Query 020945
Match_columns 319
No_of_seqs 166 out of 361
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 06:24:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020945.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020945hhsearch_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 1E-39 2.2E-44 307.7 3.7 204 3-225 135-345 (351)
2 PF05830 NodZ: Nodulation prot 95.7 0.057 1.2E-06 53.2 8.8 138 39-214 142-290 (321)
3 KOG3849 GDP-fucose protein O-f 94.0 0.2 4.3E-06 49.2 7.5 150 42-223 209-368 (386)
4 KOG3705 Glycoprotein 6-alpha-L 74.3 7.5 0.00016 40.3 6.1 132 42-213 340-478 (580)
5 PLN02232 ubiquinone biosynthes 73.2 12 0.00025 32.4 6.4 109 27-149 38-152 (160)
6 PF14771 DUF4476: Domain of un 67.5 4 8.6E-05 32.6 2.0 36 122-172 39-74 (95)
7 PF06180 CbiK: Cobalt chelatas 59.0 42 0.00092 32.3 7.6 132 95-231 24-205 (262)
8 PRK15451 tRNA cmo(5)U34 methyl 57.1 19 0.00041 33.2 4.8 87 41-144 133-230 (247)
9 PF00036 EF-hand_1: EF hand; 55.1 11 0.00025 24.2 2.2 27 233-259 3-29 (29)
10 PF02845 CUE: CUE domain; Int 52.9 12 0.00026 25.8 2.1 38 156-198 4-41 (42)
11 PF04561 RNA_pol_Rpb2_2: RNA p 51.4 6.8 0.00015 33.7 0.9 17 128-144 54-70 (190)
12 PF00799 Gemini_AL1: Geminivir 50.4 18 0.00039 30.8 3.3 29 120-149 14-42 (114)
13 PF00667 FAD_binding_1: FAD bi 45.4 46 0.001 30.3 5.3 116 121-259 52-177 (219)
14 PF10892 DUF2688: Protein of u 41.7 19 0.00042 27.6 1.9 16 119-135 42-57 (60)
15 PF13833 EF-hand_8: EF-hand do 41.2 31 0.00067 24.0 2.8 25 234-258 29-53 (54)
16 smart00874 B5 tRNA synthetase 40.2 32 0.00069 25.6 2.9 24 115-139 12-35 (71)
17 COG0859 RfaF ADP-heptose:LPS h 34.3 74 0.0016 30.7 5.1 73 126-218 198-270 (334)
18 PF08924 DUF1906: Domain of un 30.8 54 0.0012 28.2 3.2 23 126-148 80-102 (136)
19 PF03484 B5: tRNA synthetase B 30.5 39 0.00084 25.6 2.0 26 115-141 12-37 (70)
20 PF13756 Stimulus_sens_1: Stim 28.6 67 0.0015 26.8 3.3 30 123-152 1-32 (112)
21 PRK10556 hypothetical protein; 27.9 37 0.00081 28.8 1.6 19 123-141 3-21 (111)
22 PF07862 Nif11: Nitrogen fixat 27.8 61 0.0013 22.8 2.5 28 111-139 16-43 (49)
23 cd06418 GH25_BacA-like BacA is 27.5 67 0.0015 29.7 3.4 26 125-150 91-116 (212)
24 PLN02233 ubiquinone biosynthes 26.6 2.3E+02 0.005 26.5 6.9 36 37-72 149-184 (261)
25 PF09400 DUF2002: Protein of u 24.9 37 0.00081 29.0 1.1 19 123-141 3-21 (111)
26 PF02324 Glyco_hydro_70: Glyco 24.9 51 0.0011 36.4 2.4 61 139-200 698-777 (809)
27 PF13202 EF-hand_5: EF hand; P 23.7 84 0.0018 19.4 2.3 22 235-256 4-25 (25)
28 PF13405 EF-hand_6: EF-hand do 22.4 1E+02 0.0023 19.3 2.7 25 234-258 4-28 (31)
29 smart00546 CUE Domain that may 21.9 66 0.0014 22.0 1.7 37 155-196 4-40 (43)
30 smart00054 EFh EF-hand, calciu 21.8 98 0.0021 16.9 2.3 24 235-258 5-28 (29)
31 cd04910 ACT_AK-Ectoine_1 ACT d 21.1 88 0.0019 24.5 2.4 27 139-166 40-66 (71)
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=1e-39 Score=307.66 Aligned_cols=204 Identities=38% Similarity=0.670 Sum_probs=143.9
Q ss_pred cccccccC------ceEEEccCCcccccCCCCchhhhhhhhhcccccccchhHHHHHHHHHHHHH-hcCCeeEeeccchh
Q 020945 3 ILPHFSKH------KVLHFNRTDTRLANNGIPFDLQKLRCRVNFQGLKFTPKIETLGYELVRILQ-EKGPFVALHLRYEM 75 (319)
Q Consensus 3 ilP~l~k~------~Vi~l~~~~~RLa~~~lp~~iQrLRCrvnf~ALrF~p~I~~lg~~lv~Rlr-~~GpyiAlHLR~E~ 75 (319)
++|++.++ +|+.|.++..++..+..+.++|| +|+|+++|+++|+++++++. ..+||||+|||+|+
T Consensus 135 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~~~~yiavHlR~~~ 206 (351)
T PF10250_consen 135 VLPELREWNENSEHPVIAFTGFESRLPDNYLDRDLQR--------YLRFSPEIRELADKFIKRLLAGGGPYIAVHLRRGK 206 (351)
T ss_dssp STTHHHHHHHHTT-SEEEESS-SS-SS--GGGGGGGG--------G--B-HHHHHHHHHHHHHH----SSEEEEEE--SH
T ss_pred hhhHHhhhccccccccceeccccccchhcccCccceE--------EEecCHHHHHHHHHHHHHhhcccCceEEEeecccC
Confidence 56777765 99999999999999889999988 99999999999999999999 78899999999999
Q ss_pred hHHHhhcCCCCCChhHHHHHHHHHhcCcccccccCChHHHhhCCCCCCCHHHHHHHHHHcCCCCCceEEEeeccccCCcc
Q 020945 76 DMLAFSGCTHGCSMGEAEELKRLRYAYPWWREKEIVSEERRSQGLCPLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEK 155 (319)
Q Consensus 76 DMlAfsgC~~g~~~~e~~el~~~R~~~~~w~~k~i~~~~~R~~G~CPLtPeEvgl~LralGf~~~T~IYlA~geiygg~~ 155 (319)
|| +++|.+++ +...|+.+|. |..+.+++...+..+.||++|++++.+++++|+.+.|.||||++++|||.+
T Consensus 207 D~--~~~C~~~~---~~~~~~~~~~----~~~~~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~ 277 (351)
T PF10250_consen 207 DW--FSACEFKG---ERHLLASPRC----WGKKSINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGER 277 (351)
T ss_dssp HH--HHHHCT-T-------TTTHHH----H-GGGTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS------
T ss_pred ch--HhhcccCC---chHHHHHhHh----hccccccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccch
Confidence 99 99999955 6677777775 356677888899999999999999999999999999999999999999999
Q ss_pred chHHHHHhCCcccccccCCCHHhhhhhhcccchhhhhHhhhhcCCceeeecCCCchhhhhhhhhcccCCc
Q 020945 156 RLAALRAAFPRIVRKEMLLDPAELQLFQNHSSQMAALDFMVSTASDIFIPTYDGNMAKVVEGHRRYLGFK 225 (319)
Q Consensus 156 ~l~~L~~~fPnl~tKe~L~~~eEL~~f~~~ss~~AALDYiVcl~SDvFv~t~~GNfa~~v~GhR~y~G~~ 225 (319)
.|++|++.||++++|+++.+.+|+++|.. +++|+||++||++||+||+|..++|+.+|+++|.|.|+.
