Query 023649
Match_columns 279
No_of_seqs 155 out of 595
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 05:36:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023649.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023649hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02311 chalcone isomerase 100.0 3.5E-56 7.7E-61 405.6 26.9 256 23-279 12-271 (271)
2 PLN03174 Chalcone-flavanone is 100.0 7E-45 1.5E-49 332.8 23.3 214 56-279 57-277 (278)
3 PLN03175 hypothetical protein; 100.0 5.8E-42 1.3E-46 323.6 22.7 203 72-279 204-413 (415)
4 PLN02804 chalcone isomerase 100.0 7.7E-42 1.7E-46 300.1 21.9 196 80-278 6-206 (206)
5 PLN02559 chalcone--flavonone i 100.0 5.8E-41 1.3E-45 296.1 21.3 200 80-279 9-213 (230)
6 PF02431 Chalcone: Chalcone-fl 100.0 2.4E-41 5.1E-46 297.4 17.5 191 85-277 1-199 (199)
7 PF11720 Inhibitor_I78: Peptid 42.2 16 0.00034 26.0 1.4 25 209-234 28-52 (60)
8 PF02933 CDC48_2: Cell divisio 33.7 41 0.00089 23.7 2.5 35 196-231 5-39 (64)
9 TIGR01439 lp_hng_hel_AbrB loop 31.9 1.3E+02 0.0029 18.8 4.6 20 210-229 21-40 (43)
10 PRK06033 hypothetical protein; 31.4 60 0.0013 24.6 3.2 22 210-231 28-49 (83)
11 TIGR02480 fliN flagellar motor 29.1 55 0.0012 24.2 2.6 22 210-231 29-50 (77)
12 PF04014 Antitoxin-MazE: Antid 29.0 1.1E+02 0.0023 20.2 3.8 22 209-230 20-41 (47)
13 PRK06789 flagellar motor switc 26.8 1E+02 0.0022 23.1 3.6 22 210-231 28-49 (74)
14 PF01052 SpoA: Surface present 26.7 67 0.0015 23.3 2.7 22 210-231 29-50 (77)
15 PF00986 DNA_gyraseB_C: DNA gy 26.4 1E+02 0.0022 22.6 3.5 28 242-272 38-65 (65)
16 PRK05698 fliN flagellar motor 26.3 77 0.0017 27.1 3.3 22 210-231 100-121 (155)
17 COG0248 GppA Exopolyphosphatas 26.3 4.5E+02 0.0098 26.6 9.3 113 150-270 64-182 (492)
18 PRK08433 flagellar motor switc 26.1 82 0.0018 25.4 3.3 22 210-231 53-74 (111)
19 PRK07963 fliN flagellar motor 25.3 84 0.0018 26.3 3.3 22 210-231 81-102 (137)
20 PRK08983 fliN flagellar motor 24.9 82 0.0018 26.0 3.1 23 209-231 71-93 (127)
21 PRK05264 transcriptional repre 24.6 70 0.0015 25.1 2.5 33 242-274 52-85 (105)
22 PF13559 DUF4129: Domain of un 23.8 1.7E+02 0.0037 20.3 4.4 32 246-277 41-72 (72)
23 TIGR03406 FeS_long_SufT probab 22.7 1.9E+02 0.0041 25.0 5.1 62 209-277 19-85 (174)
24 cd00490 Met_repressor_MetJ Met 22.4 80 0.0017 24.6 2.4 31 243-273 52-83 (103)
25 TIGR01440 conserved hypothetic 20.7 1.6E+02 0.0034 25.6 4.1 50 195-257 4-53 (172)
26 PF13001 Ecm29: Proteasome sta 20.0 1.4E+02 0.003 30.0 4.3 35 242-276 267-309 (501)
No 1
>PLN02311 chalcone isomerase
Probab=100.00 E-value=3.5e-56 Score=405.60 Aligned_cols=256 Identities=69% Similarity=0.977 Sum_probs=228.8
Q ss_pred cceeeeecccCCCcccc--cccCCCcccccccccc--cCCCccccccccCCCCCCcceeecccCccccccccCCCCCCcc
Q 023649 23 NSSHLFLGKFAEPHAKS--FRNKPCSLLSAFSATR--IQPHFTVKASSSSSVGSAEYTEEPATKVKFQKSLSLPGYSSPL 98 (279)
Q Consensus 23 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~a~~v~Ep~tgv~FP~~l~~~~~~~~l 98 (279)
.+.||||++.+||...+ ++.|+-++++..+-.+ ..+.....+++ .+++++.+++||+|||+||+.+++++++++|
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ep~TgV~Fp~~v~~~~~s~~L 90 (271)
T PLN02311 12 ESIYHFPGKSPNRVSVLQTGNTVSDSPNSLLKHRHCNEISRVIVKSAA-FSVGSAEYAEETATSVKFQRSLTLPGCSSPL 90 (271)
T ss_pred hheeecCCCCCCCceEcccCCcccccccccccccccCcccceeeeccc-cccCcccceecCCcCCcCCccccCCCCCCce
Confidence 36788999999988777 5556666666555322 22333455666 5688999999999999999999999888899
Q ss_pred eEEeeEEEeeEEEEeeEEEEEEEEEecCcchhhhhhhhCCCccccccChhHHHHHhcCCCeeEEEEEEEecCChhHHHHH
Q 023649 99 SLLGTGYREKVFAIIGVKVYAAGLYINQSILSKLNAWKGKGAANIQEDSSLFDTIYQAPSEKSLKIVLVRDVDGKTFWDA 178 (279)
Q Consensus 99 ~L~G~GvR~k~v~~l~~kVYaagLY~~~~~~~~L~~~~~~~~~el~~~~~~~~~ll~~~~~k~Lri~~~R~v~~~~~~da 178 (279)
+|+|+|+|+|+|.+++||||++|||+++...++|++|++++++||.+|.+||++|++++++|+|||++.|+++++++++|
T Consensus 91 ~LnGaGvR~K~I~~~~vKVYA~GLYL~~~~~~~L~kwkgk~a~eL~~~~~ff~dIi~a~~eK~irI~~iR~v~g~~~~~A 170 (271)
T PLN02311 91 SLLGTGYREKVFAIIGVKVYAAGLYVNPSILSGLSAWKGRSADEIQRDSSLFSSIFQAPAEKSLQIVLVRDVDGKTFWDA 170 (271)
T ss_pred eEeeeEEeeEEEeeeeEEEEEEEEEechhhhhhHhhhcCCCHHHHhcchHHHHHHhcCCcceEEEEEEEecCCHHHHHHH
Confidence 99999999999988999999999999999888899999999999999999999999999999999999999999999999
