Citrus Sinensis ID: 041306

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------12
Protein Sequence
GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLTPKAPSFHEDEANVSKAESYQEAISSSG
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHcccccccccHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cEEcccccHHHHHHHHHHHHcccccccccccHHEEEcccccccccccccHHHHHHHHHHHHHHcHHHHHHccccccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
giiglgeaEEDRVGLLHTlatlpthpesvpinallavkgtplqdqkpVEIWEMIRMIATARIVMPKAMkllttpnnnfvaDQLMFKVlgltpkapsfhedeanvSKAESYQEAISSSG
Flexible Loop (DISEMBL)
giiglgeaEEDRVGLLHTLATLPTHPESVPINALlavkgtplqdqKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLTPKAPSFHEDEANVSKAESYQEAISSSG
Low Complexity Region (SEG)
GIIGLGEAEEDRVGllhtlatlpthpESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLTPKAPSFHEDEANVSKAESYQEAISSSG
Disordered region (IsUnstruct)
***************LHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLT***************************
Disordered Region (DISOPRED)
GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLTP**************************
Disordered Region (DISEMBL)
GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLTPKAPSFH********************
Disordered Region (DISPRO)
GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLTP***************ESYQ*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAMKLLTTPNNNFVADQLMFKVLGLTPKAPSFHEDEANVSKAESYQEAISSSG
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	118	2.2.26 [Sep-21-2011]
P54967	378	Biotin synthase OS=Arabid	yes	no	0.966	0.301	0.639	4e-45
Q11S94	337	Biotin synthase OS=Cytoph	yes	no	0.855	0.299	0.5	7e-28
A6GW77	362	Biotin synthase OS=Flavob	yes	no	0.805	0.262	0.488	7e-25
A5FLT1	363	Biotin synthase OS=Flavob	yes	no	0.805	0.261	0.488	2e-24
A0M7A9	363	Biotin synthase OS=Gramel	yes	no	0.788	0.256	0.479	2e-24
Q9Z6L5	331	Biotin synthase OS=Chlamy	yes	no	0.864	0.308	0.436	2e-23
B0VCA8	329	Biotin synthase OS=Acinet	yes	no	0.805	0.288	0.456	1e-22
A3M4U4	329	Biotin synthase OS=Acinet	yes	no	0.805	0.288	0.456	1e-22
B0VR41	329	Biotin synthase OS=Acinet	yes	no	0.805	0.288	0.456	1e-22
B2HYX9	329	Biotin synthase OS=Acinet	yes	no	0.805	0.288	0.456	1e-22

>sp|P54967|BIOB_ARATH Biotin synthase OS=Arabidopsis thaliana GN=BIO2 PE=2 SV=1

 Score =  179 bits (455), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 94/147 (63%), Positives = 105/147 (71%), Gaps = 33/147 (22%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDR+GLLHTLATLP+HPESVPINALLAVKGTPL+DQKPVEIWEMIRMI TA
Sbjct: 234 GIIGLGEAEEDRIGLLHTLATLPSHPESVPINALLAVKGTPLEDQKPVEIWEMIRMIGTA 293

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMPKAM                              KLLTTPNN+F ADQLMFK LGL
Sbjct: 294 RIVMPKAMVRLSAGRVRFSMSEQALCFLAGANSIFTGEKLLTTPNNDFDADQLMFKTLGL 353

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSS 117
            PK PSF ED+   S++E+ ++  S+S
Sbjct: 354 IPKPPSFSEDD---SESENCEKVASAS 377

Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 8EC: .EC: 1EC: .EC: 6

>sp|Q11S94|BIOB_CYTH3 Biotin synthase OS=Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) GN=bioB PE=3 SV=1

 Score =  122 bits (306), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 66/132 (50%), Positives = 81/132 (61%), Gaps = 31/132 (23%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIG+GE+  DRVG+LHTLA +  HPESVP+NAL+ V+GTPL+DQ  V +WEM+RMIATA
Sbjct: 193 GIIGMGESHGDRVGMLHTLANMVEHPESVPVNALVPVEGTPLEDQPRVSVWEMVRMIATA 252

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MPKAM                              KLLTTPN    AD+ MF+VL L
Sbjct: 253 RIIMPKAMVRLSAGRVRMNTEEQALCFLAGANSIFAGDKLLTTPNPEVNADKEMFQVLNL 312

