Query 023803
Match_columns 277
No_of_seqs 183 out of 236
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 06:46:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023803.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023803hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03093 Protein SENSITIVITY T 100.0 5.9E-80 1.3E-84 560.9 25.2 269 6-274 1-270 (273)
2 KOG3131 Uncharacterized conser 100.0 1E-51 2.2E-56 369.2 21.0 241 15-273 4-249 (281)
3 PF07985 SRR1: SRR1; InterPro 99.8 4E-21 8.6E-26 138.1 7.4 55 105-159 1-56 (56)
4 KOG4008 rRNA processing protei 78.5 3.1 6.8E-05 38.3 4.3 23 10-33 176-198 (261)
5 PF12923 RRP7: Ribosomal RNA-p 74.8 1.9 4.2E-05 35.9 1.8 18 11-29 44-61 (131)
6 TIGR00379 cobB cobyrinic acid 64.5 28 0.00061 34.6 7.8 79 140-218 248-338 (449)
7 PRK01077 cobyrinic acid a,c-di 46.1 48 0.001 32.9 6.0 79 140-218 249-339 (451)
8 PRK05627 bifunctional riboflav 40.4 3E+02 0.0065 26.0 10.2 88 107-212 15-125 (305)
9 PF13289 SIR2_2: SIR2-like dom 33.8 2.3E+02 0.0051 22.2 8.2 54 105-163 88-143 (143)
10 PF03720 UDPG_MGDP_dh_C: UDP-g 29.8 32 0.0007 27.0 1.5 27 139-165 32-59 (106)
11 cd03130 GATase1_CobB Type 1 gl 29.0 3.9E+02 0.0084 23.2 9.3 79 141-219 3-93 (198)
12 PRK06823 ornithine cyclodeamin 27.7 1.4E+02 0.003 28.3 5.7 52 102-162 127-180 (315)
13 TIGR02371 ala_DH_arch alanine 25.3 1.4E+02 0.0031 28.2 5.3 51 102-161 127-179 (325)
14 PF02423 OCD_Mu_crystall: Orni 24.5 97 0.0021 29.2 4.0 52 103-163 128-181 (313)
15 PHA00022 VII minor coat protei 22.7 18 0.00039 22.4 -0.9 12 105-116 14-25 (28)
16 PF10307 DUF2410: Hypothetical 22.3 98 0.0021 27.8 3.3 85 104-196 100-194 (197)
17 COG1579 Zn-ribbon protein, pos 21.1 36 0.00078 31.4 0.3 50 142-191 171-234 (239)
18 cd03423 SirA SirA (also known 20.6 1.7E+02 0.0036 21.1 3.8 27 139-165 30-56 (69)
19 PRK06199 ornithine cyclodeamin 20.6 1.1E+02 0.0025 29.7 3.7 44 101-152 153-196 (379)
No 1
>PLN03093 Protein SENSITIVITY TO RED LIGHT REDUCED 1; Provisional
Probab=100.00 E-value=5.9e-80 Score=560.89 Aligned_cols=269 Identities=67% Similarity=1.120 Sum_probs=256.8
Q ss_pred cccCCcccccCCCcEEeccCCCccccccccCCCCcccCCCCCCCCCCCChHHHHHHHHHHHHHHHHhhhChHHHHHHHhc
Q 023803 6 KVIGPETHMLNEDWTIVLPRRGKQRRNLRRIRSPEEQQKPWFPTEIESDPHRVSKLLQRIEMSIKKMESSEFYRTLLDQI 85 (277)
Q Consensus 6 ~~~~~~~~~~~~~W~~V~~rrg~~r~~~~~~~~~~~~~~p~~~~e~~~d~~~~~kl~~~l~~~~~~l~~S~f~~~l~~~L 85 (277)
|++|++++|.+++||+|.|||||||++.++...++..++||+|+|++.|+.++++|+++|++++++++.|.||+++.+++
T Consensus 1 ~~~~~~~~~~~~~w~vv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~kL~~ki~~~~e~ve~S~F~~~l~~q~ 80 (273)
T PLN03093 1 KELTVDNSSSNGEWTVVLPRRGKRRRKPKPKGTPEEEQQPWVPTDLESDPERQAKLIQKMEICIKKVESSQFYQAFLEQV 80 (273)