Q ss_pred HHHHhchhcCCCCcccHHHHHHHHHhcCCCCCCCCCEEEEEEeCCCeEEEEEeCCCCCcccceeeCCHHHHHHHHHHhcC
Q 023649 179 LDDAISPRIRIPTPVDESALSTFRSIFQGRNLMKGTFIFLTWLDPSKMLVSISGDGLPSGVDATIESENVTFALYDVFFG 258 (279)
Q Consensus 179 ~~e~l~~~l~~~~~~~~~~L~~f~~~f~~~~l~kGd~i~l~~~p~~gl~v~~n~~G~p~~~~g~I~s~~f~~Alf~iwLG 258 (279)
|+|++++|++..+.+++++|++|.++|+++++++||+|+|+|.|++++++.++.+|+|.+..|+|++++|++|+|+||||
T Consensus 171 ~~eg~~~rlk~~~~~~~~aLekF~~~F~~~~l~kGd~I~~~~~p~~~~~v~~s~~g~~~~~~g~Ies~~f~~ALf~i~LG 250 (271)
T PLN02311 171 LDEAISPRIKAPSPDDTSALSTFRSIFQNRSLNKGTVIFLTWINPSKMLVCISSEGLPSSVDATIESGNVTSALFDVFFG 250 (271)
T ss_pred HHHHHHHHHhccccchHHHHHHHHHHhcCCCCCCCCEEEEEEeCCCceEEEEecCCcccceeEEECCHHHHHHHHHHhcC
Confidence 99999999977665788899999999998899999999999999999999998667665678999999999999999999
Q ss_pred CCCCCHHHHHHHHHHHHhhhC
Q 023649 259 GAPVSPSLKASVATGLATILK 279 (279)
Q Consensus 259 ~~pvsp~lK~~l~~~l~~ll~ 279 (279)
++|+||++|+++++++++|||
T Consensus 251 d~PVs~~lK~sla~~la~ll~ 271 (271)
T PLN02311 251 DSPVSPSLKASVANGLATTLK 271 (271)
T ss_pred CCCCCHHHHHHHHHHHHHhhC
Confidence 999999999999999999997
No 2
>PLN03174 Chalcone-flavanone isomerase-related; Provisional
Probab=100.00 E-value=7e-45 Score=332.84 Aligned_cols=214 Identities=21% Similarity=0.354 Sum_probs=191.9
Q ss_pred cCCCccccccccCCC-CCCcceeecccCccccccccCCCCCCcceEEeeEEEeeEEEEe-eEEEEEEEEEecCcchhh-h
Q 023649 56 IQPHFTVKASSSSSV-GSAEYTEEPATKVKFQKSLSLPGYSSPLSLLGTGYREKVFAII-GVKVYAAGLYINQSILSK-L 132 (279)
Q Consensus 56 ~~~~~~~~~~~~~~~-~~a~~v~Ep~tgv~FP~~l~~~~~~~~l~L~G~GvR~k~v~~l-~~kVYaagLY~~~~~~~~-L 132 (279)
..+|.+|.|+|+|.+ .+++.++||+|||+||++++.++ +|+|+|+|+|.|..+ +||||++|||+++...++ |
T Consensus 57 ~~~~~~~~~~~~~~a~~~~~~~vEp~tGv~FP~~l~~~~-----~LLGaGvR~k~i~glk~IKvYAiGlYl~~~~v~~~L 131 (278)
T PLN03174 57 FHNSSSPPWASISLADPSPPSVVESKTGVSFPAEIGDSR-----RLLGVGLRKKSILGLKNIDVYAFGVYADDDDLKKLL 131 (278)
T ss_pred cCCCCCcccccceeccCCCCceeccCCCCcCCCcccCCC-----cceeeeeeeEEEeccceEEEEEEEEEechhHhHHHh
Confidence 458899999998654 56678999999999999998653 477999999987554 789999999999987666 6
Q ss_pred h-hhhCCCccccccChhHHHHHhcCCCeeEEEEEEEe-cCChhHHHHHHHHHhchhcCCCCc-ccHHHHHHHHHhcCCC-
Q 023649 133 N-AWKGKGAANIQEDSSLFDTIYQAPSEKSLKIVLVR-DVDGKTFWDALDDAISPRIRIPTP-VDESALSTFRSIFQGR- 208 (279)
Q Consensus 133 ~-~~~~~~~~el~~~~~~~~~ll~~~~~k~Lri~~~R-~v~~~~~~da~~e~l~~~l~~~~~-~~~~~L~~f~~~f~~~- 208 (279)
+ +|++++++||.++.+|+++|++++++|++||++++ .++.++++++++|++.+|+++.+. +.++.|++|.++|+++
T Consensus 132 ~~k~kgks~~El~~s~~f~~dil~~~~ek~iRL~iiy~~v~~~~v~~A~~esv~~rl~~~~~~e~~e~IekF~~~F~~~~ 211 (278)
T PLN03174 132 GEKYGKLSASELKGNKEFIDDLMEADIKMTVRLQIVYGKLSIRSVRSAFEESVGSRLQKFGGSDNKELLQSFTSLFKDEY 211 (278)
T ss_pred hhhhcCCChhhhhcCHHHHHHHHcCCCceEEEEEEEeccccHHHHHHHHHHHHHHhhhccCCcchHHHHHHHHHHHhccc
Confidence 6 89999999999999999999999999999999975 699999999999999999887654 5666899999999874
Q ss_pred CCCCCCEEEEEEeCCCeEEEEEeCCCCCcccceeeCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhC
Q 023649 209 NLMKGTFIFLTWLDPSKMLVSISGDGLPSGVDATIESENVTFALYDVFFGGAPVSPSLKASVATGLATILK 279 (279)
Q Consensus 209 ~l~kGd~i~l~~~p~~gl~v~~n~~G~p~~~~g~I~s~~f~~Alf~iwLG~~pvsp~lK~~l~~~l~~ll~ 279 (279)
.++|||+|+|+|.|++++.++++ | ++.|+|++++|++|+|++|||++|+||++|++|+++|++||+
T Consensus 212 ~l~kGdvI~~~~~Pg~gl~vsi~--G---k~~g~Ie~~~f~~ALf~iyLGd~PVsp~lK~sll~~la~ll~ 277 (278)
T PLN03174 212 KIPKGSVIDLSREPGHVLRTTID--G---KEVGSIQSKLLCRSILDLYIGEDPFDKNAKEDIEENLASLLQ 277 (278)
T ss_pred cCCCCCEEEEEEcCCCeEEEEEC--C---EEeeEECCHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhc
Confidence 47899999999999999999996 7 568999999999999999999999999999999999999985
No 3
>PLN03175 hypothetical protein; Provisional
Probab=100.00 E-value=5.8e-42 Score=323.56 Aligned_cols=203 Identities=23% Similarity=0.386 Sum_probs=186.1
Q ss_pred CCcceeecccCcccccccc-CCCCCCcceEEeeEEEeeEEEE-eeEEEEEEEEEecCcc-hhhhh-hhhCCCccccccCh
Q 023649 72 SAEYTEEPATKVKFQKSLS-LPGYSSPLSLLGTGYREKVFAI-IGVKVYAAGLYINQSI-LSKLN-AWKGKGAANIQEDS 147 (279)
Q Consensus 72 ~a~~v~Ep~tgv~FP~~l~-~~~~~~~l~L~G~GvR~k~v~~-l~~kVYaagLY~~~~~-~~~L~-~~~~~~~~el~~~~ 147 (279)
-.+.++||.|||+||..++ .+++...+.|+|+|+|.+.|.+ ++||||++|+|+++.+ ..+|+ +|+|++++||.++.
