Query 018023
Match_columns 362
No_of_seqs 131 out of 374
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 05:28:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018023.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018023hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10250 O-FucT: GDP-fucose pr 100.0 8.8E-40 1.9E-44 315.8 3.4 219 29-302 125-349 (351)
2 PF05830 NodZ: Nodulation prot 87.3 2.5 5.5E-05 42.5 8.0 78 204-286 206-289 (321)
3 KOG3849 GDP-fucose protein O-f 59.2 12 0.00027 37.5 4.1 173 45-297 184-369 (386)
4 PF00799 Gemini_AL1: Geminivir 55.6 13 0.00029 32.1 3.3 28 192-220 14-41 (114)
5 PF04561 RNA_pol_Rpb2_2: RNA p 52.4 4.3 9.3E-05 35.8 -0.2 17 200-216 54-70 (190)
6 PF14771 DUF4476: Domain of un 46.3 7.5 0.00016 31.6 0.3 37 194-245 39-75 (95)
7 PF10892 DUF2688: Protein of u 44.2 17 0.00037 28.1 1.9 16 191-207 42-57 (60)
8 PF08924 DUF1906: Domain of un 32.4 47 0.001 29.2 3.1 23 198-220 80-102 (136)
9 COG4878 Uncharacterized protei 31.6 50 0.0011 33.2 3.4 121 200-335 93-221 (309)
10 KOG3705 Glycoprotein 6-alpha-L 30.3 2.5E+02 0.0055 29.9 8.3 44 204-255 398-441 (580)
11 smart00874 B5 tRNA synthetase 28.9 51 0.0011 24.9 2.5 24 187-211 12-35 (71)
12 TIGR01354 cyt_deam_tetra cytid 28.6 63 0.0014 27.9 3.3 47 195-245 80-127 (127)
13 cd06418 GH25_BacA-like BacA is 27.8 62 0.0013 30.5 3.3 25 198-222 92-116 (212)
14 PF07862 Nif11: Nitrogen fixat 25.7 55 0.0012 23.5 2.0 29 183-212 16-44 (49)
15 PF13756 Stimulus_sens_1: Stim 25.2 85 0.0018 26.7 3.4 27 195-221 1-29 (112)
16 PRK10556 hypothetical protein; 24.4 49 0.0011 28.4 1.7 20 195-214 3-22 (111)
17 KOG3111 D-ribulose-5-phosphate 23.9 2.5E+02 0.0054 27.2 6.4 44 194-240 121-171 (224)
18 PLN02232 ubiquinone biosynthes 23.8 72 0.0016 28.1 2.8 28 194-221 125-152 (160)
19 PLN02757 sirohydrochlorine fer 22.9 74 0.0016 28.6 2.7 64 36-99 60-131 (154)
20 PF09400 DUF2002: Protein of u 22.2 45 0.00098 28.9 1.1 19 195-213 3-21 (111)
21 PRK05578 cytidine deaminase; V 21.9 93 0.002 27.3 3.1 40 202-245 91-130 (131)
22 PF03484 B5: tRNA synthetase B 20.4 56 0.0012 25.2 1.2 26 187-213 12-37 (70)
No 1
>PF10250 O-FucT: GDP-fucose protein O-fucosyltransferase; InterPro: IPR019378 This is a family of conserved proteins representing the enzyme responsible for adding O-fucose to EGF (epidermal growth factor-like) repeats. Six highly conserved cysteines are present as well as a DXD-like motif (ERD), conserved in mammals, Drosophila, and Caenorhabditis elegans. Both features are characteristic of several glycosyltransferase families. The enzyme is a membrane-bound protein released by proteolysis and, as for most glycosyltransferases, is strongly activated by manganese []. ; PDB: 3ZY6_A 3ZY3_A 3ZY5_A 3ZY2_A 3ZY4_A.
Probab=100.00 E-value=8.8e-40 Score=315.75 Aligned_cols=219 Identities=41% Similarity=0.625 Sum_probs=151.5
Q ss_pred CCChhHHHhhhHHHHHhc------CeEEEeccCCCCCCCCCchhhhhhhhhhcccccccchhHHHHHHHHHHHHhcccCC
Q 018023 29 ESKPSFYLKNIIPILLRN------GVVHLLGFGNRLAFDPIPFQLQRLRCRCNFHALQFAPKIQETGALLLRRLRKHEGH 102 (362)
Q Consensus 29 ~s~~~~Y~~~ilP~L~~~------~Vi~l~~~~~rLa~~~~p~~iQrLRCrvnf~ALrF~p~I~~lg~~LV~Rlr~~~~~ 102 (362)
++.+.+|+++++|.+.++ +|+.|.++...+..+..+.++|| +|+|+++|+++|+++|++++..