T ss_pred CceeeccCCCccceEEEecccccccCCCCccCCCcccCCCCCCCCcccCHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence 56789999999999999999999999887666556667899999999999999999999999999999999999999999
Q ss_pred cChhhhhhhhcccCCCCcceEEEEecCCCCCCchhHHHHHHHHHHHHHhCcCCceEEeCCCCCHHHHHHHHHcCceEecc
Q 023803 86 QTPEVLNSFYNVLGSESNMQMVIYGIGCLESYGPPRLQLSLAILMKRKFSWIGDIEVFDPILSSTEARVLEALGCSVLSV 165 (277)
Q Consensus 86 ~~~~~~~~l~~~l~~~~i~~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~~~~v~~yDPvft~~D~~~l~~LG~~Vl~~ 165 (277)
+..++++.+.+++|+....+|||||||||+.+.+|||||||+++|+++|+.+++|++|||||++.|+++|++|||+|+++
T Consensus 81 ~~~~~~d~~~~~~gs~~~~~iVclGLGsf~~s~~AR~QLAflLlL~~~~~~i~~v~vYDPVFs~~e~~~Le~LG~~Vls~ 160 (273)
T PLN03093 81 KSPEVLDSFHLVLGSELKMQMVIYGIGSIESYETPRFQLSLAILMKREFDWIGDIEVFDPVLSATESRVLESLGCSVLSV 160 (273)
T ss_pred cchHHHHHHHhhccccccceEEEEeecCccccccHHHHHHHHHHHHHHhCCcccEEEECCCCCHHHHHHHHHcCCeeccc
Confidence 98789999999999988899999999999999999999999999999998788999999999999999999999999999
Q ss_pred CccccccCCCCeEEEecCCCHHHHHHHHHHhhc-cccCcEEEEecChhHHHHhhhhhcccccccchhHHHHhcccceeec
Q 023803 166 NEQGRRCAIKPTLFYMPHCEAELYNNLLQANWG-AMLKQMVLFGNSFEMYHQHVLEFKGSIVVDTARHILAARRFTHEFG 244 (277)
Q Consensus 166 n~~g~~~~~~~TLfymPHc~~~Ly~nlL~~nw~-~~L~~~vliGNsf~~~~~~~~~~~~~~~~~~~~~il~~~~~~~e~~ 244 (277)
|++|++.+++||||||||||+.||+|+|++||+ ++|++++||||||++|.++++++++++..++.+||+++.+|++|++
T Consensus 161 neegkr~a~~pTLFYMPHCp~~LyeNLL~aNWs~e~L~~ivliGNSFe~y~~~~~~~~~~~~~~~~~hIla~~~~~~E~~ 240 (273)
T PLN03093 161 NEQGRREATKPTLFFMPHCEAELYNNLLQANWRMERLNHIALFGNSFEMYEEQVSEFFNSEVVDSTKHILAARKFTSEFA 240 (273)
T ss_pred cccccccCCCCeEEEeCCCCHHHHHHHHHHhCCHHHcCCEEEEeCCHHHHHHHHHHhcCcccccchHHHHHHHHHhhhhe
Confidence 999999999999999999999999999999999 8999999999999999999998888888899999999999999999
Q ss_pred ccCCCCCcccccccceeEEecCCCCcccCC
Q 023803 245 IKTVSDDYFAGFHDSSWLFFRPDLESELQP 274 (277)
Q Consensus 245 l~~~~~~~~~aFnDtsih~F~~~~~~~~~~ 274 (277)
+.+.+++|.+||||||||+||++.++||+.
T Consensus 241 l~~~~dd~~~~FnD~S~H~F~~~~~~~l~~ 270 (273)
T PLN03093 241 IKTVSDDYFAAFHDSSWHFFSPGIDTELPL 270 (273)
T ss_pred eccCCcchhhhhcccceeecCCccchhhhh
Confidence 997788999999999999999999999985
No 2
>KOG3131 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1e-51 Score=369.15 Aligned_cols=241 Identities=30% Similarity=0.463 Sum_probs=193.0
Q ss_pred cCCCcEEeccCCCccccccccCCCCcccCCCCCCCCCC--CChHHHHHHHHHHHHHHHHhhhChHHHHHHHhccChhhhh
Q 023803 15 LNEDWTIVLPRRGKQRRNLRRIRSPEEQQKPWFPTEIE--SDPHRVSKLLQRIEMSIKKMESSEFYRTLLDQIQTPEVLN 92 (277)
Q Consensus 15 ~~~~W~~V~~rrg~~r~~~~~~~~~~~~~~p~~~~e~~--~d~~~~~kl~~~l~~~~~~l~~S~f~~~l~~~L~~~~~~~ 92 (277)
.+++|+||+|.|-.+|++.+++.-.+ ..++.+ .+...+++++++++..+.+++.|+|+..++++|++. ++