T Consensus 204 ~~~~~vEPkTgv~FP~~l~~~p~s~~sl~L~G~GvR~~eI~~~k~IKfyAiGVYle~~~v~~~L~~KwkGKsa~EL~~s~ 283 (415)
T PLN03175 204 WTRDAVEPRTGIEFPMLLDENNSSLTSEVLVGTGSRTMKIIRIKSLKVYAFGFYVHPNSVCEKLGPKYASVPASELKKCP 283 (415)
T ss_pred ccccccccCCCCcCCccccCCCCCCCceeeeecccceeEEEeeceeEEEEEEEEeccchHHHHHhhhhCCCcHHHHccCH
Confidence 3567889999999999997 6776678999999999999864 6999999999999996 67798 99999999999999
Q ss_pred hHHHHHhcCCCeeEEEEEEE-ecCChhHHHHHHHHHhchhcCCCCc-ccHHHHHHHHHhc-CCCCCCCCCEEEEEEeCCC
Q 023649 148 SLFDTIYQAPSEKSLKIVLV-RDVDGKTFWDALDDAISPRIRIPTP-VDESALSTFRSIF-QGRNLMKGTFIFLTWLDPS 224 (279)
Q Consensus 148 ~~~~~ll~~~~~k~Lri~~~-R~v~~~~~~da~~e~l~~~l~~~~~-~~~~~L~~f~~~f-~~~~l~kGd~i~l~~~p~~ 224 (279)
+||++|+++|++|++||++. +.++.+++++|++|++.+|+++.+. .+.++|++|.++| ++..++|||.|+|+|.|++
T Consensus 284 eFf~DIItap~~m~IRLVii~~gI~~sk~~~Afees~g~RLkkt~gdae~eAIeKF~s~F~~di~fpkGssI~Ft~sP~g 363 (415)
T PLN03175 284 DFYEDLLREDIVMTVRLVVNYNGLKINTVRDAFEKSLRNRLQKMNPNTDYNCLKTFGSFFTEDIPIPAGTKIDFRRTSDG 363 (415)
T ss_pred HHHHHHHcCCccEEEEEEEecCCccHHHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHhhcccccCCCCEEEEEEcCCC
Confidence 99999999999999999997 6799999999999999999988754 5677899999999 4678889999999999999
Q ss_pred eEEEEEeCCCCCcccceeeCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhC
Q 023649 225 KMLVSISGDGLPSGVDATIESENVTFALYDVFFGGAPVSPSLKASVATGLATILK 279 (279)
Q Consensus 225 gl~v~~n~~G~p~~~~g~I~s~~f~~Alf~iwLG~~pvsp~lK~~l~~~l~~ll~ 279 (279)
++.++++ | +.+|+|+++.|++|+|++|||++|+||++|++++++|+.|||
T Consensus 364 gLtisIn--G---~~vgvIEnk~L~eALfdiyLGd~PVSPslKeslA~~La~Ll~ 413 (415)
T PLN03175 364 QLITEIG--G---NQIGAVRSKDLCRAFFDMYIGDVPVSEQTKEEIGQNVAGIIR 413 (415)
T ss_pred ceEEEEC--C---eeeeEeccHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHh
Confidence 9999996 6 568999999999999999999999999999999999999986
No 4
>PLN02804 chalcone isomerase
Probab=100.00 E-value=7.7e-42 Score=300.07 Aligned_cols=196 Identities=29% Similarity=0.497 Sum_probs=183.9
Q ss_pred ccCccccccccCCCCCCcceEEeeEEEeeEEEEeeEEEEEEEEEecCcchhhhhhhhCCCccccccChhHHHHHhcCCCe
Q 023649 80 ATKVKFQKSLSLPGYSSPLSLLGTGYREKVFAIIGVKVYAAGLYINQSILSKLNAWKGKGAANIQEDSSLFDTIYQAPSE 159 (279)
Q Consensus 80 ~tgv~FP~~l~~~~~~~~l~L~G~GvR~k~v~~l~~kVYaagLY~~~~~~~~L~~~~~~~~~el~~~~~~~~~ll~~~~~ 159 (279)
+.|++||+.++ ++++++.|.|+|+|.+.|.+++||||++|+|+++...++|++|+|++++||.+|.+||++|+++|++
T Consensus 6 v~~v~FP~~i~--~ss~~l~L~G~G~R~~~I~~~~iK~yAiGvYle~~~~~~L~kwkgk~a~EL~~~~~Ff~dlv~~p~e 83 (206)
T PLN02804 6 VEDIPFPPQIT--TSSKPLSLLGHGITDIEIHFLQIKFTAIGVYLEPSVKGHLQSWKGKPGSELAEDDDFFQALIQAPVE 83 (206)
T ss_pred ecCcCCCceee--cCCCcceEEeecccceEEEeEEEEEEEEEEEecHHHHHHHHHhcCCCHHHHhcCHHHHHHHHcCChh
Confidence 88999999998 4558899999999999999999999999999999877889999999999999999999999999999
Q ss_pred eEEEEEEEecCChhHHHHHHHHHhchhcCCCCc---ccHHHHHHHHHhcCCCCCCCCCEEEEEEeC-CCeEEEEEeCCCC
Q 023649 160 KSLKIVLVRDVDGKTFWDALDDAISPRIRIPTP---VDESALSTFRSIFQGRNLMKGTFIFLTWLD-PSKMLVSISGDGL 235 (279)
Q Consensus 160 k~Lri~~~R~v~~~~~~da~~e~l~~~l~~~~~---~~~~~L~~f~~~f~~~~l~kGd~i~l~~~p-~~gl~v~~n~~G~ 235 (279)
|.+||+++|++++.++++++++++.+||++.+. +++++|++|.++|++++++||+.|+|+|.| ++.+++.+..+|
T Consensus 84 k~~Ri~~i~~l~g~qy~~~~ee~~~~rlk~~~~y~d~e~~aL~kf~~~Fk~~~fp~Gs~I~ft~~~~~g~l~Isfs~dg- 162 (206)
T PLN02804 84 KLIRIVVIKEIKGSQYGVQLESSVRDRLAEDDKYEEEEEEALEKVVEFFQSKYFKKNSIITYHFPATSGIVEISFSTEG- 162 (206)
T ss_pred hEEEEEEEecCcCccHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhCCCcCCCCCEEEEEecCCCCeEEEEEecCC-
Confidence 999999999999999999999999999999874 568899999999999999999999999998 778999998777
