function (DUF3236); InterPro: IPR012019 This family of proteins with unknown function appears to be restricted to Methanobacteria. ; PDB: 3BRC_B.
Probab=32.98 E-value=26 Score=29.53 Aligned_cols=29 Identities=38% Similarity=0.399 Sum_probs=18.5
Q ss_pred CcCcccccHHHHHH-hccCcEEEEecCCCC
Q 022402 225 VIDLTAVSQELAYL-ASDADLVILEGMGRG 253 (297)
Q Consensus 225 ~~~l~~~s~el~~~-l~~aDLVI~KG~~Ny 253 (297)
-+.|+.++.-+... ..+|||||++|.+--
T Consensus 75 lTrmPA~~K~LmavD~~dADlvIARGRLGv 104 (154)
T PF11576_consen 75 LTRMPALSKALMAVDISDADLVIARGRLGV 104 (154)
T ss_dssp GSSSHHHHHHHHHHHHH--SEEEEEEE-SS
T ss_pred cccCcHHHhHHHheeccCCcEEEEcccccC
Confidence 45555666666555 479999999999875
No 13
>COG2012 RPB5 DNA-directed RNA polymerase, subunit H, RpoH/RPB5 [Transcription]
Probab=32.04 E-value=30 Score=26.08 Aligned_cols=19 Identities=32% Similarity=0.237 Sum_probs=16.4
Q ss_pred CCHHHHHHhCCcccCEEEE
Q 022402 273 KHPEVAQFLGGRLYDCVFK 291 (297)
Q Consensus 273 KC~~va~~lg~~~~~~v~~ 291 (297)
..+|+|+.+|.+.||.|=+
T Consensus 45 ~~DPva~~lgak~GdvVkI 63 (80)
T COG2012 45 ASDPVAKALGAKPGDVVKI 63 (80)
T ss_pred ccChhHHHccCCCCcEEEE
Confidence 6789999999999997644
No 14
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=31.57 E-value=4.1e+02 Score=24.36 Aligned_cols=122 Identities=14% Similarity=0.088 Sum_probs=66.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHhhhhhhc-cchhhhhhhcccCCCHHHHHhhhCCCCCc
Q 022402 48 DIFKKVKDEENAKAISLFGDVVRLNDVIEDEGKRVESLIRGIFAGNIFDL-GSAQLAEVFSKDGMSFLASCQNLVPRPWV 126 (297)
Q Consensus 48 DPf~~~K~~~n~~a~~~~~~l~~~l~~~~~~~~~l~~~lr~al~GN~~D~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 126 (297)
|+....-++........+....+.+ ..+.+..++.+..-...+.+ |.... .... .++...+..+-..-..
T Consensus 91 ~~~~~~~~~~~~~~~~~l~~t~~~l-----~~~~l~~av~~L~~A~rI~~~G~g~S-~~vA---~~~~~~l~~ig~~~~~ 161 (281)
T COG1737 91 DGPESILEKLLAANIAALERTLNLL-----DEEALERAVELLAKARRIYFFGLGSS-GLVA---SDLAYKLMRIGLNVVA 161 (281)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhc-----CHHHHHHHHHHHHcCCeEEEEEechh-HHHH---HHHHHHHHHcCCceeE
Confidence 4444444444444444444443332 23567778777777776665 32211 1111 1233344444233356
Q ss_pred cCcHHHHHHHhccCCCCeEEEEecCCChhhhhchHHHHHHHHhCCCEEEEEecC
Q 022402 127 IDDLETFKVKWSKKAWKKAVIFVDNSGADIILGILPFARELLRRGTQVILAAND 180 (297)
Q Consensus 127 ~dd~~~l~~~L~~~~~~~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~ 180 (297)
++|....+..+...+++.++++...+|+ - -+++..++...++|.+|+..--.