T Consensus 278 ~l~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~a~vD~~i~~~s~~Figt~~Stfs~~i~~~R~~~g~~ 345 (351)
T PF10250_consen 278 RLDPLKNMFPNVVTKDDLLSHEELEPLND--DQLAMVDQEICSRSDVFIGTCGSTFSSNIARERHYRGKP 345 (351)
T ss_dssp -----HHHHHHHHGGGT--EE--S-------S--HHHHHHHHHHSSEEEE-TT-HHHHHHHHHHHHSSSS
T ss_pred hHHHHHHHhhhhEeccccCCHHHhhhccc--cchhHHHHHHHhcCCEEEecCcchhHHHhhcccCcCCCC
Confidence 99999999999999999999999999866 999999999999999999999888999999999999965
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=95.67 E-value=0.057 Score=53.18 Aligned_cols=138 Identities=17% Similarity=0.277 Sum_probs=74.2
Q ss_pred cccccccchhHHHHHHHHHHHHHhcCCeeEeeccch--hhHHHhhcCCCCCChhHHHHHHHHHhcCcccccccCChHHHh
Q 020945 39 NFQGLKFTPKIETLGYELVRILQEKGPFVALHLRYE--MDMLAFSGCTHGCSMGEAEELKRLRYAYPWWREKEIVSEERR 116 (319)
Q Consensus 39 nf~ALrF~p~I~~lg~~lv~Rlr~~GpyiAlHLR~E--~DMlAfsgC~~g~~~~e~~el~~~R~~~~~w~~k~i~~~~~R 116 (319)
-|..|+-+++|++..+.+.+.-=...+-|++|.|.= +|...+ +| .|....
T Consensus 142 if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~--------------------~~~D~e------- 193 (321)
T PF05830_consen 142 IFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-AP--------------------YWADEE------- 193 (321)
T ss_dssp HHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE------------------------------------HHHH-------
T ss_pred HHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-Cc--------------------cccCch-------
Confidence 488999999999999998777655567899999931 122222 12 232210
Q ss_pred hCCCCCCCHHHH---HHHHHHcCCCCCceEEEeeccccCCccchHHHHHhCCcccccccCCCHHhhhhhhc-----ccch
Q 020945 117 SQGLCPLTPEEA---ALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQN-----HSSQ 188 (319)
Q Consensus 117 ~~G~CPLtPeEv---gl~LralGf~~~T~IYlA~geiygg~~~l~~L~~~fPnl~tKe~L~~~eEL~~f~~-----~ss~ 188 (319)
.+=..| ...++++=.+.++.|+||+-. .+.++-+++.||.+++-++=..+..-.++.+ .+-.
T Consensus 194 ------~~L~~V~~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~gg~ 263 (321)
T PF05830_consen 194 ------RALRQVCTAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEGGE 263 (321)
T ss_dssp ------HHHHHHHHHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHHHHHHH
T ss_pred ------HHHHHHHHHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCcccccccchHH
Confidence 000111 122355556678999999988 4789999999999887755333222212211 1124
Q ss_pred hhhhHhhhhcCCceee-ecCCCchhhh
Q 020945 189 MAALDFMVSTASDIFI-PTYDGNMAKV 214 (319)
Q Consensus 189 ~AALDYiVcl~SDvFv-~t~~GNfa~~ 214 (319)
.|-+|-+..+.+|+-| .+-.+.|++.
T Consensus 264 ~ALIDM~LLSrCD~LIr~~ptS~Fsr~ 290 (321)
T PF05830_consen 264 SALIDMYLLSRCDYLIRFPPTSAFSRY 290 (321)
T ss_dssp HHHHHHHHHTTSSEEEEESTT-GGGHH
T ss_pred HHHHHHHHHHhCCeEEEcCCCchhhhH
Confidence 6889999999999999 5666656553
No 3
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=93.97 E-value=0.2 Score=49.18 Aligned_cols=150 Identities=18% Similarity=0.304 Sum_probs=86.6
Q ss_pred ccccchhHHHHHHHHHHHHHhcCCeeEeeccchhhHHHhhcCCCCCChhHHHHHHHHHhcCcccccccCChHHHhh----
Q 020945 42 GLKFTPKIETLGYELVRILQEKGPFVALHLRYEMDMLAFSGCTHGCSMGEAEELKRLRYAYPWWREKEIVSEERRS---- 117 (319)
Q Consensus 42 ALrF~p~I~~lg~~lv~Rlr~~GpyiAlHLR~E~DMlAfsgC~~g~~~~e~~el~~~R~~~~~w~~k~i~~~~~R~---- 117 (319)
-||.+.+|.+.|++.+..=-. .||+++|||.-.|++-- |.+.-.... | +.+...-- -...+.