Q ss_pred CcccceeeCCHHHHHHHHHHhc-CCCCCCHHHHHHHHHHHHhhh
Q 023649 236 PSGVDATIESENVTFALYDVFF-GGAPVSPSLKASVATGLATIL 278 (279)
Q Consensus 236 p~~~~g~I~s~~f~~Alf~iwL-G~~pvsp~lK~~l~~~l~~ll 278 (279)
|....+.|+|+.+|+|+|+.|| |++|+||++|++++++|+.+|
T Consensus 163 ~e~~~~~Ienk~l~~avl~~yi~G~~~VSp~~k~slA~~la~~~ 206 (206)
T PLN02804 163 KEESKLTVENANVVEMIQKWYLGGENGVSPSTISSVADSIAAEL 206 (206)
T ss_pred cccceeEEecHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhC
Confidence 5456788999999999999999 999999999999999999885
No 5
>PLN02559 chalcone--flavonone isomerase
Probab=100.00 E-value=5.8e-41 Score=296.07 Aligned_cols=200 Identities=25% Similarity=0.389 Sum_probs=189.4
Q ss_pred ccCccccccccCCCCCCcceEEeeEEEeeEEEEeeEEEEEEEEEecCcchhhhh-hhhCCCccccccChhHHHHHhcCCC
Q 023649 80 ATKVKFQKSLSLPGYSSPLSLLGTGYREKVFAIIGVKVYAAGLYINQSILSKLN-AWKGKGAANIQEDSSLFDTIYQAPS 158 (279)
Q Consensus 80 ~tgv~FP~~l~~~~~~~~l~L~G~GvR~k~v~~l~~kVYaagLY~~~~~~~~L~-~~~~~~~~el~~~~~~~~~ll~~~~ 158 (279)
+.+++||+.++.|++++++.|.|+|+|.+.|.++++|+|++|+|+++.....|. +|+|++++||.+|.+||++|+.+|+
T Consensus 9 ve~i~FP~~v~~p~s~~~l~L~GaG~Rg~eI~~~~vKftAiGvYle~~av~~L~~KWKGKsa~EL~~~~~Ff~div~~p~ 88 (230)
T PLN02559 9 VEGVTFPPSVKPPGSSNPLFLGGAGVRGLEIQGKFIKFTAIGVYLEGNAVPSLAKKWKGKTAEELADSVAFFRDVVTGDF 88 (230)
T ss_pred EcceecCCcccCCCCCCceEEEeccccceEEeeEEEEEEEEEEEechhHHHHHHHhhCCcCHHHHhcCHHHHHHHHcCcc
Confidence 889999999999998899999999999999999999999999999998777776 9999999999999999999999999
Q ss_pred eeEEEEEEEecCChhHHHHHHHHHhchhcCCCCc---ccHHHHHHHHHhcCCCCCCCCCEEEEEEeCCCeEEEEEeCCCC
Q 023649 159 EKSLKIVLVRDVDGKTFWDALDDAISPRIRIPTP---VDESALSTFRSIFQGRNLMKGTFIFLTWLDPSKMLVSISGDGL 235 (279)
Q Consensus 159 ~k~Lri~~~R~v~~~~~~da~~e~l~~~l~~~~~---~~~~~L~~f~~~f~~~~l~kGd~i~l~~~p~~gl~v~~n~~G~ 235 (279)
+|.+|+++++++++.++.+++.+...++|+..+. ++.++|++|.++|+++.+++|+.|+|+|.|++.|++.+..||+
T Consensus 89 EK~~rV~~I~~l~G~qy~~kv~e~~~a~~ks~g~y~daE~~aLekF~~~Fk~~~fp~Gs~I~ft~sp~g~L~isfs~dg~ 168 (230)
T PLN02559 89 EKFTRVTMILPLTGEQYSEKVTENCVAIWKSLGIYTDAEAKAVEKFKEAFKEETFPPGSSILFTHSPTGSLTVAFSKDSS 168 (230)
T ss_pred hhhEEEEEEEeccccchHHHHhHHHHHHHHhcCCcchhHHHHHHHHHHHhcCCCCCCCCEEEEEECCCCcEEEEEecCCC
Confidence 9999999999999999999999999999988864 6788999999999999999999999999999999999986664
Q ss_pred -CcccceeeCCHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhhhC
Q 023649 236 -PSGVDATIESENVTFALYDVFFGGAPVSPSLKASVATGLATILK 279 (279)
Q Consensus 236 -p~~~~g~I~s~~f~~Alf~iwLG~~pvsp~lK~~l~~~l~~ll~ 279 (279)
|....+.|+|+.+|+|+|+.|||++||||++|++++++|+.||+
T Consensus 169 ipe~~~~~Ienk~l~eAv~e~~IG~~~VSP~aK~slA~~la~ll~ 213 (230)
T PLN02559 169 VPEVGNAVIENKLLCEAVLESIIGKHGVSPAAKLSLAARLSELLK 213 (230)
T ss_pred CCccceEEEechHHHHHHHHHHccCCCCCHHHHHHHHHHHHHHHh
Confidence 66778999999999999999999999999999999999999985
No 6
>PF02431 Chalcone: Chalcone-flavanone isomerase; InterPro: IPR003466 Chalcone isomerase (5.5.1.6 from EC) also known as chalcone-flavanone isomerase, is a plant enzyme responsible for the isomerisation of chalcone to naringenin a key step in the biosynthesis of flavonoids. The Petunia hybrida (Petunia) genome contains two genes coding for very similar enzymes, ChiA and ChiB, but only the first seems to encode a functional chalcone isomerase. Chalcone isomerase has a core 2-layer alpha/beta structure consisting of beta(3)-alpha(2)-beta-alpha(2)-beta(3) []. This entry represents a subgroup of Chalcone isomerase.; GO: 0016872 intramolecular lyase activity, 0042398 cellular modified amino acid biosynthetic process; PDB: 1JX0_B 1JEP_A 1EYP_B 1JX1_B 1EYQ_B 1FM8_A 1FM7_A 4DOL_A 4DOI_A 4DOK_B ....
