Query 034179
Match_columns 102
No_of_seqs 106 out of 108
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 10:39:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034179.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034179hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG3380 Predicted NAD/FAD-depe 99.6 2.4E-16 5.3E-21 127.0 4.4 77 5-89 164-245 (331)
2 TIGR03467 HpnE squalene-associ 91.6 0.36 7.8E-06 37.5 4.6 60 17-84 267-327 (419)
3 TIGR00562 proto_IX_ox protopor 74.8 6.8 0.00015 31.5 4.9 63 16-85 293-364 (462)
4 PLN02576 protoporphyrinogen ox 42.0 39 0.00085 27.6 3.9 51 14-66 309-370 (496)
5 PF10686 DUF2493: Protein of u 36.8 16 0.00036 23.4 0.7 16 83-98 51-66 (71)
6 PRK11883 protoporphyrinogen ox 36.5 76 0.0016 25.1 4.6 68 13-86 284-357 (451)
7 KOG3563 Forkhead/HNF-3-related 23.8 56 0.0012 28.2 1.9 26 47-81 227-252 (454)
8 PF14370 Topo_C_assoc: C-termi 16.6 62 0.0013 21.4 0.6 15 81-95 36-50 (71)
9 PF15539 CAF1-p150_C2: CAF1 co 16.3 70 0.0015 26.3 0.9 34 54-96 137-170 (292)
10 KOG4803 Uncharacterized conser 15.5 1.4E+02 0.0029 26.9 2.5 13 54-66 140-152 (610)
No 1
>COG3380 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]
Probab=99.62 E-value=2.4e-16 Score=126.99 Aligned_cols=77 Identities=9% Similarity=0.234 Sum_probs=65.9
Q ss_pred CCCC--CChhH-HHHhhhhhhcccccceeeehhccCCcccccccccccCcee--eeeeeeeCCCCCCCCCCCCCceEEEE
Q 034179 5 VVGS--SGVPL-IARKMKFVEDAIKFYMGVLAASEDPCLLVSAASFKAPLLK--AVSWMENNSEKFFCSQSDGAHCWTLF 79 (102)
Q Consensus 5 ~~~~--~~~p~-lA~~~~~~~m~~~pcWalMaaF~~pl~~~~~~~~dgafv~--~LsWiA~NSsKPg~~rr~g~e~Wvlh 79 (102)
||.+ -.+|. |...+..+.|. |||++|++|++|++.| ++|.|+. +|.||+||.+||| +....+.||+|
T Consensus 164 LLt~~~~~~p~~l~~~~a~V~y~--Pc~s~~lg~~q~l~~P----~~G~~vdg~~laWla~d~sK~g--~~p~~~~~vvq 235 (331)
T COG3380 164 LLTTDADDLPAALRAALADVVYA--PCWSAVLGYPQPLDRP----WPGNFVDGHPLAWLARDASKKG--HVPDGEIWVVQ 235 (331)
T ss_pred hcCcccccchHHHHHhhccceeh--hHHHHHhcCCccCCCC----CCCcccCCCeeeeeeccccCCC--CCCcCceEEEE
Confidence 4444 34455 66677777899 9999999999999999 9999998 9999999999999 45567899999
Q ss_pred eChhhHhhcC
Q 034179 80 STAAYGKRNK 89 (102)
Q Consensus 80 AT~~wS~~Hk 89 (102)
|+|+||++|=
T Consensus 236 asp~wSr~h~ 245 (331)
T COG3380 236 ASPDWSREHL 245 (331)
T ss_pred eCchHHHHhh
Confidence 9999999983
No 2
>TIGR03467 HpnE squalene-associated FAD-dependent desaturase. The sequences in this family are members of the pfam01593 superfamily of flavin-containing amine oxidases which include the phytoene desaturases. These sequences also include a FAD-dependent oxidoreductase domain, pfam01266. The genes of the family modeled here are generally in the same locus with genes involved in the biosynthesis and elaboration of squalene, the condensation product of the polyisoprenoid farnesyl pyrophosphate. This gene and its association with hopene biosynthesis in Zymomonas mobilis has been noted in the literature where the gene symbol hpnE was assigned. This gene is also found in contexts where the downstream conversion of squalene to hopenes is not evidence. The precise nature of the reaction catalyzed by this enzyme is unknown at this time.