T Consensus 209 Yl~WS~r~~e~~k~fI~a~L~-rpfvgiHLRng~DWvra--Cehikd~~~-------~---hlfASpQC-lGy~~~~gaL 274 (386)
T KOG3849|consen 209 YLRWSSRITEQAKKFISANLA-RPFVGIHLRNGADWVRA--CEHIKDTTN-------R---HLFASPQC-LGYGHHLGAL 274 (386)
T ss_pred HHHHHHHHHHHHHHHHHHhcC-cceeEEEeecCchHHHH--HHHhcccCC-------C---ccccChhh-cccccccccc
Confidence 488999999999887654322 39999999999999864 754211100 0 00000000 000111
Q ss_pred -CCCCCCCHHHHH----HHHHHcCCCCCceEEEeeccccCCccchHHHH-HhCCcccccccCCCHHhhhhhhcccchhhh
Q 020945 118 -QGLCPLTPEEAA----LVLQALGIDKDTHIYIAAGEIYGGEKRLAALR-AAFPRIVRKEMLLDPAELQLFQNHSSQMAA 191 (319)
Q Consensus 118 -~G~CPLtPeEvg----l~LralGf~~~T~IYlA~geiygg~~~l~~L~-~~fPnl~tKe~L~~~eEL~~f~~~ss~~AA 191 (319)
...|-=.-+++- +-.+.+| .--.+|+|+-. +.-+..|. +++|-=+.-..|- ++ -+-
T Consensus 275 t~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs----~hmi~Eln~aL~~~~i~vh~l~-pd-----------d~y 336 (386)
T KOG3849|consen 275 TKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS----DHMIDELNEALKPYEIEVHRLE-PD-----------DMY 336 (386)
T ss_pred chhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----hhhhHHHHHhhcccceeEEecC-cc-----------cch
Confidence 123422223322 2233444 22359999876 33334444 4444322222221 11 345
Q ss_pred hHhhhhcCCceeeecCCCchhhhhhhhhcccC
Q 020945 192 LDFMVSTASDIFIPTYDGNMAKVVEGHRRYLG 223 (319)
Q Consensus 192 LDYiVcl~SDvFv~t~~GNfa~~v~GhR~y~G 223 (319)
+|..|.-+||-||++--++|+..|.-.|-..|
T Consensus 337 ~dLaIlGqadhFiGNCvSsfsafvKRERD~~G 368 (386)
T KOG3849|consen 337 TDLAILGQADHFIGNCVSSFSAFVKRERDHAG 368 (386)
T ss_pred hhhhhhcccchhhhhhHHHHHHHHhhhhcccC
Confidence 79999999999999999999999999998888
No 4
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=74.34 E-value=7.5 Score=40.26 Aligned_cols=132 Identities=16% Similarity=0.223 Sum_probs=76.8
Q ss_pred ccccchhHHHHHHHHHHHHHhcCCeeEeeccchhhHHHhhcCCCCCChhHHHHHHHHHhcCcccccccCChHHHhhCCCC
Q 020945 42 GLKFTPKIETLGYELVRILQEKGPFVALHLRYEMDMLAFSGCTHGCSMGEAEELKRLRYAYPWWREKEIVSEERRSQGLC 121 (319)
Q Consensus 42 ALrF~p~I~~lg~~lv~Rlr~~GpyiAlHLR~E~DMlAfsgC~~g~~~~e~~el~~~R~~~~~w~~k~i~~~~~R~~G~C 121 (319)
-+||+|-.++.-++-...|-=+.|-|++|.|--.- -|+++---.++.|=. |-+
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~~~PivGvhvRRTDK---------VGTEAAfH~~eEYM~----~vE-------------- 392 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGLDKPIVGVHVRRTDK---------VGTEAAFHALEEYME----WVE-------------- 392 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCCCCceeeEEEEeccc---------ccchhhhhhHHHHHH----HHH--------------
Confidence 47888877765444333333345999999987432 222222223444432 211
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEeeccccCCccchHHHHHhCCcccccccCCCHHhhhhhhcc-------cchhhhhHh
Q 020945 122 PLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQNH-------SSQMAALDF 194 (319)
Q Consensus 122 PLtPeEvgl~LralGf~~~T~IYlA~geiygg~~~l~~L~~~fPnl~tKe~L~~~eEL~~f~~~-------ss~~AALDY 194 (319)
+--.+|..=|=+-.-+||||+-+. ..+..-+.-|||. .+.+..|.+.-..- |..---+|.
T Consensus 393 -----~~f~~le~rg~~~~rRiflAsDDp----~vv~EAk~kYPnY----e~igd~eia~~A~l~nRYTd~sL~GvIlDI 459 (580)
T KOG3705|consen 393 -----IWFKVLEKRGKPLERRIFLASDDP----TVVPEAKNKYPNY----EVIGDTEIAKTAQLNNRYTDASLMGVILDI 459 (580)
T ss_pred -----HHHHHHHHhCCchhheEEEecCCc----hhchHhhccCCCc----EEeccHHHHHHhhccccchhhhhhheeeee
Confidence 111122223444556899999985 4567778899995 34445555432221 223445799
Q ss_pred hhhcCCceeeecCCCchhh
Q 020945 195 MVSTASDIFIPTYDGNMAK 213 (319)
Q Consensus 195 iVcl~SDvFv~t~~GNfa~ 213 (319)
.+.+.+|..|.|+++-.-+
T Consensus 460 h~LS~~d~LVCTFSSQVCR 478 (580)
T KOG3705|consen 460 HILSKVDYLVCTFSSQVCR 478 (580)
T ss_pred eeecccceEEEechHHHHH
Confidence 9999999999998875433
No 5
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=73.16 E-value=12 Score=32.42 Aligned_cols=109 Identities=18% Similarity=0.099 Sum_probs=63.1
Q ss_pred CCchhhhhhhhhcccccccchhHHHHHHHHHHHHHhcCCeeEeeccchhhHHH----hhcCCCCCChhHH--HHHHHHHh
Q 020945 27 IPFDLQKLRCRVNFQGLKFTPKIETLGYELVRILQEKGPFVALHLRYEMDMLA----FSGCTHGCSMGEA--EELKRLRY 100 (319)
Q Consensus 27 lp~~iQrLRCrvnf~ALrF~p~I~~lg~~lv~Rlr~~GpyiAlHLR~E~DMlA----fsgC~~g~~~~e~--~el~~~R~ 100 (319)
+|..-...-.-++..+|++.++..+.-+.+.+.|+..|.++-++.-.+...+. ..-|....-+-.. ....+|++
T Consensus 38 lp~~~~~fD~v~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~y 117 (160)
T PLN02232 38 LPFDDCEFDAVTMGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEY 117 (160)
T ss_pred CCCCCCCeeEEEecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHh
Confidence 44433233334455678888888888899999999999998887755432111 0111110000000 00011111
Q ss_pred cCcccccccCChHHHhhCCCCCCCHHHHHHHHHHcCCCCCceEEEeecc
Q 020945 101 AYPWWREKEIVSEERRSQGLCPLTPEEAALVLQALGIDKDTHIYIAAGE 149 (319)
Q Consensus 101 ~~~~w~~k~i~~~~~R~~G~CPLtPeEvgl~LralGf~~~T~IYlA~ge 149 (319)
- ...... +++|+|+..+|+..||.+-+.-+++.|-
T Consensus 118 l-------------~~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~ 152 (160)
T PLN02232 118 L-------------KYSING-YLTGEELETLALEAGFSSACHYEISGGF 152 (160)
T ss_pred H-------------HHHHHH-CcCHHHHHHHHHHcCCCcceEEECcchH
Confidence 0 001112 4899999999999999998888887775
No 6
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=67.48 E-value=4 Score=32.63 Aligned_cols=36 Identities=25% Similarity=0.404 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEeeccccCCccchHHHHHhCCccccccc
Q 020945 122 PLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEM 172 (319)
Q Consensus 122 PLtPeEvgl~LralGf~~~T~IYlA~geiygg~~~l~~L~~~fPnl~tKe~ 172 (319)
++|-.+++-+|+-..|++ .+|..++.++|++++++.