Probab=100.00 E-value=2.4e-41 Score=297.42 Aligned_cols=191 Identities=42% Similarity=0.727 Sum_probs=164.4
Q ss_pred ccccccCCCCCCcceEEeeEEEeeEEEEeeEEEEEEEEEecCcchhhh-hhhhCCCcc-ccccChhHHHHHhcCCCeeEE
Q 023649 85 FQKSLSLPGYSSPLSLLGTGYREKVFAIIGVKVYAAGLYINQSILSKL-NAWKGKGAA-NIQEDSSLFDTIYQAPSEKSL 162 (279)
Q Consensus 85 FP~~l~~~~~~~~l~L~G~GvR~k~v~~l~~kVYaagLY~~~~~~~~L-~~~~~~~~~-el~~~~~~~~~ll~~~~~k~L 162 (279)
||.+++.++..++|+|+|+|+|++. |++||||++|+|+++...+++ ..|.++.++ ++.++++++++|++++++|++
T Consensus 1 FP~~i~~p~~~~~l~L~G~GvR~~~--~~~ikVYavG~Yv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~k~i 78 (199)
T PF02431_consen 1 FPKKITSPTSSEELSLLGAGVRTVS--FLNIKVYAVGLYVDDSDAKKLLKKWKGKSASDDLEKSEDFFDDLLDSPVEKAI 78 (199)
T ss_dssp EESEEE-TTTSSEEEEEEEEEEEEE--ETEEEEEEEEEEEECCHHHHHHHHHTTT-HHHHHHT-HHHHHHHHHSSS-EEE
T ss_pred CCCcccCCCCCCCeEEEEEEEeeEE--EEEEEEEEEEEEEChhHhhhHHHhhhcccCcccccccHHHHHHHhcCCccEEE
Confidence 8999999877789999999999976 569999999999999977665 489999887 899999999999999999999
Q ss_pred EEEEEecCChhHHHHHHHHHhchhcCCCC---cccHHHHHHHHHhcCC-CCCCCCCEEEEEEeCCCeEEEEEeCCCC-Cc
Q 023649 163 KIVLVRDVDGKTFWDALDDAISPRIRIPT---PVDESALSTFRSIFQG-RNLMKGTFIFLTWLDPSKMLVSISGDGL-PS 237 (279)
Q Consensus 163 ri~~~R~v~~~~~~da~~e~l~~~l~~~~---~~~~~~L~~f~~~f~~-~~l~kGd~i~l~~~p~~gl~v~~n~~G~-p~ 237 (279)
||+++|+++++||+|+|+++|.+|++..+ .+++++|++|+++|+. ++++|||+|+|+|.|++++.+.++++++ +.
T Consensus 79 ri~~~R~~~~~~l~d~~~~~i~~r~~~~~~~~~~~~~~l~~f~~~F~~~g~~~kG~~i~l~~~~~g~l~v~~~~~~~~~~ 158 (199)
T PF02431_consen 79 RIVPVRNVDGKHLRDAFIESIRPRLKAAGTEEEALEEALDEFKSLFKSKGSVPKGDVITLTWSPDGSLTVSYNGQGKIPG 158 (199)
T ss_dssp EEEESSSEEHHHHHHHHHHHHHHHHHHTT--SHHHHHHHHHHHHHHTTB-EE-TT-EEEEEEETTTEEEEEEESSSS--S
T ss_pred EEEEEecCCHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHHhcccccccCCCEEEEEECCCCcEEEEEecCCCCCc
Confidence 99999999999999999999999997753 3678999999999976 4899999999999999999999984332 23
Q ss_pred ccceeeCCHHHHHHHHHHhc-CCCCCCHHHHHHHHHHHHhh
Q 023649 238 GVDATIESENVTFALYDVFF-GGAPVSPSLKASVATGLATI 277 (279)
Q Consensus 238 ~~~g~I~s~~f~~Alf~iwL-G~~pvsp~lK~~l~~~l~~l 277 (279)
+.+|+|+++.|++|||++|| |++|+||++|++++++|++|
T Consensus 159 ~~~g~I~~~~~~~al~~~yL~G~~pvs~~~k~s~~~~l~~l 199 (199)
T PF02431_consen 159 KELGTIKSPRFARALFDIYLSGDKPVSPSLKKSVAEGLASL 199 (199)
T ss_dssp SECEEEE-HHHHHHHHHHHH-STT-S-HHHHHHHHHHHHHH
T ss_pred cceeEEcCHHHHHHHHHHHcCCCCCCCHHHHHHHHHHhhcC
Confidence 68999999999999999999 99999999999999999986
No 7
>PF11720 Inhibitor_I78: Peptidase inhibitor I78 family; InterPro: IPR021719 This family includes Aspergillus elastase inhibitor and belongs to MEROPS peptidase inhibitor family I78.
Probab=42.21 E-value=16 Score=25.97 Aligned_cols=25 Identities=16% Similarity=0.373 Sum_probs=21.2
Q ss_pred CCCCCCEEEEEEeCCCeEEEEEeCCC
Q 023649 209 NLMKGTFIFLTWLDPSKMLVSISGDG 234 (279)
Q Consensus 209 ~l~kGd~i~l~~~p~~gl~v~~n~~G 234 (279)
=+.+|+.++++|.|+ .|.|.++++|
T Consensus 28 vi~Pg~~vTmDyr~d-RLnv~~D~~g 52 (60)
T PF11720_consen 28 VIRPGDAVTMDYRPD-RLNVEVDDDG 52 (60)
T ss_pred EeCCCCcCcccCCCC-cEEEEECCCC
Confidence 478999999999987 7999997444
No 8
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=33.66 E-value=41 Score=23.75 Aligned_cols=35 Identities=17% Similarity=0.415 Sum_probs=26.7
Q ss_pred HHHHHHHHhcCCCCCCCCCEEEEEEeCCCeEEEEEe
Q 023649 196 SALSTFRSIFQGRNLMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 196 ~~L~~f~~~f~~~~l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+.++.|+..|.++.+.+||.|.+.+. ++.+.+.+.
