Query 031333
Match_columns 161
No_of_seqs 110 out of 1038
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 12:37:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031333.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031333hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0259 PdxH Pyridoxamine-phos 100.0 4E-37 8.6E-42 234.1 10.4 144 1-159 60-214 (214)
2 TIGR00558 pdxH pyridoxamine-ph 100.0 1.2E-35 2.5E-40 232.9 13.7 143 1-159 63-217 (217)
3 PRK05679 pyridoxamine 5'-phosp 100.0 1.1E-35 2.5E-40 229.7 13.1 143 1-159 41-195 (195)
4 PLN03049 pyridoxine (pyridoxam 100.0 5E-34 1.1E-38 244.7 16.0 148 1-159 303-462 (462)
5 PLN02918 pyridoxine (pyridoxam 100.0 4.3E-34 9.2E-39 247.3 13.1 148 1-159 385-544 (544)
6 KOG2586 Pyridoxamine-phosphate 100.0 2.7E-32 5.8E-37 207.1 7.6 146 1-159 70-228 (228)
7 COG5135 Uncharacterized conser 100.0 1.8E-29 3.9E-34 191.2 6.2 154 1-159 38-245 (245)
8 KOG4558 Uncharacterized conser 99.9 4.6E-25 1E-29 167.7 11.0 156 1-159 40-251 (251)
9 PF12766 Pyridox_oxase_2: Pyri 99.9 2E-23 4.3E-28 145.3 8.2 61 1-61 35-100 (100)
10 COG3871 Uncharacterized stress 99.3 6.3E-12 1.4E-16 91.8 8.0 106 1-137 31-136 (145)
11 TIGR03618 Rv1155_F420 PPOX cla 99.3 2.4E-11 5.3E-16 85.7 10.6 63 1-64 11-74 (117)
12 TIGR03667 Rv3369 PPOX class pr 99.3 3E-11 6.4E-16 87.7 9.6 80 1-87 28-108 (130)
13 PF10590 PNPOx_C: Pyridoxine 5 99.2 7.3E-11 1.6E-15 69.4 5.2 39 117-159 1-42 (42)
14 PF01243 Pyridox_oxidase: Pyri 99.1 3.1E-10 6.6E-15 75.9 6.4 62 1-63 26-88 (89)
15 TIGR03666 Rv2061_F420 PPOX cla 98.1 3.1E-05 6.6E-10 56.4 9.4 50 14-63 36-86 (132)
16 TIGR03668 Rv0121_F420 PPOX cla 97.5 0.0019 4E-08 47.6 10.2 50 15-64 44-103 (141)
17 PRK06733 hypothetical protein; 97.5 0.00042 9.1E-09 51.6 6.6 48 14-63 47-94 (151)
18 COG5015 Uncharacterized conser 97.4 0.0056 1.2E-07 43.8 11.4 91 14-134 35-125 (132)
19 PRK03467 hypothetical protein; 97.3 0.0026 5.6E-08 47.0 8.9 99 11-142 39-143 (144)
20 PF12900 Pyridox_ox_2: Pyridox 96.7 0.0058 1.2E-07 44.5 6.2 49 14-63 35-96 (143)
21 PF13883 Pyrid_oxidase_2: Pyri 95.2 0.24 5.2E-06 37.4 9.1 93 14-132 50-156 (170)
22 COG3467 Predicted flavin-nucle 94.2 0.89 1.9E-05 34.3 10.0 65 14-81 46-122 (166)
23 TIGR00026 hi_GC_TIGR00026 deaz 91.9 1.6 3.4E-05 30.8 7.8 60 3-69 22-86 (113)
24 COG3787 Uncharacterized protei 71.6 13 0.00028 27.2 5.1 99 11-142 34-138 (145)
25 PF03088 Str_synth: Strictosid 54.6 63 0.0014 21.7 5.9 41 15-55 8-55 (89)
26 KOG3374 Cellular repressor of 46.0 1.4E+02 0.003 23.1 7.2 50 15-64 89-152 (210)
27 PF04075 DUF385: Domain of unk 33.7 53 0.0012 23.6 3.1 54 3-63 40-98 (132)
28 TIGR02266 gmx_TIGR02266 Myxoco 28.2 1.7E+02 0.0037 18.9 5.9 44 14-63 25-68 (96)
29 TIGR02742 TrbC_Ftype type-F co 25.9 12 0.00025 27.2 -1.5 50 5-63 27-80 (130)
30 COG3576 Predicted flavin-nucle 25.2 1.6E+02 0.0035 22.3 4.5 48 16-63 69-119 (173)
31 cd03585 NTR_TIMP NTR domain, T 22.8 1.7E+02 0.0036 22.6 4.2 44 38-89 70-119 (183)
32 PF06718 DUF1203: Protein of u 22.5 81 0.0017 22.4 2.3 37 2-40 59-100 (117)
No 1
>COG0259 PdxH Pyridoxamine-phosphate oxidase [Coenzyme metabolism]
Probab=100.00 E-value=4e-37 Score=234.12 Aligned_cols=144 Identities=15% Similarity=0.208 Sum_probs=124.3
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGC 80 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~ 80 (161)
|++|+|+||+|+ +.+++|||++.|+|++||++||+|++||||+.+.|||||.|.|+.|++++++.|| .+.
T Consensus 60 P~~R~VLLK~~D--erGfvFyTN~~S~Kg~eLa~np~Aal~F~W~~L~RQVrv~G~ve~vs~eesd~Yf--------~sR 129 (214)
T COG0259 60 PSSRIVLLKELD--ERGFVFYTNYGSRKGRELAANPYAALLFPWKELERQVRVEGRVERVSDEESDAYF--------ASR 129 (214)
T ss_pred ceeeEEEecccC--CCcEEEEeccCCcchhhHhhCcceeEEecchhccceEEEeeeeeeCCHHHHHHHH--------hcC
Confidence 689999999995 8999999999999999999999999999999999999999999999999886655 677
Q ss_pred ChhhhhccccCCCCCcCCCCCC--C------cccCCCCCCCCCcEEEEEEeeeEEEeEecC---CCcEEEEEEccCCCCC
Q 031333 81 SMKARLQYLDPEQGCPSVNEQP--K------EFSLDPCAGPVDAFCVLILDPDQVDYLNLK---SNQKLKFMSRLSDNGE 149 (161)
Q Consensus 81 ~~~~r~~~~~~~pg~~~~~~~~--~------~~~~~~~~~~~~~f~v~~l~p~~ve~l~l~---~h~R~~f~~~~~~~~~ 149 (161)
|..+|..--++.++.||.+..+ + ....+.+.|.|++|+||+|.|.+||||+++ .|+|++|.++.
T Consensus 130 Pr~S~iGAWAS~QS~~i~~r~~Le~~~ae~~~kf~~~~iP~P~~WgG~ri~p~~iEFWqgr~~RLHdR~~y~r~~----- 204 (214)
T COG0259 130 PRGSQIGAWASKQSRPIASRAALEAKVAELTAKFADGEIPRPPHWGGFRIVPESIEFWQGRPSRLHDRLRYRRDD----- 204 (214)
T ss_pred CCcCccchhhccCccccCCHHHHHHHHHHHHHhcCCCCCCCCCCccceEeeeeEEEEecCCCccceeeEEEeecC-----
Confidence 7777766545689999987443 1 112344568899999999999999999998 49999999973
Q ss_pred CCceEEEccc
Q 031333 150 KYWASLKTSP 159 (161)
Q Consensus 150 ~~W~~~~l~P 159 (161)
++|...+|+|
T Consensus 205 g~W~~~RL~P 214 (214)
T COG0259 205 GGWKIERLAP 214 (214)
T ss_pred CCeEEEecCC
Confidence 6899999998
No 2
>TIGR00558 pdxH pyridoxamine-phosphate oxidase. This model is similar to Pyridox_oxidase from PFAM but is designed to find only true pyridoxamine-phosphate oxidase and to ignore the related protein PhzG involved in phenazine biosynthesis. This protein from E. coli was characterized as a homodimer with two FMN per dimer.
Probab=100.00 E-value=1.2e-35 Score=232.93 Aligned_cols=143 Identities=11% Similarity=0.195 Sum_probs=121.5
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGC 80 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~ 80 (161)
|++|||+||+++ +++|+||||.+|+|+.||++||+|+|||||+.+++||||+|+|.+++++ ...++|.++
T Consensus 63 P~~R~v~lr~~~--~~~l~F~T~~~S~K~~eL~~np~v~l~f~~~~~~~qvrv~G~a~~~~~~--------~~~~~w~~~ 132 (217)
T TIGR00558 63 PSSRMVLLKELD--ERGFVFYTNYGSRKGHQIETNPNAALVFFWPDLERQVRVEGKVEKLPRE--------ESDAYFKSR 132 (217)
T ss_pred EEEEEEEEEEEC--CCcEEEEECCCChHHHHHHhCCcEEEEEEeCCCCEEEEEEEEEEECCHH--------HHHHHHHhC
Confidence 579999999996 4579999999999999999999999999999999999999999998765 446888999
Q ss_pred ChhhhhccccC-CCCCcCCCCCC--C---c---ccCCCCCCCCCcEEEEEEeeeEEEeEecC---CCcEEEEEEccCCCC
Q 031333 81 SMKARLQYLDP-EQGCPSVNEQP--K---E---FSLDPCAGPVDAFCVLILDPDQVDYLNLK---SNQKLKFMSRLSDNG 148 (161)
Q Consensus 81 ~~~~r~~~~~~-~pg~~~~~~~~--~---~---~~~~~~~~~~~~f~v~~l~p~~ve~l~l~---~h~R~~f~~~~~~~~ 148 (161)
+..+|++ .++ +||+|+.+... . . ...+...++|+|||||+|.|.+||||+|+ +|+|++|.+..