T Consensus 39 ~~T~~Qv~~il~~f~fd~---------------~kl~~lk~l~p~i~D~~n 74 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN---------------DKLKALKLLYPYIVDPQN 74 (95)
T ss_pred ceeHHHHHHHHHHcCCCH---------------HHHHHHHHHhhhccCHHH
Confidence 499999999999999987 469999999999999975
No 7
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=59.00 E-value=42 Score=32.26 Aligned_cols=132 Identities=27% Similarity=0.401 Sum_probs=71.9
Q ss_pred HHHHHhcCcccccc------cCChHHHhhCCCCCCCHHHHHHHHHHcCCCCCceEEEeeccccCCccchHHHHH------
Q 020945 95 LKRLRYAYPWWREK------EIVSEERRSQGLCPLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRA------ 162 (319)
Q Consensus 95 l~~~R~~~~~w~~k------~i~~~~~R~~G~CPLtPeEvgl~LralGf~~~T~IYlA~geiygg~~~l~~L~~------ 162 (319)
-+++|.++|.|.-. .|-...++..|..-.+|.|+=--|++-||.. |||-+--|..|++. .-|++
T Consensus 24 e~~~~~~fp~~~V~~AfTS~~I~~kl~~~~g~~i~~~~eaL~~L~~~G~~~---V~VQplhiipG~Ey-~~l~~~v~~~~ 99 (262)
T PF06180_consen 24 EKAVREAFPDYDVRRAFTSRIIRKKLAERDGIKIDSPEEALAKLADEGYTE---VVVQPLHIIPGEEY-EKLRATVEAYK 99 (262)
T ss_dssp HHHHHHCSTTSEEEEEES-HHHHHHHHHCHT-----HHHHHHHHHHCT--E---EEEEE--SCSSHHH-HHHHHHHHHHC
T ss_pred HHHHHHHCCCCcEEEEchHHHHHHHHHhcCCCCcCCHHHHHHHHHHCCCCE---EEEeecceeCcHhH-HHHHHHHHHhh
Confidence 34556677776532 2222233344767899999999999999976 99998888888764 34443
Q ss_pred -hCCcccccccCCC-------HHhhhh-------------------hhcccc------hhhhhHhhhhcC--CceeeecC
Q 020945 163 -AFPRIVRKEMLLD-------PAELQL-------------------FQNHSS------QMAALDFMVSTA--SDIFIPTY 207 (319)
Q Consensus 163 -~fPnl~tKe~L~~-------~eEL~~-------------------f~~~ss------~~AALDYiVcl~--SDvFv~t~ 207 (319)
.|.++.-=.-|++ .++.+. |..|++ .-++|+++.... -+|||+|-
T Consensus 100 ~~F~~i~~g~PLL~~~g~~~~~~D~~~va~aL~~~~~~~~~~~a~vlmGHGt~h~an~~Y~~l~~~l~~~~~~~v~vgtv 179 (262)
T PF06180_consen 100 HDFKKIVLGRPLLYTMGQENSPEDYEAVAEALAEEFPKKRKDEAVVLMGHGTPHPANAAYSALQAMLKKHGYPNVFVGTV 179 (262)
T ss_dssp CCSSEEEEE--SCSS-----SHHHHHHHHHHHHCCS-TT-TTEEEEEEE---SCHHHHHHHHHHHHHHCCT-TTEEEEET
T ss_pred ccCCeEEecccccccccccCChHHHHHHHHHHHHhccccCCCCEEEEEeCCCCCCccHHHHHHHHHHHhCCCCeEEEEEe
Confidence 3554444444444 444321 344543 246777777776 47999999
Q ss_pred CC--chhhhhhhhhcccCCcc-eeecc
Q 020945 208 DG--NMAKVVEGHRRYLGFKK-SILLD 231 (319)
Q Consensus 208 ~G--Nfa~~v~GhR~y~G~~k-TI~Pd 231 (319)
.| ++..++.--+. .|.+| ++.|=
T Consensus 180 EG~P~~~~vi~~L~~-~g~k~V~L~Pl 205 (262)
T PF06180_consen 180 EGYPSLEDVIARLKK-KGIKKVHLIPL 205 (262)
T ss_dssp TSSSBHHHHHHHHHH-HT-SEEEEEEE
T ss_pred CCCCCHHHHHHHHHh-cCCCeEEEEec
Confidence 98 57766653332 36555 55563
No 8
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=57.08 E-value=19 Score=33.23 Aligned_cols=87 Identities=16% Similarity=0.157 Sum_probs=50.4
Q ss_pred cccccch--hHHHHHHHHHHHHHhcCCeeEee-ccchhh-----HHHhhcCC---CCCChhHHHHHHHHHhcCccccccc
Q 020945 41 QGLKFTP--KIETLGYELVRILQEKGPFVALH-LRYEMD-----MLAFSGCT---HGCSMGEAEELKRLRYAYPWWREKE 109 (319)
Q Consensus 41 ~ALrF~p--~I~~lg~~lv~Rlr~~GpyiAlH-LR~E~D-----MlAfsgC~---~g~~~~e~~el~~~R~~~~~w~~k~ 109 (319)
.+|.|.+ +..++-+.+.+.|+..|.++..+ .+.+.+ ++..+... .|.+.+|.++. |
T Consensus 133 ~~l~~l~~~~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~~~~~~~~~~~~~g~s~~ei~~~---~---------- 199 (247)
T PRK15451 133 FTLQFLEPSERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQK---R---------- 199 (247)
T ss_pred hHHHhCCHHHHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHHHHHHHHHHHHHcCCCHHHHHHH---H----------
Confidence 3444443 45678888888898889887764 333321 22221111 12222222111 1
Q ss_pred CChHHHhhCCCCCCCHHHHHHHHHHcCCCCCceEE