Query: 91  TPKAPSFHEDEA 102
            P+  SF   +A
Sbjct: 313 KPRQ-SFKNGDA 323

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) (taxid: 269798)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|A6GW77|BIOB_FLAPJ Biotin synthase OS=Flavobacterium psychrophilum (strain JIP02/86 / ATCC 49511) GN=bioB PE=3 SV=1

 Score =  112 bits (280), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 61/125 (48%), Positives = 78/125 (62%), Gaps = 30/125 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIG+GE+  DR G+L  L+TL   PESVPINAL+AV+GTP++++KPVEIWEMIRM+AT 
Sbjct: 193 GIIGMGESIGDRAGMLVALSTLSPQPESVPINALVAVEGTPMEEEKPVEIWEMIRMVATT 252

Query: 61  RIVMP-----------------KAM-------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP                 +AM             KLLTTPN +   D  MF++LGL
Sbjct: 253 RIIMPETQVRLSAGRMNMTREGQAMCFFAGANSIFAGDKLLTTPNPDVNEDMKMFEMLGL 312

Query: 91  TPKAP 95
            P+ P
Sbjct: 313 NPQKP 317

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Flavobacterium psychrophilum (strain JIP02/86 / ATCC 49511) (taxid: 402612)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|A5FLT1|BIOB_FLAJ1 Biotin synthase OS=Flavobacterium johnsoniae (strain ATCC 17061 / DSM 2064 / UW101) GN=bioB PE=3 SV=1

 Score =  111 bits (277), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 61/125 (48%), Positives = 77/125 (61%), Gaps = 30/125 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIG+GE+ EDR G+L  L+TL   PESVPINAL+AV+GTP++++KPVEIWEMIRM+AT 
Sbjct: 194 GIIGMGESIEDRAGMLVALSTLNPQPESVPINALVAVEGTPMEEEKPVEIWEMIRMVATT 253

Query: 61  RIVMP-----------------KAM-------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMP                 +AM             KLLTTPN +   D  MF+ LG+
Sbjct: 254 RIVMPETQVRLSAGRTNMSREGQAMCFFAGANSIFAGDKLLTTPNPDVNEDMKMFETLGM 313

Query: 91  TPKAP 95
             + P
Sbjct: 314 VAQKP 318

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Flavobacterium johnsoniae (strain ATCC 17061 / DSM 2064 / UW101) (taxid: 376686)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|A0M7A9|BIOB_GRAFK Biotin synthase OS=Gramella forsetii (strain KT0803) GN=bioB PE=3 SV=1

 Score =  110 bits (275), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 59/123 (47%), Positives = 74/123 (60%), Gaps = 30/123 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIG+GE+E DR G+L  L+TL   PESVPINAL+ V+GTP+++Q+PV IWEMIRM+AT 
Sbjct: 192 GIIGMGESEADRAGMLVALSTLNPQPESVPINALVPVEGTPMEEQEPVPIWEMIRMVATT 251

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMP+                                KLLTTPN +   D  MFK+LGL
Sbjct: 252 RIVMPETQVRLSAGRTQMSREGQAMCFFAGANSIFAGDKLLTTPNPDVSEDMEMFKMLGL 311

Query: 91  TPK 93
            P+
Sbjct: 312 NPQ 314

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Gramella forsetii (strain KT0803) (taxid: 411154)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|Q9Z6L5|BIOB_CHLPN Biotin synthase OS=Chlamydia pneumoniae GN=bioB PE=3 SV=1

 Score =  107 bits (268), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 58/133 (43%), Positives = 74/133 (55%), Gaps = 31/133 (23%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+G+GE+EEDR+ LLH LAT    PESVP+N L  + GTPLQDQ P+  WE++R IATA
Sbjct: 193 GIVGMGESEEDRIKLLHVLATRDHIPESVPVNLLWPIDGTPLQDQPPISFWEVLRTIATA 252

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           R+V P++M                              KLLT  NN+   D  M K+LGL
Sbjct: 253 RVVFPRSMVRLAAGRAFLTVEQQTLCFLAGANSIFYGDKLLTVENNDIDEDAEMIKLLGL 312

Query: 91  TPKAPSFHEDEAN 103
            P+ PSF  +  N
Sbjct: 313 IPR-PSFGIERGN 324

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Chlamydia pneumoniae (taxid: 83558)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|B0VCA8|BIOB_ACIBY Biotin synthase OS=Acinetobacter baumannii (strain AYE) GN=bioB PE=3 SV=2