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~--- 193 (351)
T PF10250_consen 125 WSSPSLYLEDVLPELREWNENSEHPVIAFTGFESRLPDNYLDRDLQR--------YLRFSPEIRELADKFIKRLLAG--- 193 (351)
T ss_dssp E-TTSTTTT-STTHHHHHHHHTT-SEEEESS-SS-SS--GGGGGGGG--------G--B-HHHHHHHHHHHHHH------
T ss_pred cCCchhhHHHhhhHHhhhccccccccceeccccccchhcccCccceE--------EEecCHHHHHHHHHHHHHhhcc---
Confidence 788999999999999987 99999999999998888999988 9999999999999999999822
Q ss_pred CCCCCcccCCCccchhhhhhhcccccCCceEEEeechhhhhHhhccCCCCCChHHHHHHHHHHHhhhhhhhhcccCCCCC
Q 018023 103 SGPLDHYLVGPYADSIMKEKRGQSAKASRYLAIHLRFEIDMVAHSLCEFGGGEEERQELEKYREIHFPALAHLKKTTKLP 182 (362)
Q Consensus 103 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~yiAlHLRfE~DMlA~sgC~~g~~~~E~~eL~~~R~~~~~~~~~~~~~~~~i 182 (362)
.++|||+|||+|+|| +++|.+++ +...|+.+|.. ..+.+
T Consensus 194 --------------------------~~~yiavHlR~~~D~--~~~C~~~~---~~~~~~~~~~~----------~~~~~ 232 (351)
T PF10250_consen 194 --------------------------GGPYIAVHLRRGKDW--FSACEFKG---ERHLLASPRCW----------GKKSI 232 (351)
T ss_dssp ---------------------------SSEEEEEE--SHHH--HHHHCT-T-------TTTHHHH-----------GGGT
T ss_pred --------------------------cCceEEEeecccCch--HhhcccCC---chHHHHHhHhh----------ccccc
Confidence 248999999999999 89999954 77788888853 12234
Q ss_pred ChhhhhcCCCCCCCHHHHHHHHHHhCCCCCcEEEEeeccccCccccchhHHhhCCCcccccccCCccccccccccccccc
Q 018023 183 SPAEIRSEGLCPLTPEEAVLMLAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLLSATELEPFKNFSSQLA 262 (362)
Q Consensus 183 ~~~~~R~~G~CPLtPeEvgl~L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~s~eEL~~f~~~ss~~A 262 (362)
.+...+..|.||++|++++.+++++|+.+.|.||||++++|||.+.|++|++.||++++|+++.+.+|+++|.+ +++|
T Consensus 233 ~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~a 310 (351)
T PF10250_consen 233 NPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEELEPLND--DQLA 310 (351)
T ss_dssp T-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--S-------S--H
T ss_pred cchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHHhhhccc--cchh
Confidence 56788899999999999999999999999999999999999999999999999999999999999999999996 9999
Q ss_pred hhhheeeccCceeeecCCCCchhhhhhhccccccCCCCcc
Q 018023 263 ALDFIGCTAANAFAMTDSGSQLSSLVSGYRIYYGGGKMPT 302 (362)
Q Consensus 263 ALDy~Vc~~SDvFv~t~~G~nma~~V~GhR~y~G~~~~kT 302 (362)
+||++||++||+||+|. ||+|+..|+++|.|.|..++||
T Consensus 311 ~vD~~i~~~s~~Figt~-~Stfs~~i~~~R~~~g~~~~~~ 349 (351)
T PF10250_consen 311 MVDQEICSRSDVFIGTC-GSTFSSNIARERHYRGKPKRKS 349 (351)
T ss_dssp HHHHHHHHHSSEEEE-T-T-HHHHHHHHHHHHSSSS---E
T ss_pred HHHHHHHhcCCEEEecC-cchhHHHhhcccCcCCCCCCCC
Confidence 99999999999999997 7789999999999999876454
No 2
>PF05830 NodZ: Nodulation protein Z (NodZ); InterPro: IPR008716 The nodulation genes of Rhizobia are regulated by the nodD gene product in response to host-produced flavonoids and appear to encode enzymes involved in the production of a lipo-chitose signal molecule required for infection and nodule formation. NodZ is required for the addition of a 2-O-methylfucose residue to the terminal reducing N-acetylglucosamine of the nodulation signal. This substitution is essential for the biological activity of this molecule. Mutations in nodZ result in defective nodulation. nodZ represents a unique nodulation gene that is not under the control of NodD and yet is essential for the synthesis of an active nodulation signal [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3SIX_A 2HLH_A 2HHC_A 3SIW_A 2OCX_A.