T Consensus 133 ~~~sr~~-~~~~~q~~~~~~~~~l~~~~~~~~~~~~~~~~p~p~~f~~~~l~p~~vEf~~l~~~r~H~R~~y~~~~---- 207 (217)
T TIGR00558 133 PRGSRIG-AWASRQSDVISNREELESKALKNTEKFEDAEIPRPDYWGGYRVVPEEIEFWQGRPSRLHDRFVYRREN---- 207 (217)
T ss_pred Chhhcce-EEcCCCCcccCCHHHHHHHHHHHHhhccCCCCCCCCceEEEEEECCEEEEccCCCCCCceEEEEEecC----
Confidence 9888887 554 99999875432 1 0 11123467899999999999999999997 49999999853
Q ss_pred CCCceEEEccc
Q 031333 149 EKYWASLKTSP 159 (161)
Q Consensus 149 ~~~W~~~~l~P 159 (161)
++|+.+||+|
T Consensus 208 -~~W~~~~l~P 217 (217)
T TIGR00558 208 -DPWKRVRLAP 217 (217)
T ss_pred -CCEEEEEeCC
Confidence 5799999998
No 3
>PRK05679 pyridoxamine 5'-phosphate oxidase; Provisional
Probab=100.00 E-value=1.1e-35 Score=229.70 Aligned_cols=143 Identities=13% Similarity=0.183 Sum_probs=122.6
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGC 80 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~ 80 (161)
|++|||+||+++ +++|+|+||.+|+|+.||++||+|+|||||+.+.+||||+|.|++++++ ...++|.++
T Consensus 41 P~~R~V~lr~~~--~~~l~f~T~~~S~K~~~l~~np~val~~~~~~~~~qvrv~G~a~~~~~~--------~~~~~w~~~ 110 (195)
T PRK05679 41 PSQRIVLLKGFD--ERGFVFYTNYESRKGRQLAANPKAALLFPWKSLERQVRVEGRVEKVSAE--------ESDAYFASR 110 (195)
T ss_pred EEEEEEEEEEEC--CCeEEEEeCCCCHHHHHHhhCCcEEEEEecCCCCEEEEEEEEEEEeCHH--------HHHHHHHhC
Confidence 689999999996 4679999999999999999999999999999999999999999998875 447889999
Q ss_pred Chhhhhcccc-CCCCCcCCCCCCC-----cc---cCCCCCCCCCcEEEEEEeeeEEEeEecC---CCcEEEEEEccCCCC
Q 031333 81 SMKARLQYLD-PEQGCPSVNEQPK-----EF---SLDPCAGPVDAFCVLILDPDQVDYLNLK---SNQKLKFMSRLSDNG 148 (161)
Q Consensus 81 ~~~~r~~~~~-~~pg~~~~~~~~~-----~~---~~~~~~~~~~~f~v~~l~p~~ve~l~l~---~h~R~~f~~~~~~~~ 148 (161)
+..+|.+ .+ ++||+++++.... .. ..+...++|++||||+|.|++||||+|+ +|+|++|.+..
T Consensus 111 p~~~r~~-~~~~~qg~~i~~~~~~~~~~~~~~~~~~~~~~~~p~~f~~~~l~p~~veflql~~~r~H~R~~y~~~~---- 185 (195)
T PRK05679 111 PRGSQIG-AWASKQSRPISSRAALEAKFAEVKAKFAQGEVPRPPHWGGYRVVPESIEFWQGRPSRLHDRILYRRDD---- 185 (195)
T ss_pred CHhhhce-eeeCCCCCccCCHHHHHHHHHHHHhhccCCCCCCCCccEEEEEECCEEEEcCCCCCCCcceEEEEECC----
Confidence 9999987 55 4899999764321 00 1123457899999999999999999997 49999999853
Q ss_pred CCCceEEEccc
Q 031333 149 EKYWASLKTSP 159 (161)
Q Consensus 149 ~~~W~~~~l~P 159 (161)
++|+.++|+|
T Consensus 186 -~~W~~~~l~P 195 (195)
T PRK05679 186 -GGWKIERLAP 195 (195)
T ss_pred -CCEEEEEeCC
Confidence 5799999998
No 4
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=100.00 E-value=5e-34 Score=244.65 Aligned_cols=148 Identities=16% Similarity=0.280 Sum_probs=121.0
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGC 80 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~ 80 (161)
|++|||+||+++ +++++||||.+|+|+.||++||+|+||||||.+++||||+|.|++++++ +..++|+++
T Consensus 303 P~~R~VlLk~~d--~~g~~F~Tn~~S~K~~eL~~Np~aal~F~w~~~~rQvRv~G~a~~~~~~--------~s~~yf~~r 372 (462)
T PLN03049 303 PSARIVLLKGVD--KRGFVWYTNYDSRKAHELSANPKASLVFYWDGLHRQVRVEGSVEKVSEE--------ESDQYFHSR 372 (462)
T ss_pred eeEEEEEEeEEc--CCcEEEEECCCCHHHHHHhhCCcEEEEeecCCCCEEEEEEEEEEECCHH--------HHHHHHHhC
Confidence 689999999996 5589999999999999999999999999999999999999999999955 446778999
Q ss_pred ChhhhhccccCCCCCcCCCCCC-----Ccc---cCC-CCCCCCCcEEEEEEeeeEEEeEecC---CCcEEEEEEccCCCC
Q 031333 81 SMKARLQYLDPEQGCPSVNEQP-----KEF---SLD-PCAGPVDAFCVLILDPDQVDYLNLK---SNQKLKFMSRLSDNG 148 (161)
Q Consensus 81 ~~~~r~~~~~~~pg~~~~~~~~-----~~~---~~~-~~~~~~~~f~v~~l~p~~ve~l~l~---~h~R~~f~~~~~~~~ 148 (161)
+..+|....+..++.++++... ... ..+ ...++|+||+||+|.|.+||||+++ .|+|++|.++..+ +
T Consensus 373 p~~sq~~a~as~qs~~i~~~~~l~~~~~~~~~~~~~~~~~p~p~~w~g~~v~p~~iEfwq~~~~rlHdR~~y~~~~~~-~ 451 (462)
T PLN03049 373 PRGSQIGALVSKQSTVIPGRHILDQSYKELEAKYADSSAIPKPKHWGGYRLKPELIEFWQGRESRLHDRLQYTREEIN-G 451 (462)
T ss_pred ChhhhhhheeCCCCCcCCCHHHHHHHHHHHHHhhccCCCCCCCCceEEEEEEeeEEEEccCCCCCCeeEEEEEecCCC-C
Confidence 9999985544556777664221 111 112 3468999999999999999999997 5999999985211 1
Q ss_pred CCCceEEEccc
Q 031333 149 EKYWASLKTSP 159 (161)
Q Consensus 149 ~~~W~~~~l~P 159 (161)
+++|+.++|+|
T Consensus 452 ~~~W~~~rl~P 462 (462)
T PLN03049 452 KSVWKIDRLAP 462 (462)
T ss_pred CCCEEEEEeCC
Confidence 34699999998
No 5
>PLN02918 pyridoxine (pyridoxamine) 5'-phosphate oxidase
Probab=100.00 E-value=4.3e-34 Score=247.31 Aligned_cols=148 Identities=16% Similarity=0.264 Sum_probs=125.6
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGC 80 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~ 80 (161)
|++||||||+|+ +++++||||.+|+|+.||++||+|+|||||+++++||||+|.|++++++++ .++|.++
T Consensus 385 P~~RtVlLk~~d--~~g~~F~Tn~~S~K~~el~~Np~aal~F~w~~l~rQVRi~G~v~~~~~~es--------~~yf~sR 454 (544)
T PLN02918 385 PSSRMVLLKGVD--KNGFVWYTNYESQKGSDLSENPSAALLFYWEELNRQVRVEGSVQKVPESES--------ENYFHSR 454 (544)
T ss_pred eeeEEEEEeEEc--CCceEEEECCCChhHHHHHhCCcEEEEeeeccccEEEEEEEEEEECCHHHH--------HHHHHhC
Confidence 689999999996 588999999999999999999999999999999999999999999998766 4566889
Q ss_pred ChhhhhccccCCCCCcCCCCCC-----Ccc---cCCCC-CCCCCcEEEEEEeeeEEEeEecC---CCcEEEEEEccCCCC
Q 031333 81 SMKARLQYLDPEQGCPSVNEQP-----KEF---SLDPC-AGPVDAFCVLILDPDQVDYLNLK---SNQKLKFMSRLSDNG 148 (161)
Q Consensus 81 ~~~~r~~~~~~~pg~~~~~~~~-----~~~---~~~~~-~~~~~~f~v~~l~p~~ve~l~l~---~h~R~~f~~~~~~~~ 148 (161)
+..+|....++.++++|++... .++ ..+.. .+.|++|+||+|.|.+|||||++ .|+|++|.+...+ +
T Consensus 455 p~~Sqi~A~aS~QS~~i~~r~~L~~~~~~~~~~~~~~~~vp~P~~WgGy~v~P~~iEFWQgr~~RLHdR~~Y~r~~~~-~ 533 (544)
T PLN02918 455 PRGSQIGAIVSKQSSVVPGRHVLYQEYKELEKKYSDGSVIPKPKNWGGYRLKPNLFEFWQGQQSRLHDRLQYSLQEVN-G 533 (544)
T ss_pred CccccceEEecCCCCcCCCHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEecCEEEECCCCCCCccceEEEEecCCC-C
Confidence 9999988877899999986432 111 12333 68999999999999999999997 5999999985311 1
Q ss_pred CCCceEEEccc
Q 031333 149 EKYWASLKTSP 159 (161)