T Consensus 4 s~~df~VV~r~~~~~Rkk~k~rG~~~------k~~dt~iD~~~v~~~~fq~klensr~kle~S~Fl~~~lEqLq~~--l~ 75 (281)
T KOG3131|consen 4 SGEDFQVVTRKKWMARKKLKRRGRHK------KESDTLIDCPDVNVEKFQPKLENSRTKLEQSDFLLVALEQLQQQ--LE 75 (281)
T ss_pred CCCceEEEecchhhhhcccCccCCCc------cccccccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH--Hh
Confidence 47899999963311122222111000 023334 345556679999999999999999999999999976 54
Q ss_pred hhhcccCCCCcceE-EEEecCCCCCCchhHHHHHHHHHHHHHhCcCC-ceEEeCCCCCHHHHHHHHHcCceEeccCcccc
Q 023803 93 SFYNVLGSESNMQM-VIYGIGCLESYGPPRLQLSLAILMKRKFSWIG-DIEVFDPILSSTEARVLEALGCSVLSVNEQGR 170 (277)
Q Consensus 93 ~l~~~l~~~~i~~i-vclGLGsf~~~~~a~~QLAlll~L~~~l~~~~-~v~~yDPvft~~D~~~l~~LG~~Vl~~n~~g~ 170 (277)
.|.+ .|.+| ||||||+|++..+|+||||++++|.++|++.+ .|++|||||+.+|+++|++||+.|+.+++.|+
T Consensus 76 ~~~~-----piek~~vclglG~f~~~~~a~~Qlal~iei~r~fk~~~~~~s~fDPvf~k~E~eyLeslG~cvLs~~e~~~ 150 (281)
T KOG3131|consen 76 GIRK-----PIEKIIVCLGLGPFSRTYHALHQLALVIEIHRHFKIRDVEASYFDPVFRKSEKEYLESLGGCVLSKDEAGK 150 (281)
T ss_pred hhcc-----chhheEEEEeeccccccccHHHHHHHHHHHHHHhccccceeeeeCcchhhhHHHHHHhcCCeEeccCcccc
Confidence 4443 46775 99999999999999999999999999999654 69999999999999999999999999999999
Q ss_pred ccCCCCeEEEecCCCHHHHHHHHHHhhc-cccCcEEEEecChhHHHHhhhhhcccccccchhHHHHhcccceeecccCCC
Q 023803 171 RCAIKPTLFYMPHCEAELYNNLLQANWG-AMLKQMVLFGNSFEMYHQHVLEFKGSIVVDTARHILAARRFTHEFGIKTVS 249 (277)
Q Consensus 171 ~~~~~~TLfymPHc~~~Ly~nlL~~nw~-~~L~~~vliGNsf~~~~~~~~~~~~~~~~~~~~~il~~~~~~~e~~l~~~~ 249 (277)
+.+.+||||||||||..||+|+||+||. +.+++++++||||.+|++.+. ++..+...+|-++...+..-.+. .+
T Consensus 151 ~ealkpTLyylPHcp~~LyeNiL~snw~~Drl~k~~LcgNsfqml~~~v~----~~i~nt~p~I~k~~~~~~ft~l~-p~ 225 (281)
T KOG3131|consen 151 HEALKPTLYYLPHCPYALYENILWSNWKRDRLPKVFLCGNSFQMLTMTVH----YPIRNTDPHITKIVEHCTFTPLE-PD 225 (281)
T ss_pred ccccceeeEecCCCchHHHHHHHHHhhhhccccceEEecCcHHHHHhhcc----chhccCChHHHhhhhcccccccc-Cc
Confidence 9999999999999999999999999999 999999999999999988743 33445556666665544333332 35
Q ss_pred CCcccccccceeEEecCCCCcccC
Q 023803 250 DDYFAGFHDSSWLFFRPDLESELQ 273 (277)
Q Consensus 250 ~~~~~aFnDtsih~F~~~~~~~~~ 273 (277)
++|.+||||+|||+||.+.+.|.+
T Consensus 226 ~~~~nafnDlSlhffps~sd~es~ 249 (281)
T KOG3131|consen 226 YEHHNAFNDLSLHFFPSESDPESN 249 (281)
T ss_pred chhhhccccceeeecccccccccc
Confidence 669999999999999999988764
No 3
>PF07985 SRR1: SRR1; InterPro: IPR012942 Sensitivity To Red Light Reduced proteins (SRR1) are signalling proteins thought to be involved in regulating the circadian clock input pathway, which is required for normal oscillator function. In Arabidopsis thaliana it regulates the expression of clock-regulated genes such as CCA1 and TOC1. It is also involved in both the phytochrome B (PHYB) and PHYB-independent signaling pathways [].