Probab=87.26 E-value=2.5 Score=42.49 Aligned_cols=78 Identities=14% Similarity=0.267 Sum_probs=43.1
Q ss_pred HHHhCCCCCcEEEEeeccccCccccchhHHhhCCCcccccccCCccccccccccc-----cccchhhheeeccCceee-e
Q 018023 204 LAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLLSATELEPFKNFS-----SQLAALDFIGCTAANAFA-M 277 (362)
Q Consensus 204 L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~s~eEL~~f~~~s-----s~~AALDy~Vc~~SDvFv-~ 277 (362)
++++=.+.++.|+||+-. ...++-+++.||.+++.+.=..+..-.+..+.. -..|-+|-+.-+.+|+.| +
T Consensus 206 ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~gg~~ALIDM~LLSrCD~LIr~ 281 (321)
T PF05830_consen 206 AKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEGGESALIDMYLLSRCDYLIRF 281 (321)
T ss_dssp HHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHHHHHHHHHHHHHHHHTTSSEEEEE
T ss_pred HHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCcccccccchHHHHHHHHHHHHhCCeEEEc
Confidence 345556678999999985 577999999999998764433222222333211 125778999999999999 5
Q ss_pred cCCCCchhh
Q 018023 278 TDSGSQLSS 286 (362)
Q Consensus 278 t~~G~nma~ 286 (362)
+-.. .|.+
T Consensus 282 ~ptS-~Fsr 289 (321)
T PF05830_consen 282 PPTS-AFSR 289 (321)
T ss_dssp STT--GGGH
T ss_pred CCCc-hhhh
Confidence 5333 2543
No 3
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=59.19 E-value=12 Score=37.48 Aligned_cols=173 Identities=24% Similarity=0.342 Sum_probs=94.0
Q ss_pred hcCeEEEeccCCCCCCCCCchhhhhhhhhhcccccccchhHHHHHHHHHHHHhcccCCCCCCCcccCCCccchhhhhhhc
Q 018023 45 RNGVVHLLGFGNRLAFDPIPFQLQRLRCRCNFHALQFAPKIQETGALLLRRLRKHEGHSGPLDHYLVGPYADSIMKEKRG 124 (362)
Q Consensus 45 ~~~Vi~l~~~~~rLa~~~~p~~iQrLRCrvnf~ALrF~p~I~~lg~~LV~Rlr~~~~~~~~~~~~~~g~~~~~~~~~~~~ 124 (362)
+|-|+.|++.....--.+---.||| -|+.+.+|.+.|++.+.-
T Consensus 184 eyPVLAf~gAPA~FPv~~e~~~lQk--------Yl~WS~r~~e~~k~fI~a----------------------------- 226 (386)
T KOG3849|consen 184 EYPVLAFSGAPAPFPVKGEVWSLQK--------YLRWSSRITEQAKKFISA----------------------------- 226 (386)
T ss_pred cCceeeecCCCCCCccccccccHHH--------HHHHHHHHHHHHHHHHHH-----------------------------
Confidence 4778888876533221222335777 378888998888877643
Q ss_pred ccccCCceEEEeechhhhhHhhccCCCCCChHHHHHHHHHHHhhhhhhhhcccCCCCCCh---hhhhcCCC-----CCCC
Q 018023 125 QSAKASRYLAIHLRFEIDMVAHSLCEFGGGEEERQELEKYREIHFPALAHLKKTTKLPSP---AEIRSEGL-----CPLT 196 (362)
Q Consensus 125 ~~~~~~~yiAlHLRfE~DMlA~sgC~~g~~~~E~~eL~~~R~~~~~~~~~~~~~~~~i~~---~~~R~~G~-----CPLt 196 (362)
..+.|||++|||-..|++-- |.+-..... | |. .-++ ...+..|- |-=.