Q Consensus 149 ~~~W~~~~l~P 159 (161)
+++|+.++|+|
T Consensus 534 ~~~W~~~rL~P 544 (544)
T PLN02918 534 KPVWKIHRLAP 544 (544)
T ss_pred CCCeEEEEeCC
Confidence 24699999998
No 6
>KOG2586 consensus Pyridoxamine-phosphate oxidase [Coenzyme transport and metabolism]
Probab=99.97 E-value=2.7e-32 Score=207.06 Aligned_cols=146 Identities=14% Similarity=0.258 Sum_probs=124.4
Q ss_pred CcceEEEEcceecCCCcEEEEeCC-CChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhc
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDT-RSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFG 79 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~-rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~ 79 (161)
+++|+|+|||++ .++++|||+. -|+|+++|++||.|+|+||||..++||||+|.|+.++.+++ +++|.+
T Consensus 70 vssRmvLlKgl~--~~gf~fytn~~~srk~kdL~~NP~Aal~Fyw~~l~rQVRveG~ve~l~~ee~--------e~yf~s 139 (228)
T KOG2586|consen 70 VSSRMVLLKGLD--HDGFVFYTNYGTSRKGKDLQENPNAALLFYWEDLNRQVRVEGIVEKLPREEA--------EAYFKS 139 (228)
T ss_pred cceeeeeeeccc--CCCeEEEeeccccccccccccCCcceEEEeehhccceeEEEeccccCCHHHH--------HHHHhc
Confidence 578999999995 7889999999 69999999999999999999999999999999999998754 677788
Q ss_pred CChhhhhccccCCCCCcCCCCCC--C--c----ccC-CCCCCCCCcEEEEEEeeeEEEeEecC---CCcEEEEEEccCCC
Q 031333 80 CSMKARLQYLDPEQGCPSVNEQP--K--E----FSL-DPCAGPVDAFCVLILDPDQVDYLNLK---SNQKLKFMSRLSDN 147 (161)
Q Consensus 80 ~~~~~r~~~~~~~pg~~~~~~~~--~--~----~~~-~~~~~~~~~f~v~~l~p~~ve~l~l~---~h~R~~f~~~~~~~ 147 (161)
.+.+++.---..++|.+|++.+- + + ... ++..+.|++|++++|.|.++||||++ .|+|+.|++...
T Consensus 140 rp~~SqIga~~s~qs~vI~~re~l~k~~e~l~~~~~~~~~IpkP~swgg~rl~P~~~EFwQg~~~rLhDR~~yr~~~~-- 217 (228)
T KOG2586|consen 140 RPRASQIGAWASPQSEVIPDREELEKKDEELTELFGDEQSIPKPDSWGGYRLVPQEFEFWQGQPDRLHDRIVYRRLTV-- 217 (228)
T ss_pred CcchhhccceecCCCCccCCHHHHHHHHHHHHHHhcccccccCCCcccceEEeeeeehhhcCCchhhhheEEEecccC--
Confidence 88888877656789999986432 1 1 112 24578999999999999999999998 499999996542
Q ss_pred CCCCceEEEccc
Q 031333 148 GEKYWASLKTSP 159 (161)
Q Consensus 148 ~~~~W~~~~l~P 159 (161)
++.|+..+|+|
T Consensus 218 -d~~Wk~~rlap 228 (228)
T KOG2586|consen 218 -DEDWKLVRLAP 228 (228)
T ss_pred -CCCeeEEecCC
Confidence 46999999998
No 7
>COG5135 Uncharacterized conserved protein [Function unknown]
Probab=99.96 E-value=1.8e-29 Score=191.16 Aligned_cols=154 Identities=29% Similarity=0.498 Sum_probs=119.4
Q ss_pred CcceEEEEccee-cC--CCcEEEEeCCCChhhHHhhhCC-----------ceEEEEeecCCCeEEEEEEEEEEecCCCCc
Q 031333 1 MRVICWVFRGFQ-DN--TDKIQINSDTRSRKIEELKSCP-----------FSEICWYFTESWDQFRINGRVDVIDGSNSD 66 (161)
Q Consensus 1 ~~~RtVvlR~~~-~~--~~~l~f~Td~rS~K~~el~~np-----------~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~ 66 (161)
|++||||||||. .| ++.|+|.||+||.|+.||...| .+++|||+|++++||||+|....++.+.++
T Consensus 38 PrnRTVvfRgFl~~D~~tn~L~F~TD~rS~Ki~ei~~qp~~~~~s~~~~~~fEaC~yfP~T~eQ~RisGQ~~l~s~~~~~ 117 (245)
T COG5135 38 PRNRTVVFRGFLFHDKRTNVLTFNTDMRSSKITEIFIQPNSNNSSDSKTPFFEACFYFPETWEQYRISGQCFLISKQFKY 117 (245)
T ss_pred CccceEEEeeeeecccccceEEEecchhhhhhhHHhhccccCCCCCCCccHHHHHhcccchhhheEeeeeEEEEchhhcC
Confidence 689999999997 34 4679999999999999999877 899999999999999999999999877553
Q ss_pred ------------------------HHHHHHHHHhHhcCChhhhhccccCCC--------------CCcCCCCCCCcccCC
Q 031333 67 ------------------------PEKLQIREKSWFGCSMKARLQYLDPEQ--------------GCPSVNEQPKEFSLD 108 (161)
Q Consensus 67 ------------------------~~~~~~~~~~W~~~~~~~r~~~~~~~p--------------g~~~~~~~~~~~~~~ 108 (161)
..|+..+..+|+--+.+.++.|..|++ |+-+..+.++.+ +
T Consensus 118 ~~~~Pa~~~t~d~l~~~~~r~p~~w~~~~~~r~i~~~~~~Ed~a~f~ppP~~s~~q~~~~~~P~P~~~~~~e~~~~l--~ 195 (245)
T COG5135 118 DIFSPAFSETNDDLTDEEIRTPINWDDDDDKRNIENDEHHEDEADFYPPPQLSRHQKSLYRKPAPGQKLTSETSKQL--D 195 (245)
T ss_pred cccCchhhhhhhhhccccccCcccCCCchhccccccccCccchhhcCCCCCCCcccccccccCCCcccccccChhhH--H
Confidence 134556677888777777777765432 111111111000 1
Q ss_pred CCCCCCCcEEEEEEeeeEEEeEecC--CCcEEEEEEccCCCCCCCceEEEccc
Q 031333 109 PCAGPVDAFCVLILDPDQVDYLNLK--SNQKLKFMSRLSDNGEKYWASLKTSP 159 (161)
Q Consensus 109 ~~~~~~~~f~v~~l~p~~ve~l~l~--~h~R~~f~~~~~~~~~~~W~~~~l~P 159 (161)
.-..+.+|||+++|.+++||||.|+ +..|.+|.|+.+ .+.|.+++++|
T Consensus 196 ~~~~~~~~F~lv~le~~~VdfLnL~g~pg~R~l~~rd~n---~~~W~~q~Vnp 245 (245)
T COG5135 196 KLHAGLENFGLVCLEVDSVDFLNLKGRPGERWLFQRDDN---KDLWEEQEVNP 245 (245)
T ss_pred HHHhhhcceeEEEeecCceeeeeecCCCCceeeEeccCC---cchhhccccCC
Confidence 1124789999999999999999998 589999999764 37899999987
No 8
>KOG4558 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.92 E-value=4.6e-25 Score=167.72 Aligned_cols=156 Identities=27% Similarity=0.384 Sum_probs=110.5
Q ss_pred CcceEEEEcceecCC---CcEEEEeCCCChhhHHhhh--------------CCc-eEEEEeecCCCeEEEEEEEEEEecC
Q 031333 1 MRVICWVFRGFQDNT---DKIQINSDTRSRKIEELKS--------------CPF-SEICWYFTESWDQFRINGRVDVIDG 62 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~---~~l~f~Td~rS~K~~el~~--------------np~-~~l~f~~~~~~~QvRi~G~~~~~~~ 62 (161)
|++||||||||.-.+ +.+.|.||.||.|+.+.-. .|- .++|||||+|.+||||+|....++-
T Consensus 40 PrnRTVvfRgF~~h~~R~~~v~~ntdlrssk~~~sf~~~~~a~~~~~~~~~~P~~femC~yfp~TweQ~RisGqi~~it~ 119 (251)
T KOG4558|consen 40 PRNRTVVFRGFVWHKPRPDDVLANTDLRSSKDIASFKAAEIAEQQKNTFPSGPIPFEMCGYFPKTWEQIRISGQIWLITP 119 (251)
T ss_pred cccceEEEecceecCCCCcceeeeccchhhhhhhhhhchhhhccccccccCCCcccceeeeechhhhheEecceEEEEcc
Confidence 789999999997543 4599999999999987642 244 8999999999999999999999953
Q ss_pred CCCc------------------------HHHHHH-------------HHHhHhcCChhhhhccccCCCCCcCCCCCCCcc
Q 031333 63 SNSD------------------------PEKLQI-------------REKSWFGCSMKARLQYLDPEQGCPSVNEQPKEF 105 (161)
Q Consensus 63 ~~~~------------------------~~~~~~-------------~~~~W~~~~~~~r~~~~~~~pg~~~~~~~~~~~ 105 (161)
+.++ ..|+.+ .-+.|.++|......|..|.||+-+..+....