 Score =  105 bits (261), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 57/125 (45%), Positives = 71/125 (56%), Gaps = 30/125 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE+ EDR+GLLH LATLP HPESVPIN L+ ++GTPL D + +++ E IR IA A
Sbjct: 191 GIVGLGESREDRIGLLHELATLPIHPESVPINMLVPIEGTPLADVEKLDVIEWIRTIAVA 250

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP +                               KLLTTPN     DQ +F  LGL
Sbjct: 251 RIIMPHSYIRLSAGRESLSDSDQALAFMAGANSLFSGDKLLTTPNAGEGKDQALFNKLGL 310

Query: 91  TPKAP 95
           T + P
Sbjct: 311 TAEKP 315

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Acinetobacter baumannii (strain AYE) (taxid: 509173)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|A3M4U4|BIOB_ACIBT Biotin synthase OS=Acinetobacter baumannii (strain ATCC 17978 / NCDC KC 755) GN=bioB PE=3 SV=2

 Score =  105 bits (261), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 57/125 (45%), Positives = 71/125 (56%), Gaps = 30/125 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE+ EDR+GLLH LATLP HPESVPIN L+ ++GTPL D + +++ E IR IA A
Sbjct: 191 GIVGLGESREDRIGLLHELATLPIHPESVPINMLVPIEGTPLADVEKLDVIEWIRTIAVA 250

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP +                               KLLTTPN     DQ +F  LGL
Sbjct: 251 RIIMPHSYIRLSAGRESLSDSDQALAFMAGANSLFSGDKLLTTPNAGEGKDQALFNKLGL 310

Query: 91  TPKAP 95
           T + P
Sbjct: 311 TAEKP 315

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Acinetobacter baumannii (strain ATCC 17978 / NCDC KC 755) (taxid: 400667)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|B0VR41|BIOB_ACIBS Biotin synthase OS=Acinetobacter baumannii (strain SDF) GN=bioB PE=3 SV=2

 Score =  105 bits (261), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 57/125 (45%), Positives = 71/125 (56%), Gaps = 30/125 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE+ EDR+GLLH LATLP HPESVPIN L+ ++GTPL D + +++ E IR IA A
Sbjct: 191 GIVGLGESREDRIGLLHELATLPIHPESVPINMLVPIEGTPLADVEKLDVIEWIRTIAVA 250

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP +                               KLLTTPN     DQ +F  LGL
Sbjct: 251 RIIMPHSYIRLSAGRESLSDSDQALAFMAGANSLFSGDKLLTTPNAGEGKDQALFNKLGL 310

Query: 91  TPKAP 95
           T + P
Sbjct: 311 TAEKP 315

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Acinetobacter baumannii (strain SDF) (taxid: 509170)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

>sp|B2HYX9|BIOB_ACIBC Biotin synthase OS=Acinetobacter baumannii (strain ACICU) GN=bioB PE=3 SV=1

 Score =  105 bits (261), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 57/125 (45%), Positives = 71/125 (56%), Gaps = 30/125 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE+ EDR+GLLH LATLP HPESVPIN L+ ++GTPL D + +++ E IR IA A
Sbjct: 191 GIVGLGESREDRIGLLHELATLPIHPESVPINMLVPIEGTPLADVEKLDVIEWIRTIAVA 250

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP +                               KLLTTPN     DQ +F  LGL
Sbjct: 251 RIIMPHSYIRLSAGRESLSDSDQALAFMAGANSLFSGDKLLTTPNAGEGKDQALFNKLGL 310

Query: 91  TPKAP 95
           T + P
Sbjct: 311 TAEKP 315

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism.

Acinetobacter baumannii (strain ACICU) (taxid: 405416)

EC: 2

EC: .

EC: 8

EC: .

EC: 1

EC: .

EC: 6

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	118
225433839	381	PREDICTED: biotin synthase [Vitis vinife	1.0	0.309	0.675	6e-48
147841710	216	hypothetical protein VITISV_034772 [Viti	1.0	0.546	0.675	9e-48
255577757	375	biotin synthase, putative [Ricinus commu	1.0	0.314	0.668	1e-47
356538487	374	PREDICTED: biotin synthase-like [Glycine	0.974	0.307	0.687	9e-47
224095708	382	predicted protein [Populus trichocarpa]	0.991	0.306	0.671	2e-46
357474135	377	Biotin synthase [Medicago truncatula] gi	0.974	0.305	0.673	4e-46
449446229	385	PREDICTED: biotin synthase-like [Cucumis	0.991	0.303	0.680	5e-46
388519677	377	unknown [Medicago truncatula]	0.974	0.305	0.673	5e-46
255637113	374	unknown [Glycine max]	0.974	0.307	0.673	1e-45
224132680	391	predicted protein [Populus trichocarpa]	1.0	0.301	0.618	9e-45