T Consensus 5 d~~~~~~~~l~~~pv~~Gd~i~~~~~-~~~~~~~V~ 39 (64)
T PF02933_consen 5 DFMAYFKRQLEGRPVTKGDTIVFPFF-GQALPFKVV 39 (64)
T ss_dssp HHHHHHHHHHTTEEEETT-EEEEEET-TEEEEEEEE
T ss_pred cHHHHHHHHHcCCCccCCCEEEEEeC-CcEEEEEEE
Confidence 34558999999999999999999985 556666654
No 9
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=31.91 E-value=1.3e+02 Score=18.81 Aligned_cols=20 Identities=10% Similarity=0.302 Sum_probs=15.9
Q ss_pred CCCCCEEEEEEeCCCeEEEE
Q 023649 210 LMKGTFIFLTWLDPSKMLVS 229 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~ 229 (279)
+.+||.+.+...+++.+.++
T Consensus 21 ~~~gd~~~i~~~~~~~l~l~ 40 (43)
T TIGR01439 21 LKEGDRLEVIRVEDGEIILR 40 (43)
T ss_pred cCCCCEEEEEEeCCCEEEEE
Confidence 78999999997777666654
No 10
>PRK06033 hypothetical protein; Validated
Probab=31.43 E-value=60 Score=24.62 Aligned_cols=22 Identities=14% Similarity=0.234 Sum_probs=19.2
Q ss_pred CCCCCEEEEEEeCCCeEEEEEe
Q 023649 210 LMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+++||.|.|....+..+.++++
T Consensus 28 L~~GDVI~L~~~~~~~v~v~V~ 49 (83)
T PRK06033 28 MGRGAVIPLDATEADEVWILAN 49 (83)
T ss_pred CCCCCEEEeCCCCCCcEEEEEC
Confidence 8999999998766778999996
No 11
>TIGR02480 fliN flagellar motor switch protein FliN. Proteins that consist largely of the domain described by this model can be designated flagellar motor switch protein FliN. Longer proteins in which this region is a C-terminal domain typically are designated FliY. More distantly related sequences, outside the scope of this family, are associated with type III secretion and include the surface presentation of antigens protein SpaO required or invasion of host cells by Salmonella enterica.
Probab=29.06 E-value=55 Score=24.16 Aligned_cols=22 Identities=23% Similarity=0.244 Sum_probs=19.5
Q ss_pred CCCCCEEEEEEeCCCeEEEEEe
Q 023649 210 LMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+++||.|.+....+..+.++++
T Consensus 29 L~~Gdvi~L~~~~~~~v~l~v~ 50 (77)
T TIGR02480 29 LGEGSVIELDKLAGEPLDILVN 50 (77)
T ss_pred CCCCCEEEcCCCCCCcEEEEEC
Confidence 8899999998877788999996
No 12
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=28.96 E-value=1.1e+02 Score=20.21 Aligned_cols=22 Identities=14% Similarity=0.141 Sum_probs=17.1
Q ss_pred CCCCCCEEEEEEeCCCeEEEEE
Q 023649 209 NLMKGTFIFLTWLDPSKMLVSI 230 (279)
Q Consensus 209 ~l~kGd~i~l~~~p~~gl~v~~ 230 (279)
.+++||.+.+....++.+.+.-
T Consensus 20 ~l~~Gd~v~i~~~~~g~i~i~p 41 (47)
T PF04014_consen 20 GLKPGDEVEIEVEGDGKIVIRP 41 (47)
T ss_dssp TSSTTTEEEEEEETTSEEEEEE
T ss_pred CCCCCCEEEEEEeCCCEEEEEE
Confidence 3899999999998776555543
No 13
>PRK06789 flagellar motor switch protein; Validated
Probab=26.82 E-value=1e+02 Score=23.10 Aligned_cols=22 Identities=18% Similarity=0.214 Sum_probs=20.6
Q ss_pred CCCCCEEEEEEeCCCeEEEEEe
Q 023649 210 LMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+.+|+.+.+....+.-+.+.+|
T Consensus 28 L~~Gsvi~Ldk~~~epvdI~vN 49 (74)
T PRK06789 28 ITKGTLYRLENSTKNTVRLMLE 49 (74)
T ss_pred CCCCCEEEeCCcCCCCEEEEEC
Confidence 8899999999999999999997
No 14
>PF01052 SpoA: Surface presentation of antigens (SPOA); InterPro: IPR001543 Proteins in this group are involved in a secretory pathway responsible for the surface presentation of invasion plasmid antigen needed for the entry of Salmonella and other species into mammalian cells [, ].They could play a role in preserving the translocation competence of the IPA antigens and are required for secretion of the three IPA proteins []. The C-terminal region of flagellar motor switch proteins FliN and FliM is also included in this entry. ; PDB: 3UEP_A 1O9Y_B 1YAB_A.
Probab=26.72 E-value=67 Score=23.29 Aligned_cols=22 Identities=18% Similarity=0.138 Sum_probs=17.3
Q ss_pred CCCCCEEEEEEeCCCeEEEEEe
Q 023649 210 LMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+++||.|.+....+..+.++++
T Consensus 29 L~~Gdvi~l~~~~~~~v~l~v~ 50 (77)
T PF01052_consen 29 LKVGDVIPLDKPADEPVELRVN 50 (77)
T ss_dssp --TT-EEEECCESSTEEEEEET
T ss_pred CCCCCEEEeCCCCCCCEEEEEC
Confidence 8899999999988889999995
No 15
>PF00986 DNA_gyraseB_C: DNA gyrase B subunit, carboxyl terminus The Prosite motif does not match this Pfam entry.; InterPro: IPR002288 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions, domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents the C-terminal region (C-terminal part of domain 2) of subunit B found in topoisomerase II (gyrB) and topoisomerase IV (parE), which are primarily of bacterial origin. It does not include the topoisomerase II enzymes composed of a single polypeptide, as are found in most eukaryotes. This region is involved in subunit interaction, which accounts for the difference between subunit B and single polypeptide topoisomerase II. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 3LTN_D 3RAF_C 3FOF_C 3RAE_C 3KSA_D 3RAD_C 3FOE_D 3KSB_D 3K9F_D 2XCT_D ....