Q 020945 110 IVSEERRSQGLCPLTPEEAALVLQALGIDKDTHIY 144 (319)
Q Consensus 110 i~~~~~R~~G~CPLtPeEvgl~LralGf~~~T~IY 144 (319)
+.+.+-..|+|++|...+|+.-||..-..+|
T Consensus 200 ----~~~~~~~~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 200 ----SMLENVMLTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred ----HHHHhhcccCCHHHHHHHHHHcCchhHHHHH
Confidence 1233456789999999999999999755444
No 9
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=55.14 E-value=11 Score=24.24 Aligned_cols=27 Identities=22% Similarity=0.361 Sum_probs=21.7
Q ss_pred HHHHHHhhhhcCCccChhHHHHHHHHH
Q 020945 233 KILVGLLDMHHNGTLSFNEFTVAVRLA 259 (319)
Q Consensus 233 k~l~~l~~~~~~~~~~w~~f~~~v~~~ 259 (319)
+.+.+.||.-.+|.|+++||...++++
T Consensus 3 ~~~F~~~D~d~dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 3 KEAFREFDKDGDGKIDFEEFKEMMKKL 29 (29)
T ss_dssp HHHHHHHSTTSSSEEEHHHHHHHHHHT
T ss_pred HHHHHHHCCCCCCcCCHHHHHHHHHhC
Confidence 345667887789999999999988763
No 10
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=52.85 E-value=12 Score=25.76 Aligned_cols=38 Identities=29% Similarity=0.484 Sum_probs=25.0
Q ss_pred chHHHHHhCCcccccccCCCHHhhhhhhcccchhhhhHhhhhc
Q 020945 156 RLAALRAAFPRIVRKEMLLDPAELQLFQNHSSQMAALDFMVST 198 (319)
Q Consensus 156 ~l~~L~~~fPnl~tKe~L~~~eEL~~f~~~ss~~AALDYiVcl 198 (319)
-+.-|+++||++ +.+.| ..-|. .+..+..+|+|.+.+.
T Consensus 4 ~v~~L~~mFP~~-~~~~I--~~~L~--~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 4 MVQQLQEMFPDL-DREVI--EAVLQ--ANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHSSSS--HHHH--HHHHH--HTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHCCCC-CHHHH--HHHHH--HcCCCHHHHHHHHHcC
Confidence 467899999995 33333 23333 4566889999988753
No 11
>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=51.39 E-value=6.8 Score=33.69 Aligned_cols=17 Identities=41% Similarity=0.739 Sum_probs=11.7
Q ss_pred HHHHHHHcCCCCCceEE
Q 020945 128 AALVLQALGIDKDTHIY 144 (319)
Q Consensus 128 vgl~LralGf~~~T~IY 144 (319)
+.++|+|||+.++.-||
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 57999999998766544
No 12
>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=50.37 E-value=18 Score=30.78 Aligned_cols=29 Identities=34% Similarity=0.381 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHHHcCCCCCceEEEeecc
Q 020945 120 LCPLTPEEAALVLQALGIDKDTHIYIAAGE 149 (319)
Q Consensus 120 ~CPLtPeEvgl~LralGf~~~T~IYlA~ge 149 (319)
.|||+|||+...|+++--+ ....||..+.
T Consensus 14 qC~l~ke~~l~~L~~l~~~-~~~~yI~v~r 42 (114)
T PF00799_consen 14 QCSLTKEEALEQLKNLLTP-SNKKYIRVCR 42 (114)
T ss_dssp T----HHHHHHHHHH---S-S-EEEEEEEE
T ss_pred CCCCCHHHHHHHHHHhCCc-cCceEEEeec
Confidence 5999999999999999765 4677876654
No 13
>PF00667 FAD_binding_1: FAD binding domain; InterPro: IPR003097 This domain is found in sulphite reductase, NADPH cytochrome P450 reductase, nitric oxide synthase and methionine synthase reductase. Flavoprotein pyridine nucleotide cytochrome reductases [] (FPNCR) catalyse the interchange of reducing equivalents between one-electron carriers and the two-electron-carrying nicotinamide dinucleotides. The enzymes include ferredoxin:NADP+reductases (FNR) [], plant and fungal NAD(P)H:nitrate reductases [, ], NADH:cytochrome b5 reductases [], NADPH:P450 reductases [], NADPH:sulphite reductases [], nitric oxide synthases [], phthalate dioxygenase reductase [], and various other flavoproteins.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3QFR_B 3FJO_A 3QFC_B 3QE2_B 3QFS_A 3QFT_A 2B5O_B 2QTZ_A 2QTL_A 2BPO_B ....