T Consensus 227 --~L~rpfvgiHLRng~DWvra--Cehikd~~~-------~--hl-----------fASpQClGy~~~~gaLt~e~C~Ps 282 (386)
T KOG3849|consen 227 --NLARPFVGIHLRNGADWVRA--CEHIKDTTN-------R--HL-----------FASPQCLGYGHHLGALTKEICSPS 282 (386)
T ss_pred --hcCcceeEEEeecCchHHHH--HHHhcccCC-------C--cc-----------ccChhhccccccccccchhhhCcc
Confidence 12458999999999999864 865211000 0 00 0000 01122222 3222
Q ss_pred HHHHH----HHHHHhCCCCCcEEEEeeccccCccccchhHH-hhCCCcccccccCCccccccccccccccchhhheeecc
Q 018023 197 PEEAV----LMLAALGFNRKTHVFVAGAQIYGGTRRLGALN-SLYPYLVTKENLLSATELEPFKNFSSQLAALDFIGCTA 271 (362)
Q Consensus 197 PeEvg----l~L~alGf~~~T~IYlA~geiyGg~~~l~~L~-~~FPnl~tKe~L~s~eEL~~f~~~ss~~AALDy~Vc~~ 271 (362)
-+++- +-.+.+| .--.+|+|+.. +.-+.-|. +++|-=..-- .|+| --+-+|..|--+
T Consensus 283 k~~I~rqik~~v~si~--dakSVfVAsDs----~hmi~Eln~aL~~~~i~vh------~l~p------dd~y~dLaIlGq 344 (386)
T KOG3849|consen 283 KQQILRQIKEKVGSIG--DAKSVFVASDS----DHMIDELNEALKPYEIEVH------RLEP------DDMYTDLAILGQ 344 (386)
T ss_pred HHHHHHHHHHHHhhhc--ccceEEEeccc----hhhhHHHHHhhcccceeEE------ecCc------ccchhhhhhhcc
Confidence 22222 2223333 23358888863 22222333 3333222111 1111 124478888999
Q ss_pred CceeeecCCCCchhhhhhhccccccC
Q 018023 272 ANAFAMTDSGSQLSSLVSGYRIYYGG 297 (362)
Q Consensus 272 SDvFv~t~~G~nma~~V~GhR~y~G~ 297 (362)
||-||.+--. .|+..|--.|-..|+
T Consensus 345 adhFiGNCvS-sfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 345 ADHFIGNCVS-SFSAFVKRERDHAGR 369 (386)
T ss_pred cchhhhhhHH-HHHHHHhhhhcccCC
Confidence 9999977545 599999888888874
No 4
>PF00799 Gemini_AL1: Geminivirus Rep catalytic domain; InterPro: IPR022690 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity. The AL1 proteins encodes the replication initiator protein (Rep) of geminiviruses, which is a replicon-specific initiator enzyme and is an essential component of the replisome []. For geminivirus Rep protein, this N-terminal region is crucial for origin recognition and DNA cleavage and nucleotidyl transfer []. It is found in association with PF08283 from PFAM. ; GO: 0006260 DNA replication; PDB: 1L5I_A 1L2M_A.
Probab=55.64 E-value=13 Score=32.11 Aligned_cols=28 Identities=29% Similarity=0.333 Sum_probs=15.9
Q ss_pred CCCCCHHHHHHHHHHhCCCCCcEEEEeec
Q 018023 192 LCPLTPEEAVLMLAALGFNRKTHVFVAGA 220 (362)
Q Consensus 192 ~CPLtPeEvgl~L~alGf~~~T~IYlA~g 220 (362)
+|||+|||+...|++|--+ ....||..+
T Consensus 14 qC~l~ke~~l~~L~~l~~~-~~~~yI~v~ 41 (114)
T PF00799_consen 14 QCSLTKEEALEQLKNLLTP-SNKKYIRVC 41 (114)
T ss_dssp T----HHHHHHHHHH---S-S-EEEEEEE
T ss_pred CCCCCHHHHHHHHHHhCCc-cCceEEEee
Confidence 5999999999999999764 467787554
No 5
>PF04561 RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; InterPro: IPR007642 RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain []. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble. Many of the bacterial members contain large insertions within this domain, a region known as dispensable region 1 (DRI).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 2Y0S_R 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C ....