T Consensus 120 ~~~d~~~~dAdn~dq~~l~~s~~~I~~d~~~e~e~~~~~~~~~~~~~~~~~~~s~sk~~~~~~~~P~pg~~~~~e~~~~- 198 (251)
T KOG4558|consen 120 ELADRNEFDADNLDQDHLINSNGRIPEDWSWEEERRIWELHSPELRASFSTPPSYSKYQGDVKVSPLPGTLTGKEDPGV- 198 (251)
T ss_pred cccccccCCccccchHHHhhhhccccccccchhhhcccccCCHHHHHhhcCCcchhhccCceeecCCCCccccccCccc-
Confidence 3221 123333 33445555555555555566666554333210
Q ss_pred cCCCCCCCCCcEEEEEEeeeEEEeEecCC-CcEEEEEEccCCCCCCCceEEEccc
Q 031333 106 SLDPCAGPVDAFCVLILDPDQVDYLNLKS-NQKLKFMSRLSDNGEKYWASLKTSP 159 (161)
Q Consensus 106 ~~~~~~~~~~~f~v~~l~p~~ve~l~l~~-h~R~~f~~~~~~~~~~~W~~~~l~P 159 (161)
......+.++|++++|.+++||||.|+. ..|.++.. ..|.+++.|.+++++|
T Consensus 199 -~~~~~~~~~~f~lv~le~~~VdfLNLk~~~gr~~~~~-~~g~~ek~W~s~~Vnp 251 (251)
T KOG4558|consen 199 -IEAWKTAWGRFSLVVLEANEVDFLNLKPPPGRKRVLH-NRGLNEKQWSSTRVNP 251 (251)
T ss_pred -hhhhhccccceeEEEEeccccceeeccCCCcceEEEe-ccCCCcccccccccCC
Confidence 0112357899999999999999999994 34565554 3445688999999998
No 9
>PF12766 Pyridox_oxase_2: Pyridoxamine 5'-phosphate oxidase; InterPro: IPR024624 Pyridoxamine 5'-phosphate oxidase catalyses the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP), the terminal step in the de novo biosynthesis of PLP in Escherichia coli and part of the salvage pathway of this coenzyme in both E. coli and mammalian cells. This entry represents the FMN-binding domain of pyridoxamine 5'-phosphate oxidases that belong to the Alr4036 family.; GO: 0010181 FMN binding; PDB: 2I51_B 2OU5_B.
Probab=99.89 E-value=2e-23 Score=145.34 Aligned_cols=61 Identities=38% Similarity=0.698 Sum_probs=55.3
Q ss_pred CcceEEEEcceecC----CCcEEEEeCCCChhhHHhh-hCCceEEEEeecCCCeEEEEEEEEEEec
Q 031333 1 MRVICWVFRGFQDN----TDKIQINSDTRSRKIEELK-SCPFSEICWYFTESWDQFRINGRVDVID 61 (161)
Q Consensus 1 ~~~RtVvlR~~~~~----~~~l~f~Td~rS~K~~el~-~np~~~l~f~~~~~~~QvRi~G~~~~~~ 61 (161)
|++||||||||.++ ++.|.|+||.||+|+.||. +||.+++|||+++++.||||+|++.+|.
T Consensus 35 P~~RTvVlRgf~~~~~~~~~~L~f~TD~RS~Kv~~l~~~~p~~e~~~~~~~~~~Q~Ri~G~a~ii~ 100 (100)
T PF12766_consen 35 PRVRTVVLRGFDPDLKPESDLLTFHTDARSPKVAQLASANPRVELVFWFPETREQFRIRGRASIIG 100 (100)
T ss_dssp EEEEEEEEEEEETT----TTEEEEEEETTSHHHHHHH-H--EEEEEEEECCCTEEEEEEEEEEEE-
T ss_pred CceeEEEEcCcccccccccCeEEEEecCCchhHHHHhccCCCEEEEEEeCCccEEEEEEEEEEEEC
Confidence 68999999999976 5789999999999999999 9999999999999999999999999984
No 10
>COG3871 Uncharacterized stress protein (general stress protein 26) [General function prediction only]
Probab=99.33 E-value=6.3e-12 Score=91.82 Aligned_cols=106 Identities=18% Similarity=0.271 Sum_probs=87.4
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGC 80 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~ 80 (161)
|++|.+.|.+=.+ .+.|+|+|...|+|+.+|+.||+|.++|-.+...--+-|.|+++++.+. +....+|..
T Consensus 31 phsRpM~f~hdg~-~~tiwf~T~kds~~v~eik~n~~v~v~~~~~~~~~fv~v~Gtael~~dr-------a~~d~~W~~- 101 (145)
T COG3871 31 PHSRPMTFNHDGP-KGTIWFFTNKDSRKVEEIKKNPKVCVLFGYDDHDAFVEVSGTAELVEDR-------AKIDELWTS- 101 (145)
T ss_pred ccccceeccCCCC-cccEEeeccCchHHHHHHhhCCcEEEEEecCCCcceEEEEEEEEeeccH-------HHHHHhhhh-
Confidence 6788898776643 3889999999999999999999999999999999999999999999998 677888986
Q ss_pred ChhhhhccccCCCCCcCCCCCCCcccCCCCCCCCCcEEEEEEeeeEEEeEecCCCcE
Q 031333 81 SMKARLQYLDPEQGCPSVNEQPKEFSLDPCAGPVDAFCVLILDPDQVDYLNLKSNQK 137 (161)
Q Consensus 81 ~~~~r~~~~~~~pg~~~~~~~~~~~~~~~~~~~~~~f~v~~l~p~~ve~l~l~~h~R 137 (161)
.....| ++|. ..+++|+|+|.|+.+++|+-++..+
T Consensus 102 --~~~~wF---e~Gk-----------------edP~l~~Lkv~~e~i~yw~~~~~~~ 136 (145)
T COG3871 102 --VLEAWF---EQGK-----------------EDPDLTMLKVTAEDIDYWNSGDNDT 136 (145)
T ss_pred --hHHHHH---hcCC-----------------CCCCeEEEEEchhHhHHHhccCCCC
Confidence 444555 1111 2368999999999999999865433
No 11
>TIGR03618 Rv1155_F420 PPOX class probable F420-dependent enzyme. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomyces, make F420. The Partial Phylogenetic Profiling algorithm identifies this members of this protein family as high-scoring proteins to the F420 biosynthesis profile. A member of this family, Rv1155, was crytallized after expression in Escherichia coli, which does not synthesize F420; the crystal structure shown to resemble FMN-binding proteins, but with a recognizable empty cleft corresponding to, yet differing profounding from, the FMN site of pyridoxine 5'-phosphate oxidase. We propose that this protein family consists of F420-binding enzymes.
Probab=99.32 E-value=2.4e-11 Score=85.68 Aligned_cols=63 Identities=10% Similarity=0.160 Sum_probs=53.0
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCC-eEEEEEEEEEEecCCC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESW-DQFRINGRVDVIDGSN 64 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~-~QvRi~G~~~~~~~~~ 64 (161)
|+++.|.+. ++.+++.|+|+|+..|.|+.+|++||+|+++|+++... ++++|.|+++++.++.
T Consensus 11 P~~~pv~~~-~~~~~~~l~f~t~~~s~k~~~l~~np~v~l~~~~~~~~~~~v~i~G~a~~v~d~~ 74 (117)
T TIGR03618 11 PQLSPVWFG-VDPDGDILVVSTTAGRAKARNLRRDPRVSLSVLDPDFPYRYVEVEGTAELVEDPD 74 (117)
T ss_pred EEEEEEEEE-EcCCCCEEEEEecCCcHhhHhhhhCCeEEEEEECCCCCccEEEEEEEEEEecCCc
Confidence 455666553 32246679999999999999999999999999999877 8999999999999764
No 12
>TIGR03667 Rv3369 PPOX class probable F420-dependent enzyme, Rv3369 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN.
Probab=99.29 E-value=3e-11 Score=87.69 Aligned_cols=80 Identities=11% Similarity=0.064 Sum_probs=64.6
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCC-eEEEEEEEEEEecCCCCcHHHHHHHHHhHhc
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTESW-DQFRINGRVDVIDGSNSDPEKLQIREKSWFG 79 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~-~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~ 79 (161)
|++|.|.+ .++ ++.|+|+|+.+|.|+.+|++||+|+++|+++... .|++|.|+|+++.+.... ....++|++
T Consensus 28 P~~~P~~~-~~~--d~~l~~~t~~~s~K~~~l~~np~Vsl~~~~~~~~~~~v~v~G~a~i~~d~~~~----~~~~~~~~~ 100 (130)
T TIGR03667 28 PQPVPVWF-LWD--GTEFLIYSRPQAAKLRNIRRNPRVSLHLNSDGRGGDVVVFTGTAEVVADAPPA----REIPAYLAK 100 (130)
T ss_pred eEEEEEEE-EEE--CCEEEEEeCCcCHHHHHHhhCCcEEEEEEcCCCCceEEEEEEEEEEeCCchhH----HHHHHHHHH
Confidence 57888888 453 6789999999999999999999999999996654 899999999999887432 234677887
Q ss_pred CChhhhhc
Q 031333 80 CSMKARLQ 87 (161)
Q Consensus 80 ~~~~~r~~ 87 (161)
.++..+..