T Consensus 162 ~~d~~~~~~~~~~~~~~Dv~i~iS~sG~-t-~e~i~~a~~ak~~ga~vIaiT~~ 213 (281)
T COG1737 162 LSDTHGQLMQLALLTPGDVVIAISFSGY-T-REIVEAAELAKERGAKVIAITDS 213 (281)
T ss_pred ecchHHHHHHHHhCCCCCEEEEEeCCCC-c-HHHHHHHHHHHHCCCcEEEEcCC
Confidence 6676666655544456789999999998 3 34444566777788777665433
No 15
>COG0698 RpiB Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]
Probab=30.80 E-value=66 Score=27.34 Aligned_cols=31 Identities=26% Similarity=0.307 Sum_probs=24.7
Q ss_pred eEEEEecCCChhhhhchHHHHHHHHhCCCEEEEE
Q 022402 144 KAVIFVDNSGADIILGILPFARELLRRGTQVILA 177 (297)
Q Consensus 144 ~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~ 177 (297)
+|.+-+|++|.++ -.. ++++|.+.|++|+=.
T Consensus 2 kIaig~Dhag~~l--K~~-I~~~Lk~~g~~v~D~ 32 (151)
T COG0698 2 KIAIGSDHAGYEL--KEI-IIDHLKSKGYEVIDF 32 (151)
T ss_pred cEEEEcCcccHHH--HHH-HHHHHHHCCCEEEec
Confidence 5888999999965 344 679999999988754
No 16
>PHA02053 hypothetical protein
Probab=30.20 E-value=42 Score=26.44 Aligned_cols=36 Identities=17% Similarity=0.310 Sum_probs=30.1
Q ss_pred ecccCCcccCcCcccccHHHHHHhccCcEEEEecCCCC
Q 022402 216 IANSGNDLPVIDLTAVSQELAYLASDADLVILEGMGRG 253 (297)
Q Consensus 216 vi~~G~~~~~~~l~~~s~el~~~l~~aDLVI~KG~~Ny 253 (297)
++.+|...|.= ...+.+|.+++.+.|+|.++|-|.|
T Consensus 56 li~sGddmP~D--~~ta~~F~kayR~~~VIysr~lGS~ 91 (115)
T PHA02053 56 LIASGDDMPID--ANTATEFQKAYRSWGVIYSRSLGSY 91 (115)
T ss_pred HHHcCCCCCCC--CCCHHHHHHHHHhcCeeeecCCCch
Confidence 47788776543 3478899999999999999999999
No 17
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=29.25 E-value=3.4e+02 Score=26.87 Aligned_cols=53 Identities=23% Similarity=0.377 Sum_probs=39.3
Q ss_pred CchHHHHHHHHHHHHHcccCCCCCCCchHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHH
Q 022402 1 MLTSELRNLLKEILEDMKKDPETHGGPPDCILLCRLREQVLRELGFRDIFKKVKDEENAKAI 62 (297)
Q Consensus 1 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~e~~l~~~i~~~~~~~~g~~DPf~~~K~~~n~~a~ 62 (297)
+.|++.|..+..+.+.++..++ .+-+| .+.+.++++..||.-....-+...|+
T Consensus 20 ~nT~enW~~IlDvCD~v~~~~~---~~kd~------lk~i~KRln~~dphV~L~AlTLlda~ 72 (462)
T KOG2199|consen 20 KNTSENWSLILDVCDKVGSDPD---GGKDC------LKAIMKRLNHKDPHVVLQALTLLDAC 72 (462)
T ss_pred ccccccHHHHHHHHHhhcCCCc---ccHHH------HHHHHHHhcCCCcchHHHHHHHHHHH
Confidence 4688999999999999988752 23333 55666888999999887766665554
No 18
>PLN03111 DNA-directed RNA polymerase II subunit family protein; Provisional
Probab=27.47 E-value=37 Score=30.33 Aligned_cols=22 Identities=14% Similarity=0.107 Sum_probs=19.1
Q ss_pred ccCCHHHHHHhCCcccCEEEEe
Q 022402 271 MVKHPEVAQFLGGRLYDCVFKY 292 (297)
Q Consensus 271 ~~KC~~va~~lg~~~~~~v~~~ 292 (297)
+.+.+|+|+++|.++|++|=+.