Probab=52.45 E-value=4.3 Score=35.75 Aligned_cols=17 Identities=29% Similarity=0.616 Sum_probs=12.1
Q ss_pred HHHHHHHhCCCCCcEEE
Q 018023 200 AVLMLAALGFNRKTHVF 216 (362)
Q Consensus 200 vgl~L~alGf~~~T~IY 216 (362)
+.++|+|||+.++.-||
T Consensus 54 i~ilLrALG~~sd~eI~ 70 (190)
T PF04561_consen 54 IVILLRALGIESDKEII 70 (190)
T ss_dssp HHHHHHHTT--STCHHH
T ss_pred eEEeehhhcCcCccccc
Confidence 67899999998876554
No 6
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=46.34 E-value=7.5 Score=31.60 Aligned_cols=37 Identities=32% Similarity=0.575 Sum_probs=32.1
Q ss_pred CCCHHHHHHHHHHhCCCCCcEEEEeeccccCccccchhHHhhCCCccccccc
Q 018023 194 PLTPEEAVLMLAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENL 245 (362)
Q Consensus 194 PLtPeEvgl~L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L 245 (362)
++|-.+++-+|+-+.|++ .+|+.|+-++|++++++.-
T Consensus 39 ~~T~~Qv~~il~~f~fd~---------------~kl~~lk~l~p~i~D~~n~ 75 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN---------------DKLKALKLLYPYIVDPQNY 75 (95)
T ss_pred ceeHHHHHHHHHHcCCCH---------------HHHHHHHHHhhhccCHHHH
Confidence 499999999999998864 3599999999999998643
No 7
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=44.15 E-value=17 Score=28.13 Aligned_cols=16 Identities=50% Similarity=0.765 Sum_probs=14.1
Q ss_pred CCCCCCHHHHHHHHHHh
Q 018023 191 GLCPLTPEEAVLMLAAL 207 (362)
Q Consensus 191 G~CPLtPeEvgl~L~al 207 (362)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 568 9999999999875
No 8
>PF08924 DUF1906: Domain of unknown function (DUF1906); InterPro: IPR015020 This entry represents a family of uncharacterised hypothetical bacterial proteins. ; PDB: 1SFS_A.
Probab=32.40 E-value=47 Score=29.17 Aligned_cols=23 Identities=35% Similarity=0.452 Sum_probs=15.1
Q ss_pred HHHHHHHHHhCCCCCcEEEEeec
Q 018023 198 EEAVLMLAALGFNRKTHVFVAGA 220 (362)
Q Consensus 198 eEvgl~L~alGf~~~T~IYlA~g 220 (362)
......-++||||..|.||.|--
T Consensus 80 ~~A~~~A~~lG~p~gt~IYfavD 102 (136)
T PF08924_consen 80 RDAVAAARALGFPAGTPIYFAVD 102 (136)
T ss_dssp HHHHHHHHHTT--SS-EEEEE--
T ss_pred HHHHHHHHHcCCCCCCEEEEEee
Confidence 45566788999999999999986
No 9
>COG4878 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.63 E-value=50 Score=33.16 Aligned_cols=121 Identities=17% Similarity=0.110 Sum_probs=73.8
Q ss_pred HHHHHHHhCCC-CCcEEEEeeccccCccccchhHHhhCCCcccccccCCccccccccccccc-cchhhheeeccCceeee
Q 018023 200 AVLMLAALGFN-RKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLLSATELEPFKNFSSQ-LAALDFIGCTAANAFAM 277 (362)
Q Consensus 200 vgl~L~alGf~-~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~s~eEL~~f~~~ss~-~AALDy~Vc~~SDvFv~ 277 (362)
++.++..|--. -+|.||++.+.| +-++.-..|.+.||++-|-.++.+.+|+.+|...+-. ..++ .|==
T Consensus 93 L~~y~~~ls~~~y~~~vfVppSni-l~q~gk~alvk~~p~lktissiy~~deykd~~se~g~~ktg~---------~lPR 162 (309)
T COG4878 93 LADYGDILSITGYDTFVFVPPSNI-LLQKGKFALVKQAPSLKTISSIYNTDEYKDFNSESGIQKTGL---------ILPR 162 (309)
T ss_pred HHHHHHHHhccccceEEEeCcccc-cchhHHHHHHHhCCCcceeeeEecccccCcccchheeccccc---------cccc
Confidence 44455555444 479999999998 5667788999999999999999999999999754333 2221 1111
Q ss_pred cCCCC-----chhhhhhhccccccCCCCcccccchHHHHHHHhcC-CCccHHHHHHHHHHHHHh
Q 018023 278 TDSGS-----QLSSLVSGYRIYYGGGKMPTIRPNKRRLAAIFVKN-STIEWKVFEQRVRKAVRQ 335 (362)
Q Consensus 278 t~~G~-----nma~~V~GhR~y~G~~~~kTi~Pdrk~l~~lf~~~-~~~~w~~f~~~v~~~~~~ 335 (362)
+.+|. .|-.++-+--.+=-..| -++||-.-=+ +.+ ...+|++...+.+.++.+
T Consensus 163 ~tSg~y~d~~t~w~~~n~l~~~g~~~h--fvHPddvidl---Dr~~k~k~Wnel~k~~~sl~~e 221 (309)
T COG4878 163 VTSGSYEDHFTHWLFPNLLQHSGSLEH--FVHPDDVIDL---DRDCKVKAWNELSKQLTSLLWE 221 (309)
T ss_pred cccCccchHHHHHHhcchhhcccceee--ecCchhhhcc---ccCcccccHHHHHHHHHHHHHH
Confidence 12333 12222222111111222 5778764211 112 346899998888887765
No 10
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=30.33 E-value=2.5e+02 Score=29.93 Aligned_cols=44 Identities=18% Similarity=0.265 Sum_probs=28.2
Q ss_pred HHHhCCCCCcEEEEeeccccCccccchhHHhhCCCcccccccCCcccccccc
Q 018023 204 LAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLLSATELEPFK 255 (362)
Q Consensus 204 L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~s~eEL~~f~ 255 (362)
|..=|=+-.-+||||+.+. ..+.--+.-|||.. +....|.+.-.