Probab=99.84 E-value=4e-21 Score=138.08 Aligned_cols=55 Identities=31% Similarity=0.648 Sum_probs=52.0
Q ss_pred eEEEEecCCCCCCchhHHHHHHHHHHHHHhCcC-CceEEeCCCCCHHHHHHHHHcC
Q 023803 105 QMVIYGIGCLESYGPPRLQLSLAILMKRKFSWI-GDIEVFDPILSSTEARVLEALG 159 (277)
Q Consensus 105 ~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~~-~~v~~yDPvft~~D~~~l~~LG 159 (277)
+|||||||||+.+.+|+||||++++|++.|+.. .+|++|||+||+.|+++|++||
T Consensus 1 ~ivclGLGsf~~~~~a~~QLA~ll~l~~~l~~~~~~v~~yDPvft~~d~~~L~~lG 56 (56)
T PF07985_consen 1 KIVCLGLGSFSSSRSARYQLALLLLLKEELSIPRDQVSIYDPVFTEVDKAFLESLG 56 (56)
T ss_pred CEEEEEecCccccccHHHHHHHHHHHHHHhCCCCCcEEEECCCCCHHHHHHHHHcC
Confidence 599999999999999999999999999999843 5899999999999999999998
No 4
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=78.53 E-value=3.1 Score=38.34 Aligned_cols=23 Identities=26% Similarity=0.414 Sum_probs=17.3
Q ss_pred CcccccCCCcEEeccCCCcccccc
Q 023803 10 PETHMLNEDWTIVLPRRGKQRRNL 33 (277)
Q Consensus 10 ~~~~~~~~~W~~V~~rrg~~r~~~ 33 (277)
-+++.|.|||+.|+ ||||+...+
T Consensus 176 ~~~~pDEdGwv~Vt-r~gr~~~s~ 198 (261)
T KOG4008|consen 176 EESVPDEDGWVTVT-RRGRALVSP 198 (261)
T ss_pred hcCCCCcCceEEEe-eccccccCc
Confidence 46778899999999 557765544
No 5
>PF12923 RRP7: Ribosomal RNA-processing protein 7 (RRP7); InterPro: IPR024326 Ribosomal RNA-processing protein 7 (RRP7) is an essential protein in yeast that is involved in pre-rRNA processing and ribosome assembly []. It is speculated to be required for correct assembly of rpS27 into the pre-ribosomal particle [, ]. This entry includes RRP7 and homologous sequences from other organisms.
Probab=74.82 E-value=1.9 Score=35.86 Aligned_cols=18 Identities=28% Similarity=0.593 Sum_probs=13.4
Q ss_pred cccccCCCcEEeccCCCcc
Q 023803 11 ETHMLNEDWTIVLPRRGKQ 29 (277)
Q Consensus 11 ~~~~~~~~W~~V~~rrg~~ 29 (277)
.+..|.|||++|+ |+|+.
T Consensus 44 ~~~~DEDGwvtVt-r~gr~ 61 (131)
T PF12923_consen 44 ENEPDEDGWVTVT-RGGRK 61 (131)
T ss_pred cCCCCCCCCEEee-cCCcc
Confidence 3566899999999 44554
No 6
>TIGR00379 cobB cobyrinic acid a,c-diamide synthase. This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.
Probab=64.53 E-value=28 Score=34.56 Aligned_cols=79 Identities=10% Similarity=0.020 Sum_probs=58.6
Q ss_pred eEEeCCCCCH---HHHHHHHHcCceEeccCccccccCCCCeEEEecCCCHHHHHHHHHHhhc--ccc-------CcEEEE
Q 023803 140 IEVFDPILSS---TEARVLEALGCSVLSVNEQGRRCAIKPTLFYMPHCEAELYNNLLQANWG--AML-------KQMVLF 207 (277)
Q Consensus 140 v~~yDPvft~---~D~~~l~~LG~~Vl~~n~~g~~~~~~~TLfymPHc~~~Ly~nlL~~nw~--~~L-------~~~vli 207 (277)
..++||+|+- .+.+.|+..|+++..-++..-......-++|+|+....++...|..|.. +.| .+++-+
T Consensus 248 ava~d~afnFy~~~~~~~L~~~g~~~~~~~~~~d~~l~~~d~l~ipGG~~~~~~~~l~~~~~~~~~i~~~~~~G~pv~g~ 327 (449)
T TIGR00379 248 AVAQDQAFNFYYQDNLDALTHNAAELVPFSPLEDTELPDVDAVYIGGGFPELFAEELSQNQALRDSIKTFIHQGLPIYGE 327 (449)
T ss_pred EEEechhhceeHHHHHHHHHHCCCEEEEECCccCCCCCCCCEEEeCCcHHHHHHHHHHhhhHHHHHHHHHHHcCCCEEEE
Confidence 6789999999 9999999999998765442111123456999999999998887776643 211 368889
Q ss_pred ecChhHHHHhh
Q 023803 208 GNSFEMYHQHV 218 (277)
Q Consensus 208 GNsf~~~~~~~ 218 (277)
|+.|......+
T Consensus 328 CgG~~~L~~~i 338 (449)
T TIGR00379 328 CGGLMYLSQSL 338 (449)
T ss_pred cHHHHHHHhhh
Confidence 99988776664
No 7
>PRK01077 cobyrinic acid a,c-diamide synthase; Validated
Probab=46.13 E-value=48 Score=32.86 Aligned_cols=79 Identities=15% Similarity=0.086 Sum_probs=53.0
Q ss_pred eEEeCCCCCHH---HHHHHHHcCceEeccCccccccCCCCeEEEecCCCHHHHHHHHHHhhc---------cccCcEEEE