T Consensus 101 y~~~~~~~ 108 (130)
T TIGR03667 101 YREDAARI 108 (130)
T ss_pred hhHHHhcC
Confidence 76665544
No 13
>PF10590 PNPOx_C: Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; InterPro: IPR019576 Pyridoxamine 5'-phosphate oxidase (1.4.3.5 from EC) is an enzyme that is involved in the de novo synthesis of pyridoxine (vitamin B6) and pyridoxal phosphate. It oxidizes pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P. The enzyme requires the presence of flavin mononucleotide (FMN) as a cofactor, although there is some evidence that coenzyme F420 may perform this role in some species []. The sequences of the enzyme from bacterial (genes pdxH or fprA) [] and fungal (gene PDX3) [] sources show that this protein has been highly conserved throughout evolution. PdxH is evolutionary related [] to one of the enzymes in the phenazine biosynthesis protein pathway, phzD (also known as phzG). This entry represents one of the two dimerisation regions of the protein, located at the edge of the dimer interface, at the C terminus, being the last three beta strands, S6, S7, and S8 along with the last three residues to the end. In P21159 from SWISSPROT, S6 runs from residues 178-192, S7 from 200-206 and S8 from 211-215. the extended loop, of residues 167-177 may well be involved in the pocket formed between the two dimers that positions the FMN molecule []. ; GO: 0016638 oxidoreductase activity, acting on the CH-NH2 group of donors, 0055114 oxidation-reduction process; PDB: 1WV4_B 1DNL_A 1G76_A 1G79_A 1G77_A 1JNW_A 1G78_A 1TY9_A 1CI0_A 1NRG_A ....
Probab=99.16 E-value=7.3e-11 Score=69.39 Aligned_cols=39 Identities=10% Similarity=0.380 Sum_probs=34.4
Q ss_pred EEEEEEeeeEEEeEecC---CCcEEEEEEccCCCCCCCceEEEccc
Q 031333 117 FCVLILDPDQVDYLNLK---SNQKLKFMSRLSDNGEKYWASLKTSP 159 (161)
Q Consensus 117 f~v~~l~p~~ve~l~l~---~h~R~~f~~~~~~~~~~~W~~~~l~P 159 (161)
|++|+|.|.+||||+.+ .|+|++|+++++ ++|+.++|+|
T Consensus 1 WgGy~l~P~~iEFWqg~~~RlHdR~~y~r~~~----~~W~~~rL~P 42 (42)
T PF10590_consen 1 WGGYRLVPEEIEFWQGRPDRLHDRIRYTRDED----GGWTKERLQP 42 (42)
T ss_dssp EEEEEEEECEEEEEEEETTSEEEEEEEEEETT----TCEEEEEE-T
T ss_pred CCeEEEEcCEEEEeCCCCCCCEEEEEEEecCC----CCEEEEEEcC
Confidence 78999999999999997 499999999753 5799999998
No 14
>PF01243 Pyridox_oxidase: Pyridoxamine 5'-phosphate oxidase; InterPro: IPR011576 Pyridoxamine 5'-phosphate oxidase (PNPOx; 1.4.3.5 from EC) is a FMN flavoprotein that catalyses the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP). This reaction serves as the terminal step in the de novo biosynthesis of PLP in Escherichia coli and as a part of the salvage pathway of this coenzyme in both E. coli and mammalian cells [, ]. The binding sites for FMN and for substrate have been highly conserved throughout evolution. This entry represents the FMN-binding domain present in pyridoxamine 5'-phosphate oxidases, as well as in a number of proteins that have not been demonstrated to have enzymatic activity. The FMN-binding domain has a structure consisting of a beta-barrel with Greek key topology, and is related to the ferredoxin reductase-like FAD-binding domain. PNPOx has a different dimerisation mode than that found in flavin reductases, which also carry an FMN-binding domain with a similar topology. ; GO: 0004733 pyridoxamine-phosphate oxidase activity, 0010181 FMN binding, 0055114 oxidation-reduction process; PDB: 2IG6_A 1CI0_A 2HQ7_B 2HTD_B 3EC6_A 1WV4_B 1DNL_A 1G76_A 1G79_A 1G77_A ....
Probab=99.09 E-value=3.1e-10 Score=75.92 Aligned_cols=62 Identities=16% Similarity=0.244 Sum_probs=54.0
Q ss_pred CcceEEEEcceecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecC-CCeEEEEEEEEEEecCC
Q 031333 1 MRVICWVFRGFQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTE-SWDQFRINGRVDVIDGS 63 (161)
Q Consensus 1 ~~~RtVvlR~~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~-~~~QvRi~G~~~~~~~~ 63 (161)
|++|.|.+-... +.+.|+|+|+..|.|+++|++||+|+++|..+. ...+++|.|+|++++++
T Consensus 26 P~~~~v~~~~~~-~~~~i~~~t~~~~~k~~nl~~np~v~l~~~~~~~~~~~v~~~G~a~~~~d~ 88 (89)
T PF01243_consen 26 PHASPVWFVYDD-DDNTIYFATNPGSRKVRNLRRNPRVSLLFCDPEGTRRGVRVSGTAEILTDE 88 (89)
T ss_dssp EEEEEEEEEEEC-TTTEEEEEEETTSHHHHHHHHSTEEEEEEEETTTTTEEEEEEEEEEEESHH
T ss_pred EEEEEEeeecCC-ceeEEEEeecCCCCchhhCccCCeEEEEEEEcCcCceEEEEEEEEEEEcCC
Confidence 456666666553 345799999999999999999999999999999 99999999999999875
No 15
>TIGR03666 Rv2061_F420 PPOX class probable F420-dependent enzyme, Rv2061 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN.
Probab=98.12 E-value=3.1e-05 Score=56.35 Aligned_cols=50 Identities=18% Similarity=0.326 Sum_probs=42.6
Q ss_pred CCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCC-eEEEEEEEEEEecCC
Q 031333 14 NTDKIQINSDTRSRKIEELKSCPFSEICWYFTESW-DQFRINGRVDVIDGS 63 (161)
Q Consensus 14 ~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~-~QvRi~G~~~~~~~~ 63 (161)
+++.|+|+|...+.|+..|+.||+|++++..+... .-+.|.|+|+++.++
T Consensus 36 d~g~l~f~t~~~~~K~~nl~~np~Vsl~v~~~~~~~~~v~v~G~A~~v~~~ 86 (132)
T TIGR03666 36 DGDKLLVRTKEDSWKVKRIRNNPRVTLAPCDRRGRPTGPVVPGRARILDGA 86 (132)
T ss_pred ECCEEEEEECCcCHHHHHHHhCCCEEEEEECCCCCEeEEEEEEEEEEEcch
Confidence 46789999999999999999999999998766533 359999999999544
No 16
>TIGR03668 Rv0121_F420 PPOX class probable F420-dependent enzyme, Rv0121 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN.
Probab=97.50 E-value=0.0019 Score=47.59 Aligned_cols=50 Identities=16% Similarity=0.231 Sum_probs=39.0
Q ss_pred CCcEEEEeC------CCChhhHHhhhCCceEEEEeecCC----CeEEEEEEEEEEecCCC
Q 031333 15 TDKIQINSD------TRSRKIEELKSCPFSEICWYFTES----WDQFRINGRVDVIDGSN 64 (161)
Q Consensus 15 ~~~l~f~Td------~rS~K~~el~~np~~~l~f~~~~~----~~QvRi~G~~~~~~~~~ 64 (161)
++.|+|++| ..+.|...|+.||+|+++...... .+-+.+.|+|+++.++.
T Consensus 44 ~~~i~~~~~~~~~t~~~~~K~~ni~~nPrVs~~v~~~~~~~~~~~~v~v~G~a~~~~d~~ 103 (141)
T TIGR03668 44 DAVIYTAVDAKPKTTPRLRRLRNIEENPRVSLLVDRYDDDWTRLWWVRADGRAEILRPGE 103 (141)
T ss_pred CCEEEEEecCCCCcccccHHHHHHhhCCCEEEEEecCCCCccceEEEEEEEEEEEecCCc
Confidence 567888865 456899999999999998753221 23499999999999985
No 17
>PRK06733 hypothetical protein; Provisional
Probab=97.48 E-value=0.00042 Score=51.57 Aligned_cols=48 Identities=23% Similarity=0.395 Sum_probs=44.7
Q ss_pred CCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCC
Q 031333 14 NTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGS 63 (161)
Q Consensus 14 ~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~ 63 (161)
++..|.|.-+.+|.-+..|++||.|+|.+|.+++. |.|+|.++++.+.