Probab=91.60 E-value=0.36 Score=37.52 Aligned_cols=60 Identities=7% Similarity=0.003 Sum_probs=40.3
Q ss_pred hhhhhhcccccceeeehhccCCcccccccccccCcee-eeeeeeeCCCCCCCCCCCCCceEEEEeChhh
Q 034179 17 KMKFVEDAIKFYMGVLAASEDPCLLVSAASFKAPLLK-AVSWMENNSEKFFCSQSDGAHCWTLFSTAAY 84 (102)
Q Consensus 17 ~~~~~~m~~~pcWalMaaF~~pl~~~~~~~~dgafv~-~LsWiA~NSsKPg~~rr~g~e~WvlhAT~~w 84 (102)
....+++. +|+.+++.|++|+..+. .+-+. +. +..|+.+++.+++ ..+..+++++...++
T Consensus 267 ~l~~~~~~--~~~~v~l~~~~~~~~~~--~~~~~-~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~ 327 (419)
T TIGR03467 267 LLTALGYS--PITTVHLRLDRAVRLPA--PMVGL-VGGLAQWLFDRGQLAG---EPGYLAVVISAARDL 327 (419)
T ss_pred HHhhcCCc--ceEEEEEEeCCCcCCCC--Ceeee-cCCceeEEEECCcCCC---CCCEEEEEEecchhh
Confidence 34455677 99999999999974330 02221 22 7899999988887 556667777765444
No 3
>TIGR00562 proto_IX_ox protoporphyrinogen oxidase. This protein is a flavoprotein and has a beta-alpha-beta dinucleotide binding motif near the amino end.
Probab=74.83 E-value=6.8 Score=31.47 Aligned_cols=63 Identities=8% Similarity=-0.064 Sum_probs=37.9
Q ss_pred HhhhhhhcccccceeeehhccCC-ccccccccccc--Cce------eeeeeeeeCCCCCCCCCCCCCceEEEEeChhhH
Q 034179 16 RKMKFVEDAIKFYMGVLAASEDP-CLLVSAASFKA--PLL------KAVSWMENNSEKFFCSQSDGAHCWTLFSTAAYG 85 (102)
Q Consensus 16 ~~~~~~~m~~~pcWalMaaF~~p-l~~~~~~~~dg--afv------~~LsWiA~NSsKPg~~rr~g~e~WvlhAT~~wS 85 (102)
+.+..+.+. ||+.+++.|+++ ++.+ .++ ..+ ..+.|+..++.+|+.. .++...++++.+..++
T Consensus 293 ~~l~~l~~~--~~~~v~l~~~~~~~~~~----~~~~g~l~~~~~~~~~~~~i~~s~~~p~~~-p~g~~~l~~~~~g~~~ 364 (462)
T TIGR00562 293 SHLDKIHSP--PVANVNLGFPEGSVDGE----LEGFGFLISRSSKFAILGCIFTSKLFPNRA-PPGKTLLTAYIGGATD 364 (462)
T ss_pred HHHhcCCCC--ceEEEEEEEchHHcCCC----CCceEEEccCCCCCceEEEEEEccccCCcC-CCCcEEEEEEeCCCCC
Confidence 334455678 999999999876 3321 122 111 1588999888888721 1233456667765543
No 4
>PLN02576 protoporphyrinogen oxidase
Probab=41.98 E-value=39 Score=27.55 Aligned_cols=51 Identities=8% Similarity=-0.187 Sum_probs=31.0
Q ss_pred HHHhhhhhhcccccceeeehhccCCc-cccc--ccccccCce--------eeeeeeeeCCCCCC
Q 034179 14 IARKMKFVEDAIKFYMGVLAASEDPC-LLVS--AASFKAPLL--------KAVSWMENNSEKFF 66 (102)
Q Consensus 14 lA~~~~~~~m~~~pcWalMaaF~~pl-~~~~--~~~~dgafv--------~~LsWiA~NSsKPg 66 (102)
+.+.+..+.+. ||+.+++.|+++. .... +..+++... ..+.|+.+++.+|+
T Consensus 309 ~~~~l~~~~~~--~~~~v~l~~~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~lg~~~~s~~~p~ 370 (496)
T PLN02576 309 AADALPEFYYP--PVAAVTTSYPKEAVKRERLIDGPLEGFGQLHPRKQGVKTLGTIYSSSLFPD 370 (496)
T ss_pred HHHHhccCCCC--ceEEEEEEEchHHcccccccCCCCCceEEEccCCCCCceEEEEeecCcCCC
Confidence 44445556678 9999999999863 2100 000222111 15789999999998
No 5
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=36.83 E-value=16 Score=23.38 Aligned_cols=16 Identities=13% Similarity=0.376 Sum_probs=14.4
Q ss_pred hhHhhcCCCCcccccc
Q 034179 83 AYGKRNKVPQVFLHIN 98 (102)
Q Consensus 83 ~wS~~Hkvpqe~~p~~ 98 (102)
.|.++++|||+-.|++
T Consensus 51 ~wA~~~gv~~~~~~ad 66 (71)
T PF10686_consen 51 RWARERGVPVIRFPAD 66 (71)
T ss_pred HHHHHCCCeeEEeCcC
Confidence 7999999999988875
No 6
>PRK11883 protoporphyrinogen oxidase; Reviewed
Probab=36.47 E-value=76 Score=25.11 Aligned_cols=68 Identities=12% Similarity=-0.001 Sum_probs=40.0
Q ss_pred HHHHhhhhhhcccccceeeehhccCCcc-cccccccccCcee-----eeeeeeeCCCCCCCCCCCCCceEEEEeChhhHh
Q 034179 13 LIARKMKFVEDAIKFYMGVLAASEDPCL-LVSAASFKAPLLK-----AVSWMENNSEKFFCSQSDGAHCWTLFSTAAYGK 86 (102)
Q Consensus 13 ~lA~~~~~~~m~~~pcWalMaaF~~pl~-~~~~~~~dgafv~-----~LsWiA~NSsKPg~~rr~g~e~WvlhAT~~wS~ 86 (102)
.+.+.+.++.+. ++..+++.|++|.+ .+. ..+.++. ++.++..++.|.. +...+....+++....|..