Probab=45.39 E-value=46 Score=30.28 Aligned_cols=116 Identities=20% Similarity=0.271 Sum_probs=66.0
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEEEeeccc-------cCCccchHHHHHhCCcccccccCCCHHhhhhhhcccc---hhh
Q 020945 121 CPLTPEEAALVLQALGIDKDTHIYIAAGEI-------YGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQNHSS---QMA 190 (319)
Q Consensus 121 CPLtPeEvgl~LralGf~~~T~IYlA~gei-------ygg~~~l~~L~~~fPnl~tKe~L~~~eEL~~f~~~ss---~~A 190 (319)
|+=.+++|..+|++||.+.++.|-|...+- ++.. .+|+..|-...+=....+.+-|..+..+.+ ..+
T Consensus 52 P~N~~~~V~~~l~~lgl~~d~~v~~~~~~~~~~~~~~~~~~---~tl~~~l~~~~Di~~~p~~~~l~~la~~~~~~~~k~ 128 (219)
T PF00667_consen 52 PPNDPEEVERLLKRLGLDPDEPVTLKPKEQNNSVKPPFPSP---ITLRDLLTHYLDITSPPSRSFLRALAEFATDEEEKE 128 (219)
T ss_dssp -SSEHHHHHHHHHHHTSGTTSEEEEEESSTTSSCCSSSSSS---EEHHHHHHHTB-TSSB--HHHHHHHHCTBSSHHHHH
T ss_pred ccCCHHHHHHHHHHhCCCcceEEEEEecccccccccccccc---eeeeeeeeeeeecccccccceeeeeeecCCCHHHHH
Confidence 456789999999999999999999988882 1222 234444444343334444555544444432 344
Q ss_pred hhHhhhhcCCceeeecCCCchhhhhhhhhcccCCcceeecchHHHHHHhhhhcCCccChhHHHHHHHHH
Q 020945 191 ALDFMVSTASDIFIPTYDGNMAKVVEGHRRYLGFKKSILLDRKILVGLLDMHHNGTLSFNEFTVAVRLA 259 (319)
Q Consensus 191 ALDYiVcl~SDvFv~t~~GNfa~~v~GhR~y~G~~kTI~Pdrk~l~~l~~~~~~~~~~w~~f~~~v~~~ 259 (319)
.|..+... .|...|.. .+.-.++.++.++..+..-.++|+.|-+.+..+
T Consensus 129 ~L~~l~~~-----------------~~~~~~~~---~~~~~~~t~~dil~~fps~~~pl~~ll~~lp~l 177 (219)
T PF00667_consen 129 RLLELASD-----------------EGKDDYKD---YIWRERRTLLDILEDFPSCKPPLEELLELLPPL 177 (219)
T ss_dssp HHHHCTSS-----------------HHHHHHHH---HTTTTTHCHHHHHHHSTTBTC-HHHHHHHS-B-
T ss_pred HHHHhcch-----------------hhhhhhhh---hhhcccCcHHHHHhhCcccCCCHHHhhhhCCCC
Confidence 45444322 23333332 122345678888888877778888887776443
No 14
>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=41.68 E-value=19 Score=27.56 Aligned_cols=16 Identities=50% Similarity=0.841 Sum_probs=13.5
Q ss_pred CCCCCCHHHHHHHHHHc
Q 020945 119 GLCPLTPEEAALVLQAL 135 (319)
Q Consensus 119 G~CPLtPeEvgl~Lral 135 (319)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 457 9999999999875
No 15
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=41.24 E-value=31 Score=23.99 Aligned_cols=25 Identities=28% Similarity=0.445 Sum_probs=18.7
Q ss_pred HHHHHhhhhcCCccChhHHHHHHHH
Q 020945 234 ILVGLLDMHHNGTLSFNEFTVAVRL 258 (319)
Q Consensus 234 ~l~~l~~~~~~~~~~w~~f~~~v~~ 258 (319)
.|...||.-.+|.|+|.||...++.
T Consensus 29 ~l~~~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 29 RLFREFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp HHHHHHTTSSSSSEEHHHHHHHHHH
T ss_pred HHHHhcccCCCCCCCHHHHHHHHHh
Confidence 4445556666999999999988764
No 16
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=40.18 E-value=32 Score=25.58 Aligned_cols=24 Identities=38% Similarity=0.538 Sum_probs=20.4
Q ss_pred HhhCCCCCCCHHHHHHHHHHcCCCC
Q 020945 115 RRSQGLCPLTPEEAALVLQALGIDK 139 (319)
Q Consensus 115 ~R~~G~CPLtPeEvgl~LralGf~~ 139 (319)
.+..|.. ++++|+.-+|+.|||+.
T Consensus 12 ~~llG~~-i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGLD-LSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCCC-CCHHHHHHHHHHCCCeE
Confidence 4566764 99999999999999976
No 17
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=34.29 E-value=74 Score=30.72 Aligned_cols=73 Identities=26% Similarity=0.327 Sum_probs=46.6
Q ss_pred HHHHHHHHHcCCCCCceEEEeeccccCCccchHHHHHhCCcccccccCCCHHhhhhhhcccchhhhhHhhhhcCCceeee
Q 020945 126 EEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQNHSSQMAALDFMVSTASDIFIP 205 (319)
Q Consensus 126 eEvgl~LralGf~~~T~IYlA~geiygg~~~l~~L~~~fPnl~tKe~L~~~eEL~~f~~~ss~~AALDYiVcl~SDvFv~ 205 (319)
.|++..|.+-| .+|.|.+|. .-.+..+.+.+..++.+. |+....|. +++||- ..||.||+
T Consensus 198 ~~l~~~l~~~~----~~Vvl~g~~--~e~e~~~~i~~~~~~~~~---l~~k~sL~-------e~~~li----~~a~l~I~ 257 (334)
T COG0859 198 AELAELLIAKG----YQVVLFGGP--DEEERAEEIAKGLPNAVI---LAGKTSLE-------ELAALI----AGADLVIG 257 (334)
T ss_pred HHHHHHHHHCC----CEEEEecCh--HHHHHHHHHHHhcCCccc---cCCCCCHH-------HHHHHH----hcCCEEEc
Confidence 36777888888 779998887 334455677788887654 33322222 122222 68999999
Q ss_pred cCCCchhhhhhhh
Q 020945 206 TYDGNMAKVVEGH 218 (319)
Q Consensus 206 t~~GNfa~~v~Gh 218 (319)
+.+|-|.-+-+-+
T Consensus 258 ~DSg~~HlAaA~~ 270 (334)
T COG0859 258 NDSGPMHLAAALG 270 (334)
T ss_pred cCChHHHHHHHcC
Confidence 9999755544433
No 18
>PF08924 DUF1906: Domain of unknown function (DUF1906); InterPro: IPR015020 This entry represents a family of uncharacterised hypothetical bacterial proteins. ; PDB: 1SFS_A.
Probab=30.79 E-value=54 Score=28.23 Aligned_cols=23 Identities=35% Similarity=0.502 Sum_probs=15.0
Q ss_pred HHHHHHHHHcCCCCCceEEEeec
Q 020945 126 EEAALVLQALGIDKDTHIYIAAG 148 (319)
Q Consensus 126 eEvgl~LralGf~~~T~IYlA~g 148 (319)
.+....-++||||..|.||.|-=
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 45566778999999999999975
No 19
>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=30.45 E-value=39 Score=25.63 Aligned_cols=26 Identities=27% Similarity=0.540 Sum_probs=17.8
Q ss_pred HhhCCCCCCCHHHHHHHHHHcCCCCCc
Q 020945 115 RRSQGLCPLTPEEAALVLQALGIDKDT 141 (319)
Q Consensus 115 ~R~~G~CPLtPeEvgl~LralGf~~~T 141 (319)
.+.-|.. ++++|+.-+|+.|||.-+.