T Consensus 47 d~~tIr~A~~~~skT~~NLk~Np~v~I~~~~~~~~--yqIkG~a~i~~e~ 94 (151)
T PRK06733 47 SKTSIRFAVDQRSRIVENIRHNPGVVLTIIANESV--YSISGAAEILTDR 94 (151)
T ss_pred CCCEEEEEEccCcHhHHHHhhCCcEEEEEEeCCcE--EEEEEEEEEEeee
Confidence 56889999999999999999999999999999877 9999999999965
No 18
>COG5015 Uncharacterized conserved protein [Function unknown]
Probab=97.43 E-value=0.0056 Score=43.80 Aligned_cols=91 Identities=14% Similarity=0.195 Sum_probs=67.4
Q ss_pred CCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcCChhhhhccccCCC
Q 031333 14 NTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGCSMKARLQYLDPEQ 93 (161)
Q Consensus 14 ~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~~~~~r~~~~~~~p 93 (161)
+.+.|+|+|...-+=.+||+.||.+++|-.... ..-|||+|+|..++.-+. -..+...- |..+..|.
T Consensus 35 ~g~KlYfcTantK~~yKqik~np~vefcg~~kd-g~~vrlrg~a~f~~niel-------kk~ale~y-P~Lkeiy~---- 101 (132)
T COG5015 35 EGEKLYFCTANTKPYYKQIKKNPEVEFCGMDKD-GVMVRLRGRAEFVENIEL-------KKLALEIY-PVLKEIYP---- 101 (132)
T ss_pred eCCEEEEEeCCChHHHHHHhhCCCeEEEEecCC-ceEEEEeeeEEeccchHH-------HHHHhhhc-hhhHhhcc----
Confidence 578899999999999999999999999998776 789999999999987632 22233321 23333331
Q ss_pred CCcCCCCCCCcccCCCCCCCCCcEEEEEEeeeEEEeEecCC
Q 031333 94 GCPSVNEQPKEFSLDPCAGPVDAFCVLILDPDQVDYLNLKS 134 (161)
Q Consensus 94 g~~~~~~~~~~~~~~~~~~~~~~f~v~~l~p~~ve~l~l~~ 134 (161)
.+.-+-|.|+-++-.+.+-..+.+
T Consensus 102 -----------------tddnpifevfyld~~e~~m~df~g 125 (132)
T COG5015 102 -----------------TDDNPIFEVFYLDSGEGEMYDFSG 125 (132)
T ss_pred -----------------CCCCCEEEEEEEeeccEEEEEecC
Confidence 112346899999998888887763
No 19
>PRK03467 hypothetical protein; Provisional
Probab=97.31 E-value=0.0026 Score=47.02 Aligned_cols=99 Identities=14% Similarity=0.168 Sum_probs=67.1
Q ss_pred eecCCCcEEEEeCCCChhhHHhhhCCceEEEEe-ecCCCeEEE---EEEEEEEecCCCCcHHHHHHHHHhHhcCChhhhh
Q 031333 11 FQDNTDKIQINSDTRSRKIEELKSCPFSEICWY-FTESWDQFR---INGRVDVIDGSNSDPEKLQIREKSWFGCSMKARL 86 (161)
Q Consensus 11 ~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~-~~~~~~QvR---i~G~~~~~~~~~~~~~~~~~~~~~W~~~~~~~r~ 86 (161)
|+++.-.|+|.|+..|+.++.+.+||.|+.+-. .|++-..|+ ++|.+..+++++. ..+|+
T Consensus 39 fd~~~~~l~~~S~~~TrH~~~~~~np~VAgTI~~~~~~v~~I~GvQ~~G~~~~l~~~e~----------------~~Ar~ 102 (144)
T PRK03467 39 FDAQKVAFYLLTEEKTRHGQMMGPNAQVAGTVNGQPKTVALIRGVQFKGEIRRLEGEES----------------DAARK 102 (144)
T ss_pred EcCCCeEEEEEcCCCCHHHHHHhhCCCEEEEEcCCCcchhhceEEEEEEEEEecChhHH----------------HHHHH
Confidence 555567799999999999999999999987655 455556666 9999999987632 12345
Q ss_pred ccccCCCCCcCCCCCCCcccCCCCCCCCCcEEEEEEeeeEEEeEecC-C-CcEEEEEE
Q 031333 87 QYLDPEQGCPSVNEQPKEFSLDPCAGPVDAFCVLILDPDQVDYLNLK-S-NQKLKFMS 142 (161)
Q Consensus 87 ~~~~~~pg~~~~~~~~~~~~~~~~~~~~~~f~v~~l~p~~ve~l~l~-~-h~R~~f~~ 142 (161)
.|+.--|-..+ .+. -++.|.+.+|-+-+-+ | ..++.|.+
T Consensus 103 ~Y~~rFP~A~~-------------~~~----~iw~l~l~~iK~tdN~LGFgkKl~w~r 143 (144)
T PRK03467 103 RYNRRFPVARA-------------LSA----PVWELRLDEIKMTDNTLGFGKKLHWLR 143 (144)
T ss_pred HHHHhCcchhc-------------cCC----ceEEEEEEEEEEeccccccccceEEec
Confidence 55432222210 011 2789999999888865 2 45565554
No 20
>PF12900 Pyridox_ox_2: Pyridoxamine 5'-phosphate oxidase; InterPro: IPR024747 Pyridoxamine 5'-phosphate oxidase is a FMN flavoprotein that catalyses the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP). This entry contains several uncharacterised proteins, some annotated as pyridoxamine 5'-phosphate oxidase-related.; PDB: 3U5W_A 3U0I_A 2X1K_A 1W3Q_A 1W3P_A 1W3O_A 2VPA_A 2X1J_A 1W3R_A 3FKH_A ....
Probab=96.71 E-value=0.0058 Score=44.50 Aligned_cols=49 Identities=14% Similarity=0.243 Sum_probs=41.0
Q ss_pred CCCcEEEEeCCCChhhHHhhhCCceEEEEeec-----CC--------CeEEEEEEEEEEecCC
Q 031333 14 NTDKIQINSDTRSRKIEELKSCPFSEICWYFT-----ES--------WDQFRINGRVDVIDGS 63 (161)
Q Consensus 14 ~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~-----~~--------~~QvRi~G~~~~~~~~ 63 (161)
+++.|+|||...++|..-|++|| ++++.+-- .. .+=|.+.|+++.+.++
T Consensus 35 ~~~~ly~h~~~~g~k~~~l~~~p-v~~~~~~~~~~~~~~~~~~~~~~y~SVi~~G~~~~v~d~ 96 (143)
T PF12900_consen 35 DGGSLYFHGARGGKKIELLRNNP-VCFTVDEVDELVPAESACSFSMNYRSVIVFGRAEEVEDE 96 (143)
T ss_dssp ETTEEEEEECSHSHHHHHHHHEE-EEEEEEEEEEEEETSCGGGEEEEEEEEEEEEEEEEEHSH
T ss_pred ECCEEEEEECCcchHHHHhccCC-eEEEEEecCcEeecccCCcCcceEEEEEEEEEEEEeCCH
Confidence 36779999999999999999999 98888762 11 4679999999999776
No 21
>PF13883 Pyrid_oxidase_2: Pyridoxamine 5'-phosphate oxidase; PDB: 1XHN_C.
Probab=95.19 E-value=0.24 Score=37.40 Aligned_cols=93 Identities=14% Similarity=0.153 Sum_probs=54.3
Q ss_pred CCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCC--------------eEEEEEEEEEEecCCCCcHHHHHHHHHhHhc
Q 031333 14 NTDKIQINSDTRSRKIEELKSCPFSEICWYFTESW--------------DQFRINGRVDVIDGSNSDPEKLQIREKSWFG 79 (161)
Q Consensus 14 ~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~--------------~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~ 79 (161)
.++.++|+.-.-+.-.++|++||+++|+..++... --+.|.|+++.++.++.+
T Consensus 50 ~~G~p~~lls~la~ht~nl~~~~r~SL~i~~~~~~~~~~~~~dp~~~~~~RvtL~G~~~~v~~~e~~------------- 116 (170)
T PF13883_consen 50 STGRPIFLLSPLAQHTRNLKADPRVSLTISEPQGGDCDNSGVDPEDPACPRVTLTGRAEPVPPDEAA------------- 116 (170)
T ss_dssp --S--EEEE-TTSHHHHHHHH--EEEEEEEGGGSSHHHHHT--TTSTTS-EEEEEEEEEE--TTTHH-------------
T ss_pred CCCCEEEEEeCccHHHHHHhhCCCEEEEEecCCCCcccccCCCCCCCCCcEEEEEEEEEEcCchHHH-------------
Confidence 45778888888899999999999999999888655 479999999999955321
Q ss_pred CChhhhhccccCCCCCcCCCCCCCcccCCCCCCCCCcEEEEEEeeeEEEeEec
Q 031333 80 CSMKARLQYLDPEQGCPSVNEQPKEFSLDPCAGPVDAFCVLILDPDQVDYLNL 132 (161)
Q Consensus 80 ~~~~~r~~~~~~~pg~~~~~~~~~~~~~~~~~~~~~~f~v~~l~p~~ve~l~l 132 (161)
.++++|..-+|.... +. +.. .+..|..++|.|++|=|..+
T Consensus 117 ---~a~~~yl~~HP~a~~-------w~-~~~--~~hdf~~~rl~i~~v~~vgG 156 (170)
T PF13883_consen 117 ---AARAAYLSRHPDAKH-------WL-PFN--SPHDFFFYRLEIERVYLVGG 156 (170)
T ss_dssp ---HHHHHHHHH-GGGGG-------S--GG-----G--EEEEEEEEEEEEE-S
T ss_pred ---HHHHHHHHHCcCccc-------cc-ccc--ccCccEEEEEEEEEEEEECc
Confidence 234445433343321 11 101 45789999999999866554
No 22
>COG3467 Predicted flavin-nucleotide-binding protein [General function prediction only]
Probab=94.24 E-value=0.89 Score=34.27 Aligned_cols=65 Identities=15% Similarity=0.228 Sum_probs=49.8
Q ss_pred CCCcEEEEeCCCChhhHHhhhCCceEEEEeecC------------CCeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcCC
Q 031333 14 NTDKIQINSDTRSRKIEELKSCPFSEICWYFTE------------SWDQFRINGRVDVIDGSNSDPEKLQIREKSWFGCS 81 (161)
Q Consensus 14 ~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~------------~~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~~ 81 (161)
+.+.|+||+-.-++|+.-|..||.|++....-. .-+=|-+.|+++.+++.+. ....+..+|+.+.