>gi|225433839|ref|XP_002263125.1| PREDICTED: biotin synthase [Vitis vinifera] gi|297743757|emb|CBI36640.3| unnamed protein product [Vitis vinifera]

 Score =  194 bits (493), Expect = 6e-48,   Method: Compositional matrix adjust.
 Identities = 100/148 (67%), Positives = 109/148 (73%), Gaps = 30/148 (20%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPL+DQKPVEIWEM+RMIATA
Sbjct: 234 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLEDQKPVEIWEMVRMIATA 293

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMPKAM                              KLLTTPNN+F ADQ MFK+LGL
Sbjct: 294 RIVMPKAMVRLSAGRVRFSVPEQALCFLAGANSIFTGDKLLTTPNNDFDADQQMFKLLGL 353

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSSG 118
            PKAPSF ED A  S+AE+ ++A+S SG
Sbjct: 354 IPKAPSFDEDVAKTSEAENCEQAVSGSG 381

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147841710|emb|CAN60576.1| hypothetical protein VITISV_034772 [Vitis vinifera]

 Score =  193 bits (491), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 100/148 (67%), Positives = 109/148 (73%), Gaps = 30/148 (20%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPL+DQKPVEIWEM+RMIATA
Sbjct: 69  GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLEDQKPVEIWEMVRMIATA 128

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMPKAM                              KLLTTPNN+F ADQ MFK+LGL
Sbjct: 129 RIVMPKAMVRLSAGRVRFSVPEQALCFLAGANSIFTGDKLLTTPNNDFDADQQMFKLLGL 188

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSSG 118
            PKAPSF ED A  S+AE+ ++A+S SG
Sbjct: 189 IPKAPSFDEDVAKTSEAENCEQAVSGSG 216

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255577757|ref|XP_002529753.1| biotin synthase, putative [Ricinus communis] gi|223530751|gb|EEF32619.1| biotin synthase, putative [Ricinus communis]

 Score =  193 bits (491), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 99/148 (66%), Positives = 109/148 (73%), Gaps = 30/148 (20%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTL+TLP HPESVPINAL+AVKGTPL+DQKPVEIWEMIRMIATA
Sbjct: 228 GIIGLGEAEEDRVGLLHTLSTLPMHPESVPINALIAVKGTPLEDQKPVEIWEMIRMIATA 287

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MPKAM                              KLLTTPNN+F ADQLMFK+LGL
Sbjct: 288 RIIMPKAMVRLSAGRVRFSIAEQALCFLSGANSIFTGEKLLTTPNNDFDADQLMFKLLGL 347

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSSG 118
            PKAPSF EDE    ++E+ QEA+SSSG
Sbjct: 348 IPKAPSFPEDEERALESENCQEAVSSSG 375

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538487|ref|XP_003537735.1| PREDICTED: biotin synthase-like [Glycine max]

 Score =  190 bits (483), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 101/147 (68%), Positives = 108/147 (73%), Gaps = 32/147 (21%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTL+TLPTHPESVPINAL+AVKGTPL+DQKPVEIWEMIRMIATA
Sbjct: 230 GIIGLGEAEEDRVGLLHTLSTLPTHPESVPINALVAVKGTPLEDQKPVEIWEMIRMIATA 289

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMPKAM                              KLLTTPNN+F ADQLMFKVLGL
Sbjct: 290 RIVMPKAMVRLSAGRVRFSMPEQALCFLAGANSIFTGEKLLTTPNNDFDADQLMFKVLGL 349

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSS 117
            PKAPS HE E +V+  E Y+EA SSS
Sbjct: 350 LPKAPSLHEGETSVT--EDYKEAASSS 374

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224095708|ref|XP_002310445.1| predicted protein [Populus trichocarpa] gi|222853348|gb|EEE90895.1| predicted protein [Populus trichocarpa]

 Score =  189 bits (480), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 100/149 (67%), Positives = 107/149 (71%), Gaps = 32/149 (21%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTLATLPTHPESVPINAL+AVKGTPLQ+QKPVEIWEMIRMI +A
Sbjct: 232 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALVAVKGTPLQEQKPVEIWEMIRMIGSA 291