T Consensus 169 I~~~DPvary~g~k~G~vvkI~ 190 (206)
T PLN03111 169 IQVSDPIARYYGLKRGQVVKII 190 (206)
T ss_pred ccccChhhHhcCCCCCCEEEEE
Confidence 4589999999999999998653
No 19
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=27.06 E-value=3.3e+02 Score=27.29 Aligned_cols=46 Identities=26% Similarity=0.274 Sum_probs=32.2
Q ss_pred CcHHHHHHHhccCCCCeEEEEecCCChhhhhchHHHHHHHHhCCCEEEEEecCCccc
Q 022402 128 DDLETFKVKWSKKAWKKAVIFVDNSGADIILGILPFARELLRRGTQVILAANDLPSI 184 (297)
Q Consensus 128 dd~~~l~~~L~~~~~~~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~~P~v 184 (297)
|......+.|. .+++.|++|..=+ + +++++|.+.|.+|+.+ +.|+-
T Consensus 303 dal~d~~~~L~---GKrvai~Gdp~~~-i-----~LarfL~elGmevV~v--gt~~~ 348 (457)
T CHL00073 303 ESLKDYLDLVR---GKSVFFMGDNLLE-I-----SLARFLIRCGMIVYEI--GIPYM 348 (457)
T ss_pred HHHHHHHHHHC---CCEEEEECCCcHH-H-----HHHHHHHHCCCEEEEE--EeCCC
Confidence 44444555553 4788888876554 4 7889999999988887 55553
No 20
>PRK12446 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed
Probab=26.78 E-value=1.2e+02 Score=28.94 Aligned_cols=40 Identities=13% Similarity=0.040 Sum_probs=34.7
Q ss_pred CeEEEEecCCChhhhhchHHHHHHHHhCCCEEEEEecCCcc
Q 022402 143 KKAVIFVDNSGADIILGILPFARELLRRGTQVILAANDLPS 183 (297)
Q Consensus 143 ~~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~~P~ 183 (297)
++|++.+-=.|.+++--+. ++++|.+.|++|.|+.....+
T Consensus 2 ~~i~~~~GGTGGHi~Pala-~a~~l~~~g~~v~~vg~~~~~ 41 (352)
T PRK12446 2 KKIVFTGGGSAGHVTPNLA-IIPYLKEDNWDISYIGSHQGI 41 (352)
T ss_pred CeEEEEcCCcHHHHHHHHH-HHHHHHhCCCEEEEEECCCcc
Confidence 4788888889999999998 999999999999999866654
No 21
>PTZ00061 DNA-directed RNA polymerase; Provisional
Probab=26.71 E-value=38 Score=30.20 Aligned_cols=21 Identities=19% Similarity=0.134 Sum_probs=18.6
Q ss_pred ccCCHHHHHHhCCcccCEEEE
Q 022402 271 MVKHPEVAQFLGGRLYDCVFK 291 (297)
Q Consensus 271 ~~KC~~va~~lg~~~~~~v~~ 291 (297)
+-+.+|+|+++|.++||+|=+
T Consensus 168 I~~~DPvary~g~k~G~vvkI 188 (205)
T PTZ00061 168 IQSADPVARYFGLSKGQVVKI 188 (205)
T ss_pred ccccChhhHhcCCCCCCEEEE
Confidence 458999999999999999865
No 22
>PLN03050 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=26.57 E-value=1.9e+02 Score=26.38 Aligned_cols=32 Identities=25% Similarity=0.425 Sum_probs=25.6
Q ss_pred CeEEEEe--cCCChhhhhchHHHHHHHHhCCCEEEEEe
Q 022402 143 KKAVIFV--DNSGADIILGILPFARELLRRGTQVILAA 178 (297)
Q Consensus 143 ~~i~~i~--DNaGeeiv~Dll~L~~~L~~~g~~V~~~v 178 (297)
++|++++ -|-|. ..+. +|++|...|.+|.++.
T Consensus 61 ~~V~VlcG~GNNGG---DGlv-~AR~L~~~G~~V~v~~ 94 (246)
T PLN03050 61 PRVLLVCGPGNNGG---DGLV-AARHLAHFGYEVTVCY 94 (246)
T ss_pred CeEEEEECCCCCch---hHHH-HHHHHHHCCCeEEEEE
Confidence 5788886 56666 4566 9999999999998887
No 23
>COG0062 Uncharacterized conserved protein [Function unknown]
Probab=26.05 E-value=1.8e+02 Score=25.89 Aligned_cols=43 Identities=21% Similarity=0.342 Sum_probs=30.3
Q ss_pred CCeEEEEe---cCCChhhhhchHHHHHHHHhCCCEEEEEecCCc--ccccCCh
Q 022402 142 WKKAVIFV---DNSGADIILGILPFARELLRRGTQVILAANDLP--SINDVTY 189 (297)
Q Consensus 142 ~~~i~~i~---DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~~P--~vnDvT~ 189 (297)
.++|+++| +|-|- .+. .|++|...|..|+++..+.| .-++.-.