Probab=26.42 E-value=1e+02 Score=22.56 Aligned_cols=28 Identities=18% Similarity=0.319 Sum_probs=21.8
Q ss_pred eeCCHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023649 242 TIESENVTFALYDVFFGGAPVSPSLKASVAT 272 (279)
Q Consensus 242 ~I~s~~f~~Alf~iwLG~~pvsp~lK~~l~~ 272 (279)
+|++..-+..+|+.|+|+ ..+.|+.+.+
T Consensus 38 ~i~d~~~~~~~~~~LMG~---~v~~Rr~fIe 65 (65)
T PF00986_consen 38 TIEDAEEADELFEMLMGK---NVEPRREFIE 65 (65)
T ss_dssp EHCCHHHHHHHHHHHHSS---THHHHHHHHH
T ss_pred EECCHHHHHHHHHHHcCC---CcHHHHHHhC
Confidence 466777899999999998 4567777653
No 16
>PRK05698 fliN flagellar motor switch protein; Validated
Probab=26.30 E-value=77 Score=27.11 Aligned_cols=22 Identities=27% Similarity=0.302 Sum_probs=20.1
Q ss_pred CCCCCEEEEEEeCCCeEEEEEe
Q 023649 210 LMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+++||+|.|....+..+.|++|
T Consensus 100 L~~GDVI~Ldk~~~epv~V~Vn 121 (155)
T PRK05698 100 LNQGSVIELDRLAGEPLDVLVN 121 (155)
T ss_pred CCCCCEEEeCCCCCCCEEEEEC
Confidence 8899999999988888999996
No 17
>COG0248 GppA Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]
Probab=26.30 E-value=4.5e+02 Score=26.60 Aligned_cols=113 Identities=17% Similarity=0.240 Sum_probs=68.9
Q ss_pred HHHHhcCCCeeEEEEEE---Eec-CChhHHHHHHHHHhchhcCCCCcccHHHHHHHHHhcCCCCCC-CCCEEEEEEeCCC
Q 023649 150 FDTIYQAPSEKSLKIVL---VRD-VDGKTFWDALDDAISPRIRIPTPVDESALSTFRSIFQGRNLM-KGTFIFLTWLDPS 224 (279)
Q Consensus 150 ~~~ll~~~~~k~Lri~~---~R~-v~~~~~~da~~e~l~~~l~~~~~~~~~~L~~f~~~f~~~~l~-kGd~i~l~~~p~~ 224 (279)
|..+++.-.+..++++- +|+ .++++|.....+.+.-.++-.. ..+++--.+..+... +. +|+.++++. .||
T Consensus 64 f~e~~~~~~~~~v~~vATsA~R~A~N~~eFl~rv~~~~G~~ievIs-GeeEArl~~lGv~~~--~~~~~~~lv~DI-GGG 139 (492)
T COG0248 64 FAELLDGFGAEEVRVVATSALRDAPNGDEFLARVEKELGLPIEVIS-GEEEARLIYLGVAST--LPRKGDGLVIDI-GGG 139 (492)
T ss_pred HHHHHhhCCCCEEEEehhHHHHcCCCHHHHHHHHHHHhCCceEEec-cHHHHHHHHHHHHhc--CCCCCCEEEEEe-cCC
Confidence 45555554444566665 476 7899999998888854443322 245555556666654 45 899999997 677
Q ss_pred eEEEEEeCCCCCcccceeeCCHHH-HHHHHHHhcCCCCCCHHHHHHH
Q 023649 225 KMLVSISGDGLPSGVDATIESENV-TFALYDVFFGGAPVSPSLKASV 270 (279)
Q Consensus 225 gl~v~~n~~G~p~~~~g~I~s~~f-~~Alf~iwLG~~pvsp~lK~~l 270 (279)
.+++.+-.+.+ .....+-.+ |-.+-..|++++|+++.--+.+
T Consensus 140 StEl~~g~~~~----~~~~~Sl~~G~v~lt~~~~~~~~~s~~~~~~~ 182 (492)
T COG0248 140 STELVLGDNFE----IGLLISLPLGCVRLTERFFPDDPISEENFAKA 182 (492)
T ss_pred eEEEEEecCCc----cceeEEeecceEEeehhhcCCCCCCHHHHHHH
Confidence 88888753222 122222222 2246788899888885543333
No 18
>PRK08433 flagellar motor switch protein; Validated
Probab=26.08 E-value=82 Score=25.39 Aligned_cols=22 Identities=23% Similarity=0.169 Sum_probs=19.6
Q ss_pred CCCCCEEEEEEeCCCeEEEEEe
Q 023649 210 LMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+++||+|.+....+..+.++++
T Consensus 53 Lq~GDVI~Ld~~~~e~v~v~V~ 74 (111)
T PRK08433 53 FEKGSVIDLEKPAGESVELYIN 74 (111)
T ss_pred CCCCCEEEeCCCCCCCEEEEEC
Confidence 8899999999877778999996
No 19
>PRK07963 fliN flagellar motor switch protein FliN; Validated
Probab=25.28 E-value=84 Score=26.30 Aligned_cols=22 Identities=23% Similarity=0.309 Sum_probs=19.9
Q ss_pred CCCCCEEEEEEeCCCeEEEEEe
Q 023649 210 LMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 210 l~kGd~i~l~~~p~~gl~v~~n 231 (279)
+++||+|.|....+..+.+++|
T Consensus 81 L~~GDVI~Ld~~~~epv~V~Vn 102 (137)
T PRK07963 81 LTQGSVVALDGLAGEPLDILIN 102 (137)
T ss_pred CCCCCEEEeCCCCCCCEEEEEC
Confidence 8899999999888888999996
No 20
>PRK08983 fliN flagellar motor switch protein; Validated
Probab=24.89 E-value=82 Score=25.97 Aligned_cols=23 Identities=17% Similarity=0.264 Sum_probs=20.4
Q ss_pred CCCCCCEEEEEEeCCCeEEEEEe
Q 023649 209 NLMKGTFIFLTWLDPSKMLVSIS 231 (279)
Q Consensus 209 ~l~kGd~i~l~~~p~~gl~v~~n 231 (279)
++++||+|.|....+..+.+++|
T Consensus 71 ~L~~GDVI~Ld~~~ddpv~v~Vn 93 (127)
T PRK08983 71 QLNQGSVVELDRVAGEPLDVMVN 93 (127)
T ss_pred CCCCCCEEEeCCCCCCCEEEEEC
Confidence 38999999999888888999996
No 21
>PRK05264 transcriptional repressor protein MetJ; Provisional
Probab=24.61 E-value=70 Score=25.05 Aligned_cols=33 Identities=21% Similarity=0.278 Sum_probs=25.8
Q ss_pred eeCCHHHHHHHHHHhcC-CCCCCHHHHHHHHHHH
Q 023649 242 TIESENVTFALYDVFFG-GAPVSPSLKASVATGL 274 (279)
Q Consensus 242 ~I~s~~f~~Alf~iwLG-~~pvsp~lK~~l~~~l 274 (279)
--.|+.+|.||+-.|-| +=|-+.+|++.--+.+