Q 023803 140 IEVFDPILSST---EARVLEALGCSVLSVNEQGRRCAIKPTLFYMPHCEAELYNNLLQANWG---------AMLKQMVLF 207 (277)
Q Consensus 140 v~~yDPvft~~---D~~~l~~LG~~Vl~~n~~g~~~~~~~TLfymPHc~~~Ly~nlL~~nw~---------~~L~~~vli 207 (277)
..++||+|+-. +.+.|+..|+++..-++.........-++|+|+....++..-|..|-. ..=.+++-+
T Consensus 249 ava~d~af~f~y~e~~~~L~~~g~~~~~~~~~~~~~l~~~D~lilpGG~~~~~~~~l~~~~~~~~~i~~~~~~g~~i~ai 328 (451)
T PRK01077 249 AVARDAAFNFYYPENLELLRAAGAELVFFSPLADEALPDCDGLYLGGGYPELFAAELAANTSMRASIRAAAAAGKPIYAE 328 (451)
T ss_pred EEEecCcccccHHHHHHHHHHCCCEEEEeCCcCCCCCCCCCEEEeCCCchhhHHHHHhhCchhHHHHHHHHHcCCCEEEE
Confidence 57899999988 999999999988665432111222446999999987766444433322 111368888
Q ss_pred ecChhHHHHhh
Q 023803 208 GNSFEMYHQHV 218 (277)
Q Consensus 208 GNsf~~~~~~~ 218 (277)
|+++......+
T Consensus 329 CgG~~~L~~~i 339 (451)
T PRK01077 329 CGGLMYLGESL 339 (451)
T ss_pred cHHHHHHHhhh
Confidence 88887666654
No 8
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=40.40 E-value=3e+02 Score=26.04 Aligned_cols=88 Identities=19% Similarity=0.334 Sum_probs=50.3
Q ss_pred EEEecCCCCCCchhHHHH-HHHHHHHHHhCcCCceEEeCC--------------CCCHHHHH-HHHHcCceEeccCcccc
Q 023803 107 VIYGIGCLESYGPPRLQL-SLAILMKRKFSWIGDIEVFDP--------------ILSSTEAR-VLEALGCSVLSVNEQGR 170 (277)
Q Consensus 107 vclGLGsf~~~~~a~~QL-Alll~L~~~l~~~~~v~~yDP--------------vft~~D~~-~l~~LG~~Vl~~n~~g~ 170 (277)
.|+-+|.|+.-...+..| --+..+.+......-+.-||| +++..|+. +|+++|+.
T Consensus 15 ~vv~iG~FDGvH~GHq~Ll~~a~~~a~~~~~~~~vitFd~~p~~~~~~~~~~~~l~t~eeR~~~l~~~gVD--------- 85 (305)
T PRK05627 15 CVLTIGNFDGVHRGHQALLARAREIARERGLPSVVMTFEPHPREVFAPDKAPARLTPLRDKAELLAELGVD--------- 85 (305)
T ss_pred EEEEEeeCCcCCHHHHHHHHHHHHHHHhcCCCEEEEEecCCHHHHcCCCCCCcCCCCHHHHHHHHHHcCCC---------
Confidence 789999999987766542 334444444431112555665 44544443 46777743
Q ss_pred ccCCCCeEEEecC-------CCHHHHHHHHHHhhccccCcEEEEecChh
Q 023803 171 RCAIKPTLFYMPH-------CEAELYNNLLQANWGAMLKQMVLFGNSFE 212 (277)
Q Consensus 171 ~~~~~~TLfymPH-------c~~~Ly~nlL~~nw~~~L~~~vliGNsf~ 212 (277)
.++.+|- .+.+..+.+|..... ...+++|.+|.
T Consensus 86 ------~~~~~~F~~~~~~ls~e~Fi~~~l~~~l~---~~~iVvG~Df~ 125 (305)
T PRK05627 86 ------YVLVLPFDEEFAKLSAEEFIEDLLVKGLN---AKHVVVGFDFR 125 (305)
T ss_pred ------EEEEecCCHHHhcCCHHHHHHHHHHhccC---CCEEEECCCCC
Confidence 2333332 244566776643211 25899999995
No 9
>PF13289 SIR2_2: SIR2-like domain
Probab=33.85 E-value=2.3e+02 Score=22.24 Aligned_cols=54 Identities=15% Similarity=0.135 Sum_probs=35.0
Q ss_pred eEEEEecCCCCCCchhHHHHHHHHHHHHHhCc-CCceEEeCCCCC-HHHHHHHHHcCceEe
Q 023803 105 QMVIYGIGCLESYGPPRLQLSLAILMKRKFSW-IGDIEVFDPILS-STEARVLEALGCSVL 163 (277)
Q Consensus 105 ~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~-~~~v~~yDPvft-~~D~~~l~~LG~~Vl 163 (277)
.++++|.| |... . .+ .++..+.+..+. ..++++..|--. +..+.++++.|++|+
T Consensus 88 ~~lfiGys-~~D~-~--i~-~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~i~~I 143 (143)
T PF13289_consen 88 TLLFIGYS-FNDP-D--IR-QLLRSALENSGKSRPRHYIVIPDPDDENEREFLEKYGIEVI 143 (143)
T ss_pred CEEEEEEC-CCCH-H--HH-HHHHHHHHhccCCCccEEEEEcCCchHHHHHHHHHcCCEEC
Confidence 58889999 4332 2 22 123344444332 235777777777 999999999999875
No 10
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=29.85 E-value=32 Score=26.98 Aligned_cols=27 Identities=26% Similarity=0.465 Sum_probs=19.8
Q ss_pred ceEEeCCCCCHHHHHHHH-HcCceEecc
Q 023803 139 DIEVFDPILSSTEARVLE-ALGCSVLSV 165 (277)
Q Consensus 139 ~v~~yDPvft~~D~~~l~-~LG~~Vl~~ 165 (277)
+|.+|||.++..+..-+. ..|+++.+.