T Consensus 12 ~~~lG~~-i~~~~i~~~L~~lg~~~~~ 37 (70)
T PF03484_consen 12 NKLLGID-ISPEEIIKILKRLGFKVEK 37 (70)
T ss_dssp HHHHTS----HHHHHHHHHHTT-EEEE
T ss_pred HHHhCCC-CCHHHHHHHHHHCCCEEEE
Confidence 4566664 9999999999999998543
No 20
>PF13756 Stimulus_sens_1: Stimulus-sensing domain
Probab=28.61 E-value=67 Score=26.80 Aligned_cols=30 Identities=30% Similarity=0.443 Sum_probs=24.6
Q ss_pred CCHHHHHHHHHHcCCCCCce--EEEeeccccC
Q 020945 123 LTPEEAALVLQALGIDKDTH--IYIAAGEIYG 152 (319)
Q Consensus 123 LtPeEvgl~LralGf~~~T~--IYlA~geiyg 152 (319)
|+||.|+-+|+-|.-+.+|+ ||=+.|..-.
T Consensus 1 l~pe~a~plLrrL~~Pt~~RARlyd~dG~Ll~ 32 (112)
T PF13756_consen 1 LNPERARPLLRRLISPTRTRARLYDPDGNLLA 32 (112)
T ss_pred CCHHHHHHHHHHhCCCCCceEEEECCCCCEEe
Confidence 68999999999999999985 6667776543
No 21
>PRK10556 hypothetical protein; Provisional
Probab=27.93 E-value=37 Score=28.83 Aligned_cols=19 Identities=42% Similarity=0.634 Sum_probs=17.1
Q ss_pred CCHHHHHHHHHHcCCCCCc
Q 020945 123 LTPEEAALVLQALGIDKDT 141 (319)
Q Consensus 123 LtPeEvgl~LralGf~~~T 141 (319)
|-|.||+.+|...||..|+
T Consensus 3 LRPDEVArVLe~aGF~~D~ 21 (111)
T PRK10556 3 LRPDEVARVLEKAGFTVDV 21 (111)
T ss_pred cChHHHHHHHHhcCceEEE
Confidence 6799999999999998764
No 22
>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=27.82 E-value=61 Score=22.81 Aligned_cols=28 Identities=29% Similarity=0.383 Sum_probs=23.0
Q ss_pred ChHHHhhCCCCCCCHHHHHHHHHHcCCCC
Q 020945 111 VSEERRSQGLCPLTPEEAALVLQALGIDK 139 (319)
Q Consensus 111 ~~~~~R~~G~CPLtPeEvgl~LralGf~~ 139 (319)
|+..+..-..| -||+|+.-+.+..||.=
T Consensus 16 d~~l~~~l~~~-~~~~e~~~lA~~~Gy~f 43 (49)
T PF07862_consen 16 DPELREQLKAC-QNPEEVVALAREAGYDF 43 (49)
T ss_pred CHHHHHHHHhc-CCHHHHHHHHHHcCCCC
Confidence 56666666778 49999999999999974
No 23
>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=27.53 E-value=67 Score=29.75 Aligned_cols=26 Identities=31% Similarity=0.334 Sum_probs=20.8
Q ss_pred HHHHHHHHHHcCCCCCceEEEeeccc
Q 020945 125 PEEAALVLQALGIDKDTHIYIAAGEI 150 (319)
Q Consensus 125 PeEvgl~LralGf~~~T~IYlA~gei 150 (319)
..+....-+++|||..|.||+|-=.-
T Consensus 91 A~~A~~~A~~lG~p~gs~IYfavD~d 116 (212)
T cd06418 91 ARDAVAAARALGFPPGTIIYFAVDFD 116 (212)
T ss_pred HHHHHHHHHHcCCCCCCEEEEEeecC
Confidence 34555677899999999999998664
No 24
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=26.59 E-value=2.3e+02 Score=26.50 Aligned_cols=36 Identities=17% Similarity=0.071 Sum_probs=28.6
Q ss_pred hhcccccccchhHHHHHHHHHHHHHhcCCeeEeecc
Q 020945 37 RVNFQGLKFTPKIETLGYELVRILQEKGPFVALHLR 72 (319)
Q Consensus 37 rvnf~ALrF~p~I~~lg~~lv~Rlr~~GpyiAlHLR 72 (319)
-+...+|...++.+++-+.+.+.|+..|.++.+.+-
T Consensus 149 V~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~ 184 (261)
T PLN02233 149 ITMGYGLRNVVDRLKAMQEMYRVLKPGSRVSILDFN 184 (261)
T ss_pred EEEecccccCCCHHHHHHHHHHHcCcCcEEEEEECC
Confidence 345566777888999999999999999998777653
No 25
>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=24.92 E-value=37 Score=29.02 Aligned_cols=19 Identities=42% Similarity=0.725 Sum_probs=14.6
Q ss_pred CCHHHHHHHHHHcCCCCCc
Q 020945 123 LTPEEAALVLQALGIDKDT 141 (319)
Q Consensus 123 LtPeEvgl~LralGf~~~T 141 (319)
|-|.||+.+|...||..|.
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 6799999999999998764
No 26
>PF02324 Glyco_hydro_70: Glycosyl hydrolase family 70; InterPro: IPR003318 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glucosyltransferases or sucrose 6-glycosyl transferases (GTF-S) (2.4.1.5 from EC, GH70 from CAZY) catalyse the transfer of D-glucopyramnosyl units from sucrose onto acceptor molecules []. This signature roughly corresponds to the N-terminal catalytic domain of the enzyme. Members of this group also contain the putative cell wall binding repeat (IPR002479 from INTERPRO).; GO: 0009250 glucan biosynthetic process; PDB: 3AIE_G 3AIB_D 3AIC_E 3TTQ_A 3TTO_D 3KLL_A 3KLK_A 3HZ3_A.
Probab=24.87 E-value=51 Score=36.40 Aligned_cols=61 Identities=18% Similarity=0.426 Sum_probs=37.0
Q ss_pred CCceEEEe----ecc----ccCCccchHHHHHhCCcccccccCCCHHhh-----------hhhhcccchhhhhHhhhhcC
Q 020945 139 KDTHIYIA----AGE----IYGGEKRLAALRAAFPRIVRKEMLLDPAEL-----------QLFQNHSSQMAALDFMVSTA 199 (319)
Q Consensus 139 ~~T~IYlA----~ge----iygg~~~l~~L~~~fPnl~tKe~L~~~eEL-----------~~f~~~ss~~AALDYiVcl~ 199 (319)
-...+|+| +|+ .||| +.|+-|++.||.|+++..+.|-.-. +-|....-+---.+|++...