T Consensus 46 ~~~~lY~h~~~~grk~~~l~~~p~V~~ev~~~~~~~~~~~~~~s~~y~SVvv~G~~~~l~~~~~---k~~~l~~~~~~~~ 122 (166)
T COG3467 46 EGGHLYFHGSPEGRKIELLRKNPLVCLEVDEIHGLVLKSPFNSSRNYRSVVVFGRAEELSDLEE---KAAALDHAWSLLM 122 (166)
T ss_pred eCCeEEEEeCCcchhhHHhhcCCcEEEEEEccccceecccccCCcceEEEEEEeEEEEcCChHH---HHHHHHHHHHHhc
Confidence 356699999999999999999999998877665 3345679999999998733 2234466677643
No 23
>TIGR00026 hi_GC_TIGR00026 deazaflavin-dependent nitroreductase family protein. This model represents a family of proteins found in paralogous families in the genera Mycobacterium and Streptomyces. Seven members are in Mycobacterium tuberculosis. Member protein Rv3547 has been characterized as a deazaflavin-dependent nitroreductase.
Probab=91.88 E-value=1.6 Score=30.84 Aligned_cols=60 Identities=12% Similarity=0.039 Sum_probs=41.8
Q ss_pred ceEEEEcceecCCCcEEEE-eCC----CChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCCCCcHHH
Q 031333 3 VICWVFRGFQDNTDKIQIN-SDT----RSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGSNSDPEK 69 (161)
Q Consensus 3 ~RtVvlR~~~~~~~~l~f~-Td~----rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~~~~~~~ 69 (161)
.|++.+--+. +++.+++. +.. .+..+.+|.+||.+.+.+ . .+ +..+.+.++++++.+..|
T Consensus 22 ~r~tpl~~~~-~~~~~~vvas~~G~~~~p~W~~Nl~A~p~v~v~~---~-g~--~~~~~ar~v~~~e~~~~~ 86 (113)
T TIGR00026 22 PRTTPVTYVR-HDPGVLIVASNGGAPRHPDWYKNLKANPRVRVRV---G-GK--TFVATARLVSGDERDQLW 86 (113)
T ss_pred EEEEEEEEEE-ECCEEEEEEecCCCCCCCHHHHHhhhCCcEEEEE---C-CE--EEEEEEEECCchhHHHHH
Confidence 4566665554 34555544 665 588899999999999876 2 22 579999999988654444
No 24
>COG3787 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.62 E-value=13 Score=27.16 Aligned_cols=99 Identities=15% Similarity=0.174 Sum_probs=66.3
Q ss_pred eecCCCcEEEEeCCCChhhHHhhhCCceEEEEeecCC----CeEEEEEEEEEEecCCCCcHHHHHHHHHhHhcCChhhhh
Q 031333 11 FQDNTDKIQINSDTRSRKIEELKSCPFSEICWYFTES----WDQFRINGRVDVIDGSNSDPEKLQIREKSWFGCSMKARL 86 (161)
Q Consensus 11 ~~~~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~----~~QvRi~G~~~~~~~~~~~~~~~~~~~~~W~~~~~~~r~ 86 (161)
||..+..|++.|+-.++-.+=+..|+.|+..-.-+.. -+=|-.+|..+.++.+++ +.+|+
T Consensus 34 FDek~~ali~~T~e~TrHa~l~~~ns~VAgtv~~qsKtva~ikGVQfkge~~~l~~~q~----------------~~Ark 97 (145)
T COG3787 34 FDEKNVALIILTEEKTRHAQLSGPNSAVAGTVAGQSKTVALIKGVQFKGEISRLSGEQS----------------DAARK 97 (145)
T ss_pred EcccceEEEEEeccchhHHHhhCCCCceeeEeccCceeeeeeeeeeeeeeehhhhcchH----------------HHHHH
Confidence 5656678999999999999999999999988776653 223456788888887754 35566
Q ss_pred ccccCCCCCcCCCCCCCcccCCCCCCCCCcEEEEEEeeeEEEeEecC--CCcEEEEEE
Q 031333 87 QYLDPEQGCPSVNEQPKEFSLDPCAGPVDAFCVLILDPDQVDYLNLK--SNQKLKFMS 142 (161)
Q Consensus 87 ~~~~~~pg~~~~~~~~~~~~~~~~~~~~~~f~v~~l~p~~ve~l~l~--~h~R~~f~~ 142 (161)
.|+..=|=..+ +.--|+.|.+++|-|-+-. -...+.|.+
T Consensus 98 ~Y~~rfp~akv-----------------d~a~vwqleL~~ikftdNaLG~~kklew~r 138 (145)
T COG3787 98 AYNRRFPVAKV-----------------DSAPVWQLELDEIKFTDNALGFGKKLEWLR 138 (145)
T ss_pred HHhccCchhhc-----------------ccCceEEeeeeeEEeecccccccceEEEec
Confidence 66432221111 1124777888888777754 256666655
No 25
>PF03088 Str_synth: Strictosidine synthase; InterPro: IPR018119 This entry represents a conserved region found in strictosidine synthase (4.3.3.2 from EC), a key enzyme in alkaloid biosynthesis. It catalyses the Pictet-Spengler stereospecific condensation of tryptamine with secologanin to form strictosidine []. The structure of the native enzyme from the Indian medicinal plant Rauvolfia serpentina (Serpentwood) (Devilpepper) represents the first example of a six-bladed four-stranded beta-propeller fold from the plant kingdom [].; GO: 0016844 strictosidine synthase activity, 0009058 biosynthetic process; PDB: 2FPB_A 2V91_B 2FP8_A 3V1S_B 2FPC_A 2VAQ_A 2FP9_B.
Probab=54.58 E-value=63 Score=21.70 Aligned_cols=41 Identities=17% Similarity=0.247 Sum_probs=24.1
Q ss_pred CCcEEEEeCCCCh-----hhHH-hhhCCceEEEEeecCCCe-EEEEEE
Q 031333 15 TDKIQINSDTRSR-----KIEE-LKSCPFSEICWYFTESWD-QFRING 55 (161)
Q Consensus 15 ~~~l~f~Td~rS~-----K~~e-l~~np~~~l~f~~~~~~~-QvRi~G 55 (161)
+++.++|||+.+. -+.+ |...|...|+-|+|.+++ .+-+.|
T Consensus 8 ~~g~vYfTdsS~~~~~~~~~~~~le~~~~GRll~ydp~t~~~~vl~~~ 55 (89)
T PF03088_consen 8 DTGTVYFTDSSSRYDRRDWVYDLLEGRPTGRLLRYDPSTKETTVLLDG 55 (89)
T ss_dssp TT--EEEEES-SS--TTGHHHHHHHT---EEEEEEETTTTEEEEEEEE
T ss_pred CCCEEEEEeCccccCccceeeeeecCCCCcCEEEEECCCCeEEEehhC
Confidence 3478889997442 2233 446899999999999986 455555
No 26
>KOG3374 consensus Cellular repressor of transcription [Transcription]
Probab=46.02 E-value=1.4e+02 Score=23.07 Aligned_cols=50 Identities=10% Similarity=0.040 Sum_probs=40.1
Q ss_pred CCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCe--------------EEEEEEEEEEecCCC
Q 031333 15 TDKIQINSDTRSRKIEELKSCPFSEICWYFTESWD--------------QFRINGRVDVIDGSN 64 (161)
Q Consensus 15 ~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~--------------QvRi~G~~~~~~~~~ 64 (161)
++..+|+--.--.-+.+++.|++|.|+|-...+.+ -+.|+|++.++...+
T Consensus 89 tG~pyFyLt~Ld~t~~n~qkd~~atL~~s~~qt~~Ck~~g~DPm~PtC~~~mlsG~v~k~~~~~ 152 (210)
T KOG3374|consen 89 TGRPYFYLTDLDFTGPNWQKDNKATLLFSDEQTLRCKEGGKDPMEPTCARSMLSGQVKKMDPSD 152 (210)
T ss_pred CCceEEEeccCCCCCcccccCCceeEEeeccccchhhcCCCCCCCchhhhheecceEEEeCCcc
Confidence 35577776666677889999999999999887765 467999999998763
No 27
>PF04075 DUF385: Domain of unknown function (DUF385) ; InterPro: IPR004378 This entry represents a family of proteins found in paralogous families in the genera Mycobacterium and Streptomyces. Seven members are in Mycobacterium tuberculosis. Member protein Rv3547 has been characterised as a deazaflavin-dependent nitroreductase [, ]. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3R5Y_D 3R5W_A 3R5R_E 3R5L_A 3R5P_A 3R5Z_B 3H96_A.