T Consensus 284 ~~~~~~~~~~~~--~~~~v~l~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~s~~~~-~~~p~g~~~~~~~~~~~~~ 357 (451)
T PRK11883 284 PAFALFKTIPST--SVATVALAFPESATNLPD---GTGFLVARNSDYTITACTWTSKKWP-HTTPEGKVLLRLYVGRPGD 357 (451)
T ss_pred hHHHHHhCCCCC--ceEEEEEEeccccCCCCC---ceEEEecCCCCCcEEEEEeEcCcCC-CCCCCCcEEEEEecCCCCC
Confidence 334445666788 99999999999852 221 1222221 4667767777743 1122234677777776654
No 7
>KOG3563 consensus Forkhead/HNF-3-related transcription factor [Transcription]
Probab=23.77 E-value=56 Score=28.16 Aligned_cols=26 Identities=23% Similarity=0.415 Sum_probs=20.0
Q ss_pred cccCceeeeeeeeeCCCCCCCCCCCCCceEEEEeC
Q 034179 47 FKAPLLKAVSWMENNSEKFFCSQSDGAHCWTLFST 81 (102)
Q Consensus 47 ~dgafv~~LsWiA~NSsKPg~~rr~g~e~WvlhAT 81 (102)
|.-+||+ |+|---||| ... -||||=.
T Consensus 227 FNDCFVK----VaRSPDKPG---KGS--fWTLHpd 252 (454)
T KOG3563|consen 227 FNDCFVK----VARSPDKPG---KGS--FWTLHPD 252 (454)
T ss_pred ccceeee----ccCCCCCCC---Ccc--ceeecCC
Confidence 8888987 678888999 433 5999954
No 8
>PF14370 Topo_C_assoc: C-terminal topoisomerase domain; PDB: 1TL8_A 1K4T_A 1A36_A 1RR8_C 1T8I_A 1SC7_A 1EJ9_A 1LPQ_A 1RRJ_A 1A31_A ....
Probab=16.59 E-value=62 Score=21.36 Aligned_cols=15 Identities=40% Similarity=0.536 Sum_probs=10.8
Q ss_pred ChhhHhhcCCCCccc
Q 034179 81 TAAYGKRNKVPQVFL 95 (102)
Q Consensus 81 T~~wS~~Hkvpqe~~ 95 (102)
|-+|.+.|+||=|-|
T Consensus 36 tvAWck~~~VPieKi 50 (71)
T PF14370_consen 36 TVAWCKRHEVPIEKI 50 (71)
T ss_dssp HHHHHHHTT--GGGT
T ss_pred HHHHHHHhCCcHHHH
Confidence 458999999998876
No 9
>PF15539 CAF1-p150_C2: CAF1 complex subunit p150, region binding to CAF1-p60 at C-term
Probab=16.32 E-value=70 Score=26.31 Aligned_cols=34 Identities=18% Similarity=0.095 Sum_probs=23.0
Q ss_pred eeeeeeeCCCCCCCCCCCCCceEEEEeChhhHhhcCCCCcccc
Q 034179 54 AVSWMENNSEKFFCSQSDGAHCWTLFSTAAYGKRNKVPQVFLH 96 (102)
Q Consensus 54 ~LsWiA~NSsKPg~~rr~g~e~WvlhAT~~wS~~Hkvpqe~~p 96 (102)
.|++-+.-..||. ..-||++|+. --+|.-||++|
T Consensus 137 ~isensvyeKrP~-----~RmCWyVh~e----vL~kF~qe~Lp 170 (292)
T PF15539_consen 137 IISENSVYEKRPK-----FRMCWYVHPE----VLKKFQQEDLP 170 (292)
T ss_pred hhhhhhhhccCCC-----CcEEEEECHH----HHhhcCcccCC
Confidence 5676666555554 3469999985 45677777776
No 10
>KOG4803 consensus Uncharacterized conserved protein [Function unknown]
Probab=15.55 E-value=1.4e+02 Score=26.89 Aligned_cols=13 Identities=15% Similarity=0.332 Sum_probs=11.9
Q ss_pred eeeeeeeCCCCCC
Q 034179 54 AVSWMENNSEKFF 66 (102)
Q Consensus 54 ~LsWiA~NSsKPg 66 (102)
+|.|+-+|+|-|.
T Consensus 140 ~l~wvrcd~Sd~e 152 (610)
T KOG4803|consen 140 PLVWVRCDSSDPE 152 (610)
T ss_pred ceeEEEecCCCCC
Confidence 7899999999995
Done!