T Consensus 398 le~rg~~~~rRiflAsDDp----~vv~EAk~kYPnYe----~igd~eia~~A 441 (580)
T KOG3705|consen 398 LEKRGKPLERRIFLASDDP----TVVPEAKNKYPNYE----VIGDTEIAKTA 441 (580)
T ss_pred HHHhCCchhheEEEecCCc----hhchHhhccCCCcE----EeccHHHHHHh
Confidence 3333445567899999873 45666788899974 44445555433
No 11
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=28.94 E-value=51 Score=24.94 Aligned_cols=24 Identities=42% Similarity=0.506 Sum_probs=19.8
Q ss_pred hhcCCCCCCCHHHHHHHHHHhCCCC
Q 018023 187 IRSEGLCPLTPEEAVLMLAALGFNR 211 (362)
Q Consensus 187 ~R~~G~CPLtPeEvgl~L~alGf~~ 211 (362)
.+..|. .++++|+.-+|+.|||.-
T Consensus 12 ~~llG~-~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGL-DLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCC-CCCHHHHHHHHHHCCCeE
Confidence 345565 599999999999999975
No 12
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric. This small, homotetrameric zinc metalloprotein is found in humans and most bacteria. A related, homodimeric form with a much larger subunit is found in E. coli and in Arabidopsis. Both types may act on deoxycytidine as well as cytidine.
Probab=28.64 E-value=63 Score=27.91 Aligned_cols=47 Identities=21% Similarity=0.406 Sum_probs=33.8
Q ss_pred CCHHHH-HHHHHHhCCCCCcEEEEeeccccCccccchhHHhhCCCccccccc
Q 018023 195 LTPEEA-VLMLAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENL 245 (362)
Q Consensus 195 LtPeEv-gl~L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L 245 (362)
++|--+ -.+|..++ +.+|.|++...+ |.....+|+++.|.-+.++.|
T Consensus 80 ~sPCG~Crq~l~e~~-~~~~~v~~~~~~---~~~~~~~l~eLLP~~f~~~~l 127 (127)
T TIGR01354 80 VSPCGACRQVLAEFA-GPDTPIYMTNND---GTYKVYTVGELLPFGFGPSDL 127 (127)
T ss_pred cCccHHHHHHHHHhC-CCCcEEEEECCC---CCEEEEEHHHhCcCcCCcCcC
Confidence 344333 34788887 678999999875 555567899999998876653
No 13
>cd06418 GH25_BacA-like BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of Bacillus subtilis. BacA has a C-terminal catalytic glycosyl hydrolase family 25 (GH25) domain and an N-terminal peptidoglycan-binding domain comprised of three alpha helices which is similar to a domain found in matrixins.