T Consensus 32 ~V~~~DP~v~~~~~~~~~~~~~~~~~~~ 59 (106)
T PF03720_consen 32 EVSVYDPYVDEEEIKELGKLEGVEVCDD 59 (106)
T ss_dssp EEEEE-TTSHHHHHHHHCHHHCEEEESS
T ss_pred EEEEECCccChHHHHhhCCccceEEecC
Confidence 799999999999887754 356666543
No 11
>cd03130 GATase1_CobB Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase. Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase. CobB plays a role in cobalamin biosythesis catalyzing the conversion of cobyrinic acid to cobyrinic acid a,c-diamide. CobB belongs to the triad family of amidotransferases. Two of the three residues of the catalytic triad that are involved in glutamine binding, hydrolysis and transfer of the resulting ammonia to the acceptor substrate in other triad aminodotransferases are conserved in CobB.
Probab=29.05 E-value=3.9e+02 Score=23.24 Aligned_cols=79 Identities=14% Similarity=0.090 Sum_probs=50.9
Q ss_pred EEeCCCCC---HHHHHHHHHcCceEeccCccccccCCCCeEEEecCCCHHHHHHHHHHh--hc-------cccCcEEEEe
Q 023803 141 EVFDPILS---STEARVLEALGCSVLSVNEQGRRCAIKPTLFYMPHCEAELYNNLLQAN--WG-------AMLKQMVLFG 208 (277)
Q Consensus 141 ~~yDPvft---~~D~~~l~~LG~~Vl~~n~~g~~~~~~~TLfymPHc~~~Ly~nlL~~n--w~-------~~L~~~vliG 208 (277)
.+.|++|+ +...+.|+..|++|.-.++.........-++|+|.....++-..|+.| +. ..=.+++-+|
T Consensus 3 ia~d~aF~f~y~e~~~~l~~~G~~v~~~s~~~~~~l~~~D~lilPGG~~~~~~~~L~~~~~~~~~i~~~~~~g~pilgIC 82 (198)
T cd03130 3 VARDEAFNFYYPENLELLEAAGAELVPFSPLKDEELPDADGLYLGGGYPELFAEELSANQSMRESIRAFAESGGPIYAEC 82 (198)
T ss_pred EEecCccccccHHHHHHHHHCCCEEEEECCCCCCCCCCCCEEEECCCchHHHHHHHHhhHHHHHHHHHHHHcCCCEEEEc
Confidence 46799987 678888999998886543321111223569999997555544445443 21 1124789999
Q ss_pred cChhHHHHhhh
Q 023803 209 NSFEMYHQHVL 219 (277)
Q Consensus 209 Nsf~~~~~~~~ 219 (277)
..+....+.+.
T Consensus 83 gG~qlL~~~~~ 93 (198)
T cd03130 83 GGLMYLGESLD 93 (198)
T ss_pred ccHHHHHHHhh
Confidence 99887777643
No 12
>PRK06823 ornithine cyclodeaminase; Validated
Probab=27.69 E-value=1.4e+02 Score=28.32 Aligned_cols=52 Identities=23% Similarity=0.235 Sum_probs=39.0
Q ss_pred CcceEEEEecCCCCCCchhHHHHHHHHHHHHHhCcCCceEEeCCCCCHHHH--HHHHHcCceE
Q 023803 102 SNMQMVIYGIGCLESYGPPRLQLSLAILMKRKFSWIGDIEVFDPILSSTEA--RVLEALGCSV 162 (277)
Q Consensus 102 ~i~~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~~~~v~~yDPvft~~D~--~~l~~LG~~V 162 (277)
....+.++|-| ..|++|+-+++.+. + +.+|.+||+-....+. +.++..|+.|
T Consensus 127 d~~~l~iiG~G-----~qA~~~~~a~~~v~---~-i~~v~v~~r~~~~a~~~~~~~~~~~~~v 180 (315)
T PRK06823 127 HVSAIGIVGTG-----IQARMQLMYLKNVT---D-CRQLWVWGRSETALEEYRQYAQALGFAV 180 (315)
T ss_pred CCCEEEEECCc-----HHHHHHHHHHHhcC---C-CCEEEEECCCHHHHHHHHHHHHhcCCcE
Confidence 35678999988 68999998877642 3 5789999999888764 3355557665
No 13
>TIGR02371 ala_DH_arch alanine dehydrogenase, Archaeoglobus fulgidus type. This enzyme, a homolog of bacterial ornithine cyclodeaminases and marsupial mu-crystallins, is a homodimeric, NAD-dependent alanine dehydrogenase found in Archaeoglobus fulgidus and several other Archaea. For a number of close homologs, scoring between trusted and noise cutoffs, it is not clear at present what is the enzymatic activity.