T Consensus 52 ATNSELLCEAFLHA~TGQPLP~D~Dl~Kd~~d~i 85 (105)
T PRK05264 52 ATNSELLCEAFLHAFTGQPLPDDEDLRKERSDEI 85 (105)
T ss_pred cccHHHHHHHHHHHHcCCCCCChhhhhhcCcccc
Confidence 35789999999999999 5777888887644433
No 22
>PF13559 DUF4129: Domain of unknown function (DUF4129)
Probab=23.76 E-value=1.7e+02 Score=20.28 Aligned_cols=32 Identities=22% Similarity=0.251 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhh
Q 023649 246 ENVTFALYDVFFGGAPVSPSLKASVATGLATI 277 (279)
Q Consensus 246 ~~f~~Alf~iwLG~~pvsp~lK~~l~~~l~~l 277 (279)
..+.+.+-.+++|..+++++-.+.+.+.+..|
T Consensus 41 ~~lt~~ye~~~Yg~~~~~~~~~~~~~~~~~~l 72 (72)
T PF13559_consen 41 EELTRLYERARYGGRPPSAEEFQRAREALRRL 72 (72)
T ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHHHHHhcC
Confidence 36777888899999999999999988877654
No 23
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=22.69 E-value=1.9e+02 Score=25.04 Aligned_cols=62 Identities=21% Similarity=0.130 Sum_probs=41.1
Q ss_pred CCCCCCEEEEEEeCCCeEEEEEeCCCCCcccceeeCCHHHHHHH-----HHHhcCCCCCCHHHHHHHHHHHHhh
Q 023649 209 NLMKGTFIFLTWLDPSKMLVSISGDGLPSGVDATIESENVTFAL-----YDVFFGGAPVSPSLKASVATGLATI 277 (279)
Q Consensus 209 ~l~kGd~i~l~~~p~~gl~v~~n~~G~p~~~~g~I~s~~f~~Al-----f~iwLG~~pvsp~lK~~l~~~l~~l 277 (279)
.+++|+.+.++=.=++..+|.++ | .+.+|.+++ +.|+ -..=+.+.+..+..++++.+.|.++
T Consensus 19 ~~~~~~~~~~~q~lgg~~t~~~~--g----~~~r~~~~~-~da~g~~~~~~~~~~~~~~~~~~ee~V~eaL~tV 85 (174)
T TIGR03406 19 TLPAGTEVTITQALGGNFTVVVE--G----NMARIDGKD-ADALGKEPPPPLDLPENADGEDNEDQVWEQLRTV 85 (174)
T ss_pred EcCCCCEEEEEEccCCeEEEEEc--C----eEEEecCcC-hhhhcCCCCCcCCCCcCccccccHHHHHHHHcCC
Confidence 58899999998877888888886 4 255555544 2332 0111455667777788888877765
No 24
>cd00490 Met_repressor_MetJ Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence. MetJ forms sufficiently strong interactions with the sugar-phosphate backbone to accomodate sequence variation in natural operators. However, it is very sensitive to particular base changes in the operator. MetJ exists as a homodimer.
Probab=22.36 E-value=80 Score=24.59 Aligned_cols=31 Identities=23% Similarity=0.268 Sum_probs=24.7
Q ss_pred eCCHHHHHHHHHHhcC-CCCCCHHHHHHHHHH
Q 023649 243 IESENVTFALYDVFFG-GAPVSPSLKASVATG 273 (279)
Q Consensus 243 I~s~~f~~Alf~iwLG-~~pvsp~lK~~l~~~ 273 (279)
-.|+.+|.||+-.|-| +=|-+.+|++.--+.
T Consensus 52 TNSELLCEAFLHAfTGQPLP~D~Dl~K~~~d~ 83 (103)
T cd00490 52 TNSELLCEAFLHAFTGQPLPDDADLRKERSDE 83 (103)
T ss_pred ccHHHHHHHHHHHhcCCCCCChhhhhhcCccc
Confidence 5789999999999999 567788887754433
No 25
>TIGR01440 conserved hypothetical protein TIGR01440. Members of this family are uncharacterized proteins of about 180 amino acids from the Bacillus/Clostridium group of Gram-positive bacteria, found in no more than one copy per genome.
Probab=20.70 E-value=1.6e+02 Score=25.62 Aligned_cols=50 Identities=18% Similarity=0.237 Sum_probs=36.6
Q ss_pred HHHHHHHHHhcCCCCCCCCCEEEEEEeCCCeEEEEEeCCCCCcccceeeCCHHHHHHHHHHhc
Q 023649 195 ESALSTFRSIFQGRNLMKGTFIFLTWLDPSKMLVSISGDGLPSGVDATIESENVTFALYDVFF 257 (279)
Q Consensus 195 ~~~L~~f~~~f~~~~l~kGd~i~l~~~p~~gl~v~~n~~G~p~~~~g~I~s~~f~~Alf~iwL 257 (279)
...+++|.+... +++||.+++-+... .+- | +.+|+-.+.+.++++|+..+
T Consensus 4 ~~~~~El~~~a~---l~~g~i~VvGcSTS-----EV~--G---~~IG~~ss~eva~~i~~~l~ 53 (172)
T TIGR01440 4 TTVLEELKDASN---LKKGDLFVIGCSTS-----EVI--G---GKIGTNSSMEVAETIVNALD 53 (172)
T ss_pred HHHHHHHHHhhC---CCCCCEEEEecchH-----HhC--C---cccCCcChHHHHHHHHHHHH
Confidence 445666665554 99999999977544 232 4 46899999999999997655
No 26
>PF13001 Ecm29: Proteasome stabiliser; InterPro: IPR024372 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). Ecm29 tethers the proteasome core particle to the regulatory particle, stabilising the interaction between these two components [, , ].
Probab=20.04 E-value=1.4e+02 Score=30.01 Aligned_cols=35 Identities=26% Similarity=0.597 Sum_probs=30.3
Q ss_pred eeCCHHHHHHHHHHhcCCC--------CCCHHHHHHHHHHHHh
Q 023649 242 TIESENVTFALYDVFFGGA--------PVSPSLKASVATGLAT 276 (279)
Q Consensus 242 ~I~s~~f~~Alf~iwLG~~--------pvsp~lK~~l~~~l~~ 276 (279)
..+++.+-+-+|.+|+|+. |+++.+|..++.-|.+
T Consensus 267 ~~ed~~~V~~L~~Ly~G~~~~~~~~~~pa~~~lq~kIL~~L~k 309 (501)
T PF13001_consen 267 SLEDPDLVDRLFDLYLGKGIPPENGRPPASPRLQEKILSLLSK 309 (501)
T ss_pred CCCCHHHHHHHHHHHHhcCCchhcCCCCCCHHHHHHHHHHHHH
Confidence 4899999999999999644 8999999999887654
Done!