Probab=33.69 E-value=53 Score=23.61 Aligned_cols=54 Identities=9% Similarity=-0.002 Sum_probs=33.8
Q ss_pred ceEEEEcceecCCCcEE-EEeC----CCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCC
Q 031333 3 VICWVFRGFQDNTDKIQ-INSD----TRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGS 63 (161)
Q Consensus 3 ~RtVvlR~~~~~~~~l~-f~Td----~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~ 63 (161)
.|++.+--+. +++.++ +.++ ..+.=+.+|.+||.|.+.+ . + -+..+.+..++++
T Consensus 40 ~r~tpl~~~~-~g~~~~vva~~gG~~~~p~W~~Nl~A~p~v~v~~--~--g--~~~~~~a~~~~~~ 98 (132)
T PF04075_consen 40 PRRTPLVYVR-DGGRLVVVASNGGAPRHPDWYRNLRANPEVTVEV--G--G--RRRRVRAREVTDD 98 (132)
T ss_dssp EEEEEEEEEE-ETTEEEEE-SGGGCSSS-HHHHHHHHHSEEEEEE--T--T--EEEEEEEEEE-HH
T ss_pred eEEEEEEEEE-eCCEEEEEEccCCCCCCChhHHhhhhCCcEEEEE--C--C--EEEEEEEEEcCch
Confidence 3566664444 445455 4453 4688899999999999863 1 2 2677788888854
No 28
>TIGR02266 gmx_TIGR02266 Myxococcus xanthus paralogous domain TIGR02266. This domain is related to Type IV pilus assembly protein PilZ (Pfam model pfam07238). It is found in at least 12 copies in Myxococcus xanthus DK 1622.
Probab=28.19 E-value=1.7e+02 Score=18.86 Aligned_cols=44 Identities=11% Similarity=0.087 Sum_probs=34.7
Q ss_pred CCCcEEEEeCCCChhhHHhhhCCceEEEEeecCCCeEEEEEEEEEEecCC
Q 031333 14 NTDKIQINSDTRSRKIEELKSCPFSEICWYFTESWDQFRINGRVDVIDGS 63 (161)
Q Consensus 14 ~~~~l~f~Td~rS~K~~el~~np~~~l~f~~~~~~~QvRi~G~~~~~~~~ 63 (161)
+.+++.+.|+. .+..+..+.+.|..|....++.+.|++.-+...
T Consensus 25 S~gG~~~~~~~------~~~~g~~v~l~l~l~~~~~~i~~~g~Vv~~~~~ 68 (96)
T TIGR02266 25 SKGGLFIRTRK------PLAVGTRVELKLTLPGGERPVELKGVVAWVRPA 68 (96)
T ss_pred CCceEEEecCC------CcCCCCEEEEEEEcCCCCeEEEEEEEEEEeCCC
Confidence 46788888864 455566889999999877789999998888764
No 29
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=25.91 E-value=12 Score=27.17 Aligned_cols=50 Identities=20% Similarity=0.212 Sum_probs=32.9
Q ss_pred EEEEcceecCCCcEEEEeCCCChhhHHhhhCC---ceEEEEeecCCCeEEEEEEE-EEEecCC
Q 031333 5 CWVFRGFQDNTDKIQINSDTRSRKIEELKSCP---FSEICWYFTESWDQFRINGR-VDVIDGS 63 (161)
Q Consensus 5 tVvlR~~~~~~~~l~f~Td~rS~K~~el~~np---~~~l~f~~~~~~~QvRi~G~-~~~~~~~ 63 (161)
++|||||. ++.+. ....++.+|.... .+.| +|..-+||.|+-- +.++..+
T Consensus 27 ~~VlRG~~--~~~~~----~T~~~i~~L~~~~~~~~v~I---dP~lF~~f~I~~VPa~V~~~~ 80 (130)
T TIGR02742 27 PLVIRGLL--DNGFK----ATATRIQSLIKDGGKSGVQI---DPQWFKQFDITAVPAFVVVKD 80 (130)
T ss_pred eEEEeCCC--CCCHH----HHHHHHHHHHhcCCCCcEEE---ChHHHhhcCceEcCEEEEECC
Confidence 68999996 34322 3366777775433 4555 9999999999876 4444443
No 30
>COG3576 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]
Probab=25.23 E-value=1.6e+02 Score=22.26 Aligned_cols=48 Identities=15% Similarity=0.138 Sum_probs=35.7
Q ss_pred CcEEEEeCCC-ChhhHH-hhhCCceEEEEeec-CCCeEEEEEEEEEEecCC
Q 031333 16 DKIQINSDTR-SRKIEE-LKSCPFSEICWYFT-ESWDQFRINGRVDVIDGS 63 (161)
Q Consensus 16 ~~l~f~Td~r-S~K~~e-l~~np~~~l~f~~~-~~~~QvRi~G~~~~~~~~ 63 (161)
+++++.+|-+ .-|... |.+||.+++..+.. ....=|.|.|++++....
T Consensus 69 ~~~~~v~d~~~~~~~~~~lgnn~~~tl~n~~~~~~~~~f~v~gt~~I~~~g 119 (173)
T COG3576 69 AGFTIVIDDNTAGKTDRNLGNNPKITLRNILRNRRALLFLVKGTARIQGRG 119 (173)
T ss_pred CCceEEeCcccccccccccccCccceeEEeccCCccceEEecceEEEEecc
Confidence 4455555544 444433 89999999999998 467778999999998875
No 31
>cd03585 NTR_TIMP NTR domain, TIMP subfamily; TIMPs, or tissue inibitors of metalloproteases, are essential regulators of extracellular matrix turnover and remodeling. They form complexes with matrix metalloproteases (MMPs) and inactivate them irreversibly by non-covalently binding their active zinc-binding sites. The levels of activated membrane-type MMPs, MMPs, and free TIMPs determine the balance between matrix degradation and matrix formation or stabilization. Consequently, TIMPs play roles in processes that require the remodeling and degradation of connective tissue, such as development, morphogenesis, wound healing, as well as in various diseases and pathological states such as tumor cell metastasis, arthritis, and artherosclerosis. Most TIMPs bind to a variety of MMPs. TIMP-1 and TIMP-2 appear to be multifunctional proteins with diverse biological action. They may exhibit growth factor-like activity and can inhibit angiogenesis. TIMP-3 has been implicated in apoptosis.
Probab=22.77 E-value=1.7e+02 Score=22.57 Aligned_cols=44 Identities=18% Similarity=0.283 Sum_probs=27.5
Q ss_pred eEEEEeecCC--CeEEEEEEEEE----EecCCCCcHHHHHHHHHhHhcCChhhhhccc
Q 031333 38 SEICWYFTES--WDQFRINGRVD----VIDGSNSDPEKLQIREKSWFGCSMKARLQYL 89 (161)
Q Consensus 38 ~~l~f~~~~~--~~QvRi~G~~~----~~~~~~~~~~~~~~~~~~W~~~~~~~r~~~~ 89 (161)
-++|-+.-.+ +.++-|.|.+. .+..=. -..-|++|+...|..|.
T Consensus 70 ~s~CGv~l~~~~~~eYLIaG~~~~g~l~i~~C~--------fv~pW~~lT~~Qr~gl~ 119 (183)
T cd03585 70 SSLCGVKLDVNGKKEYLISGKVEGGKVHITLCD--------FVEPWDSLSLTQKKGLN 119 (183)
T ss_pred ccccceEEEcCCCEEEEEEEEccCCcEEEEecC--------CEeehHhCCHHHHhhhh
Confidence 3444444444 68999999987 211110 03458999999888764
No 32
>PF06718 DUF1203: Protein of unknown function (DUF1203); InterPro: IPR009593 This family consists of several hypothetical bacterial proteins of around 155 residues in length. Family members are present in Rhizobium, Agrobacterium and Streptomyces species.
Probab=22.47 E-value=81 Score=22.41 Aligned_cols=37 Identities=16% Similarity=0.196 Sum_probs=24.1
Q ss_pred cceEEEEcceecCCCcEEEEeC-----CCChhhHHhhhCCceEE
Q 031333 2 RVICWVFRGFQDNTDKIQINSD-----TRSRKIEELKSCPFSEI 40 (161)
Q Consensus 2 ~~RtVvlR~~~~~~~~l~f~Td-----~rS~K~~el~~np~~~l 40 (161)
..|..+||+|+. ++.|+ ..+ .-...+.+|.+||.|+.
T Consensus 59 ~~r~~~lR~Y~a-~~~iv-~g~v~~g~~~~~~l~~~fa~p~Vay 100 (117)
T PF06718_consen 59 RGRLLSLRAYDA-DGRIV-TGRVVEGADIEARLAELFADPEVAY 100 (117)
T ss_pred cCCCeEEEeEcC-CCCEE-eeeEEcchhHHHHHHHHhcCCCceE
Confidence 568899999973 33333 222 23556778888998873
Done!