Probab=25.26 E-value=1.4e+02 Score=28.23 Aligned_cols=51 Identities=18% Similarity=0.197 Sum_probs=35.6
Q ss_pred CcceEEEEecCCCCCCchhHHHHHHHHHHHHHhCcCCceEEeCCCCCHHHH--HHHHHcCce
Q 023803 102 SNMQMVIYGIGCLESYGPPRLQLSLAILMKRKFSWIGDIEVFDPILSSTEA--RVLEALGCS 161 (277)
Q Consensus 102 ~i~~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~~~~v~~yDPvft~~D~--~~l~~LG~~ 161 (277)
...++-++|.| ..|++|+-.+..+ .+ +.+|++||+-....+. +.++.+|+.
T Consensus 127 ~~~~lgiiG~G-----~qA~~~l~al~~~---~~-~~~v~V~~r~~~~~~~~~~~~~~~g~~ 179 (325)
T TIGR02371 127 DSSVLGIIGAG-----RQAWTQLEALSRV---FD-LEEVSVYCRTPSTREKFALRASDYEVP 179 (325)
T ss_pred CCCEEEEECCC-----HHHHHHHHHHHhc---CC-CCEEEEECCCHHHHHHHHHHHHhhCCc
Confidence 45679999999 4788998666553 23 5689999998777653 334456743
No 14
>PF02423 OCD_Mu_crystall: Ornithine cyclodeaminase/mu-crystallin family; InterPro: IPR003462 This entry represents the bacterial ornithine cyclodeaminase enzyme family, which catalyse the deamination of ornithine to proline []. The family also includes mu-crystallin, a mammalian homologue of bacterial ornithine cyclodeaminase [], which is the major component of the eye lens in several Australian marsupials. mRNA for mu-crystallin has also been found in human retina [].; PDB: 1U7H_B 1X7D_B 2I99_B 3HDJ_A 1VLL_B 1OMO_A.
Probab=24.53 E-value=97 Score=29.17 Aligned_cols=52 Identities=23% Similarity=0.351 Sum_probs=31.8
Q ss_pred cceEEEEecCCCCCCchhHHHHHHHHHHHHHhCcCCceEEeCCCCCHHHH--HHHHHcCceEe
Q 023803 103 NMQMVIYGIGCLESYGPPRLQLSLAILMKRKFSWIGDIEVFDPILSSTEA--RVLEALGCSVL 163 (277)
Q Consensus 103 i~~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~~~~v~~yDPvft~~D~--~~l~~LG~~Vl 163 (277)
...+.++|-| ..|++|+.++..+.. +.+|.+||+--...+. +-++.+|+.|.
T Consensus 128 ~~~l~viGaG-----~QA~~~~~a~~~~~~----i~~v~v~~r~~~~~~~~~~~~~~~~~~v~ 181 (313)
T PF02423_consen 128 ARTLGVIGAG-----VQARWHLRALAAVRP----IKEVRVYSRSPERAEAFAARLRDLGVPVV 181 (313)
T ss_dssp --EEEEE--S-----HHHHHHHHHHHHHS------SEEEEE-SSHHHHHHHHHHHHCCCTCEE
T ss_pred CceEEEECCC-----HHHHHHHHHHHHhCC----ceEEEEEccChhHHHHHHHhhccccccce
Confidence 4578999988 799999998776543 5689999997543333 33444566654
No 15
>PHA00022 VII minor coat protein
Probab=22.69 E-value=18 Score=22.39 Aligned_cols=12 Identities=17% Similarity=0.742 Sum_probs=9.8
Q ss_pred eEEEEecCCCCC
Q 023803 105 QMVIYGIGCLES 116 (277)
Q Consensus 105 ~ivclGLGsf~~ 116 (277)
-++|+|||-++.
T Consensus 14 lVi~FgLG~It~ 25 (28)
T PHA00022 14 LVICFGLGAITG 25 (28)
T ss_pred HHHhhccceeec
Confidence 489999998764
No 16
>PF10307 DUF2410: Hypothetical protein (DUF2410); InterPro: IPR018812 This entry represents a family of proteins conserved in fungi whose function is not known. There are two characteristic sequence motifs, GGWW and TGR.
Probab=22.34 E-value=98 Score=27.75 Aligned_cols=85 Identities=11% Similarity=0.127 Sum_probs=58.3
Q ss_pred ceEEEEecCCCCCCchhHHHHHHHHHHHHHhCcCCceEEeCCC--CCHHHHHHHHHcCce--------EeccCccccccC
Q 023803 104 MQMVIYGIGCLESYGPPRLQLSLAILMKRKFSWIGDIEVFDPI--LSSTEARVLEALGCS--------VLSVNEQGRRCA 173 (277)
Q Consensus 104 ~~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~~~~v~~yDPv--ft~~D~~~l~~LG~~--------Vl~~n~~g~~~~ 173 (277)
-.+|||=-.+=....+..|=.++|..|.+.++.+.+|.+||=- ....=+.|++.+.-. |+...