Probab=27.76 E-value=62 Score=30.53 Aligned_cols=25 Identities=32% Similarity=0.312 Sum_probs=20.6
Q ss_pred HHHHHHHHHhCCCCCcEEEEeeccc
Q 018023 198 EEAVLMLAALGFNRKTHVFVAGAQI 222 (362)
Q Consensus 198 eEvgl~L~alGf~~~T~IYlA~gei 222 (362)
.+..-..++||||..|.||+|--.-
T Consensus 92 ~~A~~~A~~lG~p~gs~IYfavD~d 116 (212)
T cd06418 92 RDAVAAARALGFPPGTIIYFAVDFD 116 (212)
T ss_pred HHHHHHHHHcCCCCCCEEEEEeecC
Confidence 4455678899999999999998764
No 14
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=25.69 E-value=55 Score=23.46 Aligned_cols=29 Identities=24% Similarity=0.437 Sum_probs=23.4
Q ss_pred ChhhhhcCCCCCCCHHHHHHHHHHhCCCCC
Q 018023 183 SPAEIRSEGLCPLTPEEAVLMLAALGFNRK 212 (362)
Q Consensus 183 ~~~~~R~~G~CPLtPeEvgl~L~alGf~~~ 212 (362)
|++.+..-..|. +|+|+.-+.+..||.=+
T Consensus 16 d~~l~~~l~~~~-~~~e~~~lA~~~Gy~ft 44 (49)
T PF07862_consen 16 DPELREQLKACQ-NPEEVVALAREAGYDFT 44 (49)
T ss_pred CHHHHHHHHhcC-CHHHHHHHHHHcCCCCC
Confidence 466666667785 99999999999999743
No 15
>PF13756 Stimulus_sens_1: Stimulus-sensing domain
Probab=25.21 E-value=85 Score=26.66 Aligned_cols=27 Identities=26% Similarity=0.311 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHhCCCCCcEE--EEeecc
Q 018023 195 LTPEEAVLMLAALGFNRKTHV--FVAGAQ 221 (362)
Q Consensus 195 LtPeEvgl~L~alGf~~~T~I--YlA~ge 221 (362)
|.||.++-+|+-|.-+.+|+. |=+.|.
T Consensus 1 l~pe~a~plLrrL~~Pt~~RARlyd~dG~ 29 (112)
T PF13756_consen 1 LNPERARPLLRRLISPTRTRARLYDPDGN 29 (112)
T ss_pred CCHHHHHHHHHHhCCCCCceEEEECCCCC
Confidence 689999999999999999974 444444
No 16
>PRK10556 hypothetical protein; Provisional
Probab=24.42 E-value=49 Score=28.44 Aligned_cols=20 Identities=30% Similarity=0.506 Sum_probs=17.5
Q ss_pred CCHHHHHHHHHHhCCCCCcE
Q 018023 195 LTPEEAVLMLAALGFNRKTH 214 (362)
Q Consensus 195 LtPeEvgl~L~alGf~~~T~ 214 (362)
|-|.||+.+|..-||..+..
T Consensus 3 LRPDEVArVLe~aGF~~D~v 22 (111)
T PRK10556 3 LRPDEVARVLEKAGFTVDVV 22 (111)
T ss_pred cChHHHHHHHHhcCceEEEe
Confidence 67999999999999987743
No 17
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=23.91 E-value=2.5e+02 Score=27.15 Aligned_cols=44 Identities=27% Similarity=0.339 Sum_probs=30.4
Q ss_pred CCCHHHHHHHHHHhCCCCCcEEEEeeccccCccccch-------hHHhhCCCcc
Q 018023 194 PLTPEEAVLMLAALGFNRKTHVFVAGAQIYGGTRRLG-------ALNSLYPYLV 240 (362)
Q Consensus 194 PLtPeEvgl~L~alGf~~~T~IYlA~geiyGg~~~l~-------~L~~~FPnl~ 240 (362)
|=||-|....+.. .-+-.+-.+.--=|||++.|. -||+-|||+.
T Consensus 121 PgT~Ve~~~~~~~---~~D~vLvMtVePGFGGQkFme~mm~KV~~lR~kyp~l~ 171 (224)
T KOG3111|consen 121 PGTPVEDLEPLAE---HVDMVLVMTVEPGFGGQKFMEDMMPKVEWLREKYPNLD 171 (224)
T ss_pred CCCcHHHHHHhhc---cccEEEEEEecCCCchhhhHHHHHHHHHHHHHhCCCce
Confidence 5677777776665 234455555544599999886 5888899884
No 18
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=23.81 E-value=72 Score=28.06 Aligned_cols=28 Identities=29% Similarity=0.322 Sum_probs=25.4
Q ss_pred CCCHHHHHHHHHHhCCCCCcEEEEeecc
Q 018023 194 PLTPEEAVLMLAALGFNRKTHVFVAGAQ 221 (362)
Q Consensus 194 PLtPeEvgl~L~alGf~~~T~IYlA~ge 221 (362)
+++|+|..-+|+..||.+-+.-+++.|-
T Consensus 125 f~~~~el~~ll~~aGF~~~~~~~~~~g~ 152 (160)
T PLN02232 125 YLTGEELETLALEAGFSSACHYEISGGF 152 (160)
T ss_pred CcCHHHHHHHHHHcCCCcceEEECcchH
Confidence 5899999999999999999988888875
No 19
>PLN02757 sirohydrochlorine ferrochelatase
Probab=22.89 E-value=74 Score=28.59 Aligned_cols=64 Identities=14% Similarity=0.047 Sum_probs=46.3
Q ss_pred HhhhHHHHHhcC--eEEEecc---CCCCCCCCCchhhhhhhhhhcccccccchhHH---HHHHHHHHHHhcc
Q 018023 36 LKNIIPILLRNG--VVHLLGF---GNRLAFDPIPFQLQRLRCRCNFHALQFAPKIQ---ETGALLLRRLRKH 99 (362)
Q Consensus 36 ~~~ilP~L~~~~--Vi~l~~~---~~rLa~~~~p~~iQrLRCrvnf~ALrF~p~I~---~lg~~LV~Rlr~~ 99 (362)
+++.+-.+.+.| -|.+.|+ ......+.+|..++.++++..-..+.+.++|- .|.+.|++|+++.