T Consensus 49 ~~~v~vlcG~GnNGGD----G~V-aAR~L~~~G~~V~v~~~~~~~~~~~~~a~ 96 (203)
T COG0062 49 ARRVLVLCGPGNNGGD----GLV-AARHLKAAGYAVTVLLLGDPKKLKTEAAR 96 (203)
T ss_pred CCEEEEEECCCCccHH----HHH-HHHHHHhCCCceEEEEeCCCCCccHHHHH
Confidence 46799998 67664 455 99999999988877776655 3444433
No 24
>COG1921 SelA Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]
Probab=25.76 E-value=1.3e+02 Score=29.53 Aligned_cols=90 Identities=17% Similarity=0.157 Sum_probs=57.3
Q ss_pred eEEEEecCCChhhhhchHHHHHHHHhCCCEEEEEecCC--cccccCChHHHHHHHHHhhhhhhhhccccccceeecccCC
Q 022402 144 KAVIFVDNSGADIILGILPFARELLRRGTQVILAANDL--PSINDVTYPELIEIMSKLKDEKGQLMGVDTSKLLIANSGN 221 (297)
Q Consensus 144 ~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~~--P~vnDvT~~D~~~~l~~l~~~d~~l~~l~~~~~~vi~~G~ 221 (297)
--+.-+.++++--.-|.- .=+..++...+.|.+. +|-.++..+|+..+ +-..+.-.+++.|+
T Consensus 133 ~~l~EvG~tn~t~~~d~~----~AIne~ta~llkV~s~~~~f~~~l~~~~l~~i------------a~~~~lpvivD~aS 196 (395)
T COG1921 133 AKLVEVGTTNRTHLKDYE----LAINENTALLLKVHSSNYGFTGMLSEEELVEI------------AHEKGLPVIVDLAS 196 (395)
T ss_pred CEEEEecccCcCCHHHHH----HHhccCCeeEEEEeeccccccccccHHHHHHH------------HHHcCCCEEEecCC
Confidence 344556677772333332 2244567777777777 67899999998875 22223456677776
Q ss_pred cccCcCcccccHHHHHHhcc-CcEEEEecCCCC
Q 022402 222 DLPVIDLTAVSQELAYLASD-ADLVILEGMGRG 253 (297)
Q Consensus 222 ~~~~~~l~~~s~el~~~l~~-aDLVI~KG~~Ny 253 (297)
.. ..+ --+.+++.++. ||||++=|+-=.
T Consensus 197 g~-~v~---~e~~l~~~la~GaDLV~~SgdKll 225 (395)
T COG1921 197 GA-LVD---KEPDLREALALGADLVSFSGDKLL 225 (395)
T ss_pred cc-ccc---cccchhHHHhcCCCEEEEecchhc
Confidence 44 222 44567788865 999999998654
No 25
>cd01079 NAD_bind_m-THF_DH NAD binding domain of methylene-tetrahydrofolate dehydrogenase. The NAD-binding domain of methylene-tetrahydrofolate dehydrogenase (m-THF DH). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. M-THF DH is a component of an unusual monofunctional enzyme; in eukaryotes, m-THF DH is typically found as part of a multifunctional protein. NADP-dependent m-THF DHs in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofunctional DH, as well as bifunctional DH/cyclodrolase are found. In addition, yeast (S. cerevisiae) also express an monofunctional DH. This family contains only the monofunctional
Probab=24.06 E-value=3.6e+02 Score=23.93 Aligned_cols=31 Identities=26% Similarity=0.338 Sum_probs=22.6
Q ss_pred CCeEEEEecCCChhhhhchHHHHHHHHhCCCEEEEE
Q 022402 142 WKKAVIFVDNSGADIILGILPFARELLRRGTQVILA 177 (297)
Q Consensus 142 ~~~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~ 177 (297)
.+++++|+. ++ +..+ ||+..|++.|.+|+.+
T Consensus 62 GK~vvVIGr--S~--iVGk-Pla~lL~~~~AtVti~ 92 (197)
T cd01079 62 GKTITIINR--SE--VVGR-PLAALLANDGARVYSV 92 (197)
T ss_pred CCEEEEECC--Cc--cchH-HHHHHHHHCCCEEEEE
Confidence 468888862 22 2455 9999999999888765
No 26
>PF01522 Polysacc_deac_1: Polysaccharide deacetylase; InterPro: IPR002509 This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase []. It also includes chitin deacetylase from yeast [], and endoxylanases which hydrolyses glucosidic bonds in xylan [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0005975 carbohydrate metabolic process; PDB: 2IW0_A 2CC0_B 2VYO_A 2J13_A 2C71_A 2C79_A 1W1A_1 1W1B_1 1W17_A 1NY1_B ....