T Consensus 100 Fd~v~LKp~~~~~~sTm~fK~~~l~~ll~~Y~~~~eI~IYeDR~~hvk~Fr~Ff~~~~~~~r~~i~~~VI~V~------- 172 (197)
T PF10307_consen 100 FDAVCLKPENQRFSSTMDFKQAFLEDLLHTYKNAEEIRIYEDRPKHVKGFRDFFEELNRNTRKPIQWEVIHVP------- 172 (197)
T ss_pred ccEEEeCcccccCccccHHHHHHHHHHHHhcCCCCEEEEEcCCHHHHHHHHHHHHHhhhcccCCCceEEEEeC-------
Confidence 5688886662233457888899999999998877899999844 344446777776543 33322
Q ss_pred CCCeEEEecCCCHHHHHHHHHHh
Q 023803 174 IKPTLFYMPHCEAELYNNLLQAN 196 (277)
Q Consensus 174 ~~~TLfymPHc~~~Ly~nlL~~n 196 (277)
+.+=+.=||-+..+..+++..+
T Consensus 173 -~~~~~L~p~~E~~~V~~mi~~h 194 (197)
T PF10307_consen 173 -PLSTYLDPVVEVALVQRMINEH 194 (197)
T ss_pred -CCCCcCChHHHHHHHHHHHHHh
Confidence 2233347888888888888764
No 17
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=21.07 E-value=36 Score=31.42 Aligned_cols=50 Identities=26% Similarity=0.422 Sum_probs=29.3
Q ss_pred EeCCCCCHHHHHHHHHc-CceEeccC---cccccc----------CCCCeEEEecCCCHHHHHH
Q 023803 142 VFDPILSSTEARVLEAL-GCSVLSVN---EQGRRC----------AIKPTLFYMPHCEAELYNN 191 (277)
Q Consensus 142 ~yDPvft~~D~~~l~~L-G~~Vl~~n---~~g~~~----------~~~~TLfymPHc~~~Ly~n 191 (277)
--||-+-..=-.++..- |+-|+.-+ ..|.++ ....-++|.|||++-||-.
T Consensus 171 ~l~~ell~~yeri~~~~kg~gvvpl~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRILy~~ 234 (239)
T COG1579 171 KLDPELLSEYERIRKNKKGVGVVPLEGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRILYYD 234 (239)
T ss_pred hcCHHHHHHHHHHHhcCCCceEEeecCCcccCCeeeecHHHHHHHhcCCCCccCCccchHHHhh
Confidence 33444444444455544 66665432 233332 2466899999999999864
No 18
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=20.58 E-value=1.7e+02 Score=21.08 Aligned_cols=27 Identities=19% Similarity=0.201 Sum_probs=24.0
Q ss_pred ceEEeCCCCCHHHHHHHHHcCceEecc
Q 023803 139 DIEVFDPILSSTEARVLEALGCSVLSV 165 (277)
Q Consensus 139 ~v~~yDPvft~~D~~~l~~LG~~Vl~~ 165 (277)
.|.+=||.....=.++++..|++++..
T Consensus 30 ~V~~dd~~s~~di~~~~~~~g~~~~~~ 56 (69)
T cd03423 30 LVLATDPSTTRDIPKFCTFLGHELLAQ 56 (69)
T ss_pred EEEeCCCchHHHHHHHHHHcCCEEEEE
Confidence 478889999999999999999999864
No 19
>PRK06199 ornithine cyclodeaminase; Validated
Probab=20.56 E-value=1.1e+02 Score=29.74 Aligned_cols=44 Identities=14% Similarity=0.080 Sum_probs=34.0
Q ss_pred CCcceEEEEecCCCCCCchhHHHHHHHHHHHHHhCcCCceEEeCCCCCHHHH
Q 023803 101 ESNMQMVIYGIGCLESYGPPRLQLSLAILMKRKFSWIGDIEVFDPILSSTEA 152 (277)
Q Consensus 101 ~~i~~ivclGLGsf~~~~~a~~QLAlll~L~~~l~~~~~v~~yDPvft~~D~ 152 (277)
.....+.++|-| ..|++|+.+++.+... +.+|.+||+-....+.
T Consensus 153 ~da~~l~iiG~G-----~QA~~~l~a~~~v~~~---i~~V~v~~r~~~~a~~ 196 (379)
T PRK06199 153 KDSKVVGLLGPG-----VMGKTILAAFMAVCPG---IDTIKIKGRGQKSLDS 196 (379)
T ss_pred CCCCEEEEECCc-----HHHHHHHHHHHHhcCC---ccEEEEECCCHHHHHH
Confidence 345678999988 6899999888876533 5689999998866553
Done!