T Consensus 698 i~n~lY~a~T~ggG~dyQ~~YGG-~fLdeLq~~YP~lF~~~qiSTG~~idps~kIk~WSAKYfNGTNI~grGa~YVLkd~ 776 (809)
T PF02324_consen 698 INNTLYVANTKGGGKDYQAKYGG-AFLDELQKKYPDLFTTKQISTGVPIDPSVKIKEWSAKYFNGTNIQGRGAGYVLKDW 776 (809)
T ss_dssp TSSEEEEEEEEB-CHSHHHHHTT-TTHHHHHHH-GGGCCSEETTTSSB--TTS--SSB-GGGEEEEE--SS-TTSB-EET
T ss_pred ecceeEEEecccccHhHHHHHhH-HHHHHHHHhChHhhhccccccCCCCCccchhhhhhhhhcCCCccccCccceEeecc
Confidence 34579998 454 6888 5899999999999999888763322 22322223556667777653
Q ss_pred C
Q 020945 200 S 200 (319)
Q Consensus 200 S 200 (319)
+
T Consensus 777 ~ 777 (809)
T PF02324_consen 777 A 777 (809)
T ss_dssp T
T ss_pred C
Confidence 3
No 27
>PF13202 EF-hand_5: EF hand; PDB: 3DD4_A 2Q4U_A 2BE4_A 1UHJ_B 1UHI_A 1UHH_B 1EJ3_B 1UHK_A 2ZFD_A 1UHN_A ....
Probab=23.72 E-value=84 Score=19.42 Aligned_cols=22 Identities=32% Similarity=0.516 Sum_probs=16.5
Q ss_pred HHHHhhhhcCCccChhHHHHHH
Q 020945 235 LVGLLDMHHNGTLSFNEFTVAV 256 (319)
Q Consensus 235 l~~l~~~~~~~~~~w~~f~~~v 256 (319)
.-..+|.-.+|.|+++||.+.|
T Consensus 4 ~F~~~D~d~DG~is~~E~~~~~ 25 (25)
T PF13202_consen 4 AFQQFDTDGDGKISFEEFQRLV 25 (25)
T ss_dssp HHHHHTTTSSSEEEHHHHHHHH
T ss_pred HHHHHcCCCCCcCCHHHHHHHC
Confidence 3345677779999999998743
No 28
>PF13405 EF-hand_6: EF-hand domain; PDB: 2AMI_A 3QRX_A 1W7J_B 1OE9_B 1W7I_B 1KFU_S 1KFX_S 2BL0_B 1Y1X_B 3MSE_B ....
Probab=22.45 E-value=1e+02 Score=19.30 Aligned_cols=25 Identities=20% Similarity=0.389 Sum_probs=18.8
Q ss_pred HHHHHhhhhcCCccChhHHHHHHHH
Q 020945 234 ILVGLLDMHHNGTLSFNEFTVAVRL 258 (319)
Q Consensus 234 ~l~~l~~~~~~~~~~w~~f~~~v~~ 258 (319)
.+-..||.-.+|.|+.+||...+++
T Consensus 4 ~~F~~~D~d~dG~I~~~el~~~l~~ 28 (31)
T PF13405_consen 4 EAFKMFDKDGDGFIDFEELRAILRK 28 (31)
T ss_dssp HHHHHH-TTSSSEEEHHHHHHHHHH
T ss_pred HHHHHHCCCCCCcCcHHHHHHHHHH
Confidence 3445677667999999999998874
No 29
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=21.85 E-value=66 Score=21.99 Aligned_cols=37 Identities=24% Similarity=0.460 Sum_probs=23.0
Q ss_pred cchHHHHHhCCcccccccCCCHHhhhhhhcccchhhhhHhhh
Q 020945 155 KRLAALRAAFPRIVRKEMLLDPAELQLFQNHSSQMAALDFMV 196 (319)
Q Consensus 155 ~~l~~L~~~fPnl~tKe~L~~~eEL~~f~~~ss~~AALDYiV 196 (319)
..+.-|+++||++- .+.+ ..-|+ .+.++..+|+|-+.
T Consensus 4 ~~v~~L~~mFP~l~-~~~I--~~~L~--~~~g~ve~~i~~LL 40 (43)
T smart00546 4 EALHDLKDMFPNLD-EEVI--KAVLE--ANNGNVEATINNLL 40 (43)
T ss_pred HHHHHHHHHCCCCC-HHHH--HHHHH--HcCCCHHHHHHHHH
Confidence 34688999999962 2222 23333 24567788887654
No 30
>smart00054 EFh EF-hand, calcium binding motif. EF-hands are calcium-binding motifs that occur at least in pairs. Links between disease states and genes encoding EF-hands, particularly the S100 subclass, are emerging. Each motif consists of a 12 residue loop flanked on either side by a 12 residue alpha-helix. EF-hands undergo a conformational change unpon binding calcium ions.
Probab=21.80 E-value=98 Score=16.92 Aligned_cols=24 Identities=25% Similarity=0.504 Sum_probs=16.7
Q ss_pred HHHHhhhhcCCccChhHHHHHHHH
Q 020945 235 LVGLLDMHHNGTLSFNEFTVAVRL 258 (319)
Q Consensus 235 l~~l~~~~~~~~~~w~~f~~~v~~ 258 (319)
+...+|.-.+|.++..+|...++.
T Consensus 5 ~f~~~d~~~~g~i~~~e~~~~~~~ 28 (29)
T smart00054 5 AFRLFDKDGDGKIDFEEFKDLLKA 28 (29)
T ss_pred HHHHHCCCCCCcEeHHHHHHHHHh
Confidence 445556545678999999887764
No 31
>cd04910 ACT_AK-Ectoine_1 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinase
Probab=21.11 E-value=88 Score=24.50 Aligned_cols=27 Identities=19% Similarity=0.244 Sum_probs=19.1
Q ss_pred CCceEEEeeccccCCccchHHHHHhCCc
Q 020945 139 KDTHIYIAAGEIYGGEKRLAALRAAFPR 166 (319)
Q Consensus 139 ~~T~IYlA~geiygg~~~l~~L~~~fPn 166 (319)
|+-.+||++..- .-++-+..|.+.||+
T Consensus 40 Ntit~yl~~~~k-~~~r~~~~Le~~~p~ 66 (71)
T cd04910 40 NTITHYLAGSLK-TIKRLTEDLENRFPN 66 (71)
T ss_pred CeEEEEEEcCHH-HHHHHHHHHHHhCcc
Confidence 344799998851 015677899999996
Done!