Probab=23.39 E-value=2.1e+02 Score=21.85 Aligned_cols=101 Identities=13% Similarity=0.100 Sum_probs=57.2
Q ss_pred CcHHHHHHHhccCCC-CeEEEEecCCChhhhhchHHHHHHHHhCCCEEEEEecCCcccccCChHHHHHHHHHhhhhhhhh
Q 022402 128 DDLETFKVKWSKKAW-KKAVIFVDNSGADIILGILPFARELLRRGTQVILAANDLPSINDVTYPELIEIMSKLKDEKGQL 206 (297)
Q Consensus 128 dd~~~l~~~L~~~~~-~~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~V~~~vK~~P~vnDvT~~D~~~~l~~l~~~d~~l 206 (297)
+....+.+.|++.+. .++.+++.+.+. - . ..++.+.+.|++|-.|.-++|.....+.+++..-|.+.... +
T Consensus 18 ~~~~~~~~~l~~~~i~at~fv~~~~~~~-~---~-~~l~~l~~~G~ei~~H~~~H~~~~~~~~~~~~~ei~~~~~~---l 89 (123)
T PF01522_consen 18 DNYDRLLPLLKKYGIPATFFVIGSWVER-Y---P-DQLRELAAAGHEIGNHGWSHPNLSTLSPEELRREIERSREI---L 89 (123)
T ss_dssp THHHHHHHHHHHTT--EEEEE-HHHHHH-H---H-HHHHHHHHTT-EEEEE-SSSSCGGGS-HHHHHHHHHHHHHH---H
T ss_pred hhHHHHHHHHHhcccceeeeeccccccc-c---c-ccchhHHHHHHHHHhcCCcccccccCCHHHHHHHHHHHHHH---H
Confidence 345566677765332 366666676554 1 2 25589999999999999999999999999888755543321 1
Q ss_pred cc-ccccceeecccCCcccCcCcccccHHHHHHhccCcE
Q 022402 207 MG-VDTSKLLIANSGNDLPVIDLTAVSQELAYLASDADL 244 (297)
Q Consensus 207 ~~-l~~~~~~vi~~G~~~~~~~l~~~s~el~~~l~~aDL 244 (297)
.. ++. -..+-..|+ ...++...++++++.+
T Consensus 90 ~~~~g~-----~~~~f~~P~---g~~~~~~~~~l~~~G~ 120 (123)
T PF01522_consen 90 EEITGR-----PPKGFRYPF---GSYDDNTLQALREAGY 120 (123)
T ss_dssp HHHHSS-----EESEEE-GG---GEECHHHHHHHHHTT-
T ss_pred HHHhCC-----CCcEEECCC---CCCCHHHHHHHHHcCC
Confidence 11 111 111222333 3477777777766543
No 27
>COG4019 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.40 E-value=81 Score=26.14 Aligned_cols=15 Identities=47% Similarity=0.353 Sum_probs=13.2
Q ss_pred hccCcEEEEecCCCC
Q 022402 239 ASDADLVILEGMGRG 253 (297)
Q Consensus 239 l~~aDLVI~KG~~Ny 253 (297)
.+.|||||++|.+.-
T Consensus 91 is~ADlvIARGRLGv 105 (156)
T COG4019 91 ISKADLVIARGRLGV 105 (156)
T ss_pred ccCCcEEEeeccccC
Confidence 378999999999886
No 28
>PF03033 Glyco_transf_28: Glycosyltransferase family 28 N-terminal domain; InterPro: IPR004276 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 28 GT28 from CAZY comprises enzymes with a number of known activities; 1,2-diacylglycerol 3-beta-galactosyltransferase (2.4.1.46 from EC); 1,2-diacylglycerol 3-beta-glucosyltransferase (2.4.1.157 from EC); beta-N-acetylglucosamine transferase (2.4.1 from EC).; GO: 0016758 transferase activity, transferring hexosyl groups, 0005975 carbohydrate metabolic process, 0030259 lipid glycosylation; PDB: 2IYF_B 2YJN_A 2P6P_A 1PNV_A 3H4T_A 3H4I_A 1PN3_B 3IA7_B 1NLM_B 1F0K_B ....