T Consensus 60 l~eal~~l~~~g~~~vvVvP~FL~~G~H~~~DIp~~v~~~~~~~p~~~i~~~~pLG~~p~l~~ll~~Ri~ea 131 (154)
T PLN02757 60 IKDAFGRCVEQGASRVIVSPFFLSPGRHWQEDIPALTAEAAKEHPGVKYLVTAPIGLHELMVDVVNDRIKYC 131 (154)
T ss_pred HHHHHHHHHHCCCCEEEEEEhhhcCCcchHhHHHHHHHHHHHHCCCcEEEECCCCCCCHHHHHHHHHHHHHH
Confidence 355555555433 4444443 46666667999999999987766788888887 8999999999975
No 20
>PF09400 DUF2002: Protein of unknown function (DUF2002); InterPro: IPR018994 This entry represents a group of putative cytoplasmic proteins. The structure of these proteins form an antiparallel beta sheet and contain some alpha helical regions. ; PDB: 2G7J_A.
Probab=22.24 E-value=45 Score=28.85 Aligned_cols=19 Identities=37% Similarity=0.658 Sum_probs=14.7
Q ss_pred CCHHHHHHHHHHhCCCCCc
Q 018023 195 LTPEEAVLMLAALGFNRKT 213 (362)
Q Consensus 195 LtPeEvgl~L~alGf~~~T 213 (362)
|-|.||+.+|..-||..+.
T Consensus 3 lrpdeva~vle~~gf~~d~ 21 (111)
T PF09400_consen 3 LRPDEVARVLEKAGFERDY 21 (111)
T ss_dssp --HHHHHHHHHHTT-EEEE
T ss_pred cChHHHHHHHHhcCceEEE
Confidence 6799999999999998774
No 21
>PRK05578 cytidine deaminase; Validated
Probab=21.90 E-value=93 Score=27.32 Aligned_cols=40 Identities=28% Similarity=0.413 Sum_probs=30.9
Q ss_pred HHHHHhCCCCCcEEEEeeccccCccccchhHHhhCCCccccccc
Q 018023 202 LMLAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENL 245 (362)
Q Consensus 202 l~L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L 245 (362)
-+|.-++ +.+|.||+...+ |...-.+|+++.|.-+++++|
T Consensus 91 Q~l~e~~-~~~~~v~l~~~~---~~~~~~~l~eLLP~~f~~~~l 130 (131)
T PRK05578 91 QVLAEFG-GPDLLVTLVAKD---GPTGEMTLGELLPYAFTPDDL 130 (131)
T ss_pred HHHHHhC-CCCcEEEEEcCC---CCEEEEEHHHhCcCcCChhhc
Confidence 4566664 579999999875 445567899999999988776
No 22
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=20.36 E-value=56 Score=25.19 Aligned_cols=26 Identities=31% Similarity=0.593 Sum_probs=17.3
Q ss_pred hhcCCCCCCCHHHHHHHHHHhCCCCCc
Q 018023 187 IRSEGLCPLTPEEAVLMLAALGFNRKT 213 (362)
Q Consensus 187 ~R~~G~CPLtPeEvgl~L~alGf~~~T 213 (362)
.+..|. .++++|+.-+|+.|||.-.-
T Consensus 12 ~~~lG~-~i~~~~i~~~L~~lg~~~~~ 37 (70)
T PF03484_consen 12 NKLLGI-DISPEEIIKILKRLGFKVEK 37 (70)
T ss_dssp HHHHTS----HHHHHHHHHHTT-EEEE
T ss_pred HHHhCC-CCCHHHHHHHHHHCCCEEEE
Confidence 345555 49999999999999997654
Done!