Probab=22.01 E-value=1.5e+02 Score=23.32 Aligned_cols=27 Identities=33% Similarity=0.431 Sum_probs=18.6
Q ss_pred CChhhhhchHHHHHHHHhCCCEEEEEec
Q 022402 152 SGADIILGILPFARELLRRGTQVILAAN 179 (297)
Q Consensus 152 aGeeiv~Dll~L~~~L~~~g~~V~~~vK 179 (297)
+|.++.-=+ +|++.|.+.||+|+++.-
T Consensus 8 t~Ghv~P~l-ala~~L~~rGh~V~~~~~ 34 (139)
T PF03033_consen 8 TRGHVYPFL-ALARALRRRGHEVRLATP 34 (139)
T ss_dssp SHHHHHHHH-HHHHHHHHTT-EEEEEET
T ss_pred ChhHHHHHH-HHHHHHhccCCeEEEeec
Confidence 444454444 599999999999997654
No 29
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=21.00 E-value=3.2e+02 Score=19.48 Aligned_cols=38 Identities=18% Similarity=0.207 Sum_probs=26.5
Q ss_pred HHHHHHhCCCEEEEEecCCcccccCChHHHHH-HHHHhhh
Q 022402 163 FARELLRRGTQVILAANDLPSINDVTYPELIE-IMSKLKD 201 (297)
Q Consensus 163 L~~~L~~~g~~V~~~vK~~P~vnDvT~~D~~~-~l~~l~~ 201 (297)
+|..|.+.|.+|++..++..+. ...-.++.. +.+.+..
T Consensus 14 ~A~~l~~~g~~vtli~~~~~~~-~~~~~~~~~~~~~~l~~ 52 (80)
T PF00070_consen 14 LAEALAELGKEVTLIERSDRLL-PGFDPDAAKILEEYLRK 52 (80)
T ss_dssp HHHHHHHTTSEEEEEESSSSSS-TTSSHHHHHHHHHHHHH
T ss_pred HHHHHHHhCcEEEEEeccchhh-hhcCHHHHHHHHHHHHH
Confidence 5688999999999999998877 444445443 4444443
No 30
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=20.84 E-value=6.2e+02 Score=22.75 Aligned_cols=95 Identities=13% Similarity=0.092 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHhhhhhhc-cchhhhhhhcccCCCHHHHHhhhCCCCCccCcHHHHHHHhccCCCCeEEEEecCCChhhhh
Q 022402 80 KRVESLIRGIFAGNIFDL-GSAQLAEVFSKDGMSFLASCQNLVPRPWVIDDLETFKVKWSKKAWKKAVIFVDNSGADIIL 158 (297)
Q Consensus 80 ~~l~~~lr~al~GN~~D~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dd~~~l~~~L~~~~~~~i~~i~DNaGeeiv~ 158 (297)
+.+..+.++..-++.+.+ |.... .... ..+...+..+-..-...+|.......+...+.+.++++...+|+ - -
T Consensus 116 ~~l~~~~~~i~~a~~I~i~G~G~s-~~~A---~~~~~~l~~~g~~~~~~~d~~~~~~~~~~~~~~Dv~I~iS~sg~-~-~ 189 (278)
T PRK11557 116 EKLHECVTMLRSARRIILTGIGAS-GLVA---QNFAWKLMKIGINAVAERDMHALLATVQALSPDDLLLAISYSGE-R-R 189 (278)
T ss_pred HHHHHHHHHHhcCCeEEEEecChh-HHHH---HHHHHHHhhCCCeEEEcCChHHHHHHHHhCCCCCEEEEEcCCCC-C-H
Confidence 456666666555555544 33211 0011 12223333321111333555555544444345679999999997 3 2
Q ss_pred chHHHHHHHHhCCCEEEEEecC
Q 022402 159 GILPFARELLRRGTQVILAAND 180 (297)
Q Consensus 159 Dll~L~~~L~~~g~~V~~~vK~ 180 (297)
++.-.++...++|.+|+.....
T Consensus 190 ~~~~~~~~ak~~ga~iI~IT~~ 211 (278)
T PRK11557 190 ELNLAADEALRVGAKVLAITGF 211 (278)
T ss_pred HHHHHHHHHHHcCCCEEEEcCC
Confidence 2221457778889888777653
No 31
>COG0528 PyrH Uridylate kinase [Nucleotide transport and metabolism]
Probab=20.68 E-value=2.6e+02 Score=25.59 Aligned_cols=77 Identities=19% Similarity=0.252 Sum_probs=45.1
Q ss_pred HHHHHHhCC-CEEEEEecCCccccc-CChHHHHHHHHHhhhhhhhhccccccceeecccCCcccCcCcccccHHHHHHhc
Q 022402 163 FARELLRRG-TQVILAANDLPSIND-VTYPELIEIMSKLKDEKGQLMGVDTSKLLIANSGNDLPVIDLTAVSQELAYLAS 240 (297)
Q Consensus 163 L~~~L~~~g-~~V~~~vK~~P~vnD-vT~~D~~~~l~~l~~~d~~l~~l~~~~~~vi~~G~~~~~~~l~~~s~el~~~l~ 240 (297)
|...|-+.| ...+.-.-+.|.+.+ .+.+++.. .+.+++..|..-|+..||+.=+.++ .++.+.-
T Consensus 87 L~~aL~~~~~~~~v~sai~~~~~~e~~~~~~A~~-------------~l~~grVvIf~gGtg~P~fTTDt~A-ALrA~ei 152 (238)
T COG0528 87 LQDALERLGVDTRVQSAIAMPQVAEPYSRREAIR-------------HLEKGRVVIFGGGTGNPGFTTDTAA-ALRAEEI 152 (238)
T ss_pred HHHHHHhcCCcceecccccCccccCccCHHHHHH-------------HHHcCCEEEEeCCCCCCCCchHHHH-HHHHHHh
Confidence 555565566 344555566664333 33444433 4666777888888999988544443 4555556
Q ss_pred cCc-EEEEe--cCCCC
Q 022402 241 DAD-LVILE--GMGRG 253 (297)
Q Consensus 241 ~aD-LVI~K--G~~Ny 253 (297)
+|| ++.++ =||=|
T Consensus 153 ~ad~ll~atn~VDGVY 168 (238)
T COG0528 153 EADVLLKATNKVDGVY 168 (238)
T ss_pred CCcEEEEeccCCCcee
Confidence 777 44555 25556
No 32
>KOG3349 consensus Predicted glycosyltransferase [General function prediction only]
Probab=20.59 E-value=1.5e+02 Score=25.48 Aligned_cols=23 Identities=30% Similarity=0.186 Sum_probs=18.9
Q ss_pred cccHHHHHHhccCcEEEEecCCC
Q 022402 230 AVSQELAYLASDADLVILEGMGR 252 (297)
Q Consensus 230 ~~s~el~~~l~~aDLVI~KG~~N 252 (297)
+-+|++.+..++|||||+-+-+-
T Consensus 69 ~f~psl~e~I~~AdlVIsHAGaG 91 (170)
T KOG3349|consen 69 DFSPSLTEDIRSADLVISHAGAG 91 (170)
T ss_pred ecCccHHHHHhhccEEEecCCcc
Confidence 46788888999999999987554
No 33
>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=20.24 E-value=1.9e+02 Score=24.48 Aligned_cols=31 Identities=32% Similarity=0.518 Sum_probs=23.1
Q ss_pred CCeEEEEe--cCCChhhhhchHHHHHHHHhCCCEEEE
Q 022402 142 WKKAVIFV--DNSGADIILGILPFARELLRRGTQVIL 176 (297)
Q Consensus 142 ~~~i~~i~--DNaGeeiv~Dll~L~~~L~~~g~~V~~ 176 (297)
.++|++++ -|-|. .-+. +|++|..+|.+|++
T Consensus 25 ~~~v~il~G~GnNGg---Dgl~-~AR~L~~~G~~V~v 57 (169)
T PF03853_consen 25 GPRVLILCGPGNNGG---DGLV-AARHLANRGYNVTV 57 (169)
T ss_dssp T-EEEEEE-SSHHHH---HHHH-HHHHHHHTTCEEEE
T ss_pred CCeEEEEECCCCChH---HHHH-HHHHHHHCCCeEEE
Confidence 46888888 44444 4566 99999999988877
No 34
>PF02684 LpxB: Lipid-A-disaccharide synthetase; InterPro: IPR003835 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. These enzymes belong to the glycosyltransferase family 19 GT19 from CAZY. Lipid-A-disaccharide synthetase 2.4.1.182 from EC is involved with acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase 2.3.1.129 from EC and tetraacyldisaccharide 4'-kinase 2.7.1.130 from EC in the biosynthesis of the phosphorylated glycolipid, lipid A, in the outer membrane of Escherichia coli and other bacteria. These enzymes catalyse the first disaccharide step in the synthesis of lipid-A-disaccharide.; GO: 0008915 lipid-A-disaccharide synthase activity, 0009245 lipid A biosynthetic process
Probab=20.21 E-value=2e+02 Score=28.04 Aligned_cols=42 Identities=24% Similarity=0.402 Sum_probs=30.3
Q ss_pred HHHHHhccCCCCeEEEEecCCChhhhhchHHHHHHHHhCCCE--EEEEec
Q 022402 132 TFKVKWSKKAWKKAVIFVDNSGADIILGILPFARELLRRGTQ--VILAAN 179 (297)
Q Consensus 132 ~l~~~L~~~~~~~i~~i~DNaGeeiv~Dll~L~~~L~~~g~~--V~~~vK 179 (297)
++.+.+.. ....++++.|--|+.+ ++|+.+.+.|.+ |+++|=
T Consensus 73 ~~~~~~~~-~~pd~vIlID~pgFNl-----rlak~lk~~~~~~~viyYI~ 116 (373)
T PF02684_consen 73 KLVERIKE-EKPDVVILIDYPGFNL-----RLAKKLKKRGIPIKVIYYIS 116 (373)
T ss_pred HHHHHHHH-cCCCEEEEeCCCCccH-----HHHHHHHHhCCCceEEEEEC
Confidence 34444433 2358999999999865 699999999965 777663
No 35
>PF07592 DDE_Tnp_ISAZ013: Rhodopirellula transposase DDE domain; InterPro: IPR011518 These transposases are found in the planctomycete Rhodopirellula baltica, the cyanobacterium Nostoc, and the Gram-positive bacterium Streptomyces. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.10 E-value=1.3e+02 Score=28.69 Aligned_cols=50 Identities=20% Similarity=0.311 Sum_probs=33.8
Q ss_pred CccCcHHHHHHHhcc---CCCCeEEEEecCCChhhhhchHHHHHHHHh----CCCEEE
Q 022402 125 WVIDDLETFKVKWSK---KAWKKAVIFVDNSGADIILGILPFARELLR----RGTQVI 175 (297)
Q Consensus 125 ~~~dd~~~l~~~L~~---~~~~~i~~i~DNaGeeiv~Dll~L~~~L~~----~g~~V~ 175 (297)
|.+|.+...|+...+ ..++++++.+||-|+.=.==.+ +...|.+ .|..|.
T Consensus 162 Fav~~i~~WW~~~g~~~yp~a~~lli~~D~GgsN~~r~r~-wk~~L~~la~~~gl~I~ 218 (311)
T PF07592_consen 162 FAVDSIRRWWEEMGKARYPHAKRLLITADNGGSNGSRRRL-WKKRLQELADETGLSIR 218 (311)
T ss_pred HHHHHHHHHHHHhChhhcCchheEEEeccCCCCccchhHH-HHHHHHHHHHHhCCEEE
Confidence 788889999999843 2357999999999984433333 5555544 364443
Done!