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMPKAM                              KLLTTPNN++ ADQLMFKVLGL
Sbjct: 292 RIVMPKAMVRLSAGRVSFSMAEQALCFLAGANSIFTGEKLLTTPNNDYDADQLMFKVLGL 351

Query: 91  TPKAPSFHEDE--ANVSKAESYQEAISSS 117
            PKAPSF  DE  A   +AE  QEA+SSS
Sbjct: 352 IPKAPSFSADEEKACACEAERCQEAVSSS 380

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357474135|ref|XP_003607352.1| Biotin synthase [Medicago truncatula] gi|355508407|gb|AES89549.1| Biotin synthase [Medicago truncatula]

 Score =  188 bits (477), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 99/147 (67%), Positives = 107/147 (72%), Gaps = 32/147 (21%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAE+DRVGLLHTL+TLPTHPESVPINAL+AVKGTPLQDQKPVEIWEMIRMIATA
Sbjct: 233 GIIGLGEAEDDRVGLLHTLSTLPTHPESVPINALIAVKGTPLQDQKPVEIWEMIRMIATA 292

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI MPKAM                              KLLTT NN+F ADQLMFKVLGL
Sbjct: 293 RITMPKAMVRLSAGRVRFSVPEQALCFLAGANSIFAGEKLLTTANNDFDADQLMFKVLGL 352

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSS 117
            PKAPS  +DE N  +AE+Y+EA SSS
Sbjct: 353 LPKAPSLDDDETN--EAENYKEAASSS 377

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446229|ref|XP_004140874.1| PREDICTED: biotin synthase-like [Cucumis sativus]

 Score =  187 bits (476), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 100/147 (68%), Positives = 104/147 (70%), Gaps = 30/147 (20%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTLATLPTHPESVPINAL+AVKGTPLQDQKPVEIWEMIRMIATA
Sbjct: 239 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALVAVKGTPLQDQKPVEIWEMIRMIATA 298

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI MPKAM                              KLLTTPNN+F ADQLMFK+LGL
Sbjct: 299 RITMPKAMVRLSAGRVKFSVPEQALCFLAGANSIFTGEKLLTTPNNDFDADQLMFKMLGL 358

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSS 117
            PKAPSF ED     + ES QEA  SS
Sbjct: 359 IPKAPSFTEDAEKAPEEESLQEAALSS 385

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388519677|gb|AFK47900.1| unknown [Medicago truncatula]

 Score =  187 bits (476), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 99/147 (67%), Positives = 107/147 (72%), Gaps = 32/147 (21%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAE+DRVGLLHTL+TLPTHPESVPINAL+AVKGTPLQDQKPVEIWEMIRMIATA
Sbjct: 233 GIIGLGEAEDDRVGLLHTLSTLPTHPESVPINALIAVKGTPLQDQKPVEIWEMIRMIATA 292

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI MPKAM                              KLLTT NN+F ADQLMFKVLGL
Sbjct: 293 RITMPKAMVRLSAGRVRFSVPEQALCFLAGANSIFAGEKLLTTANNDFDADQLMFKVLGL 352

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSS 117
            PKAPS  +DE N  +AE+Y+EA SSS
Sbjct: 353 LPKAPSLDDDETN--EAENYKEAASSS 377

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255637113|gb|ACU18888.1| unknown [Glycine max]

 Score =  187 bits (474), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 99/147 (67%), Positives = 107/147 (72%), Gaps = 32/147 (21%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTL+TLPTHPESVPINAL+AVKGTPL+DQKPVEIWEMIRMIATA
Sbjct: 230 GIIGLGEAEEDRVGLLHTLSTLPTHPESVPINALVAVKGTPLEDQKPVEIWEMIRMIATA 289

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MPKAM                              KLLTTPNN+F ADQLMFKVLGL
Sbjct: 290 RIIMPKAMVRLSAGRVRFSMPEQALCFLAGANSIFTGEKLLTTPNNDFDADQLMFKVLGL 349

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSS 117
            PKAPS +E E NV+  E Y+EA  SS
Sbjct: 350 LPKAPSLNEGETNVT--EDYKEAAFSS 374

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132680|ref|XP_002327854.1| predicted protein [Populus trichocarpa] gi|222837263|gb|EEE75642.1| predicted protein [Populus trichocarpa]

 Score =  183 bits (465), Expect = 9e-45,   Method: Compositional matrix adjust.
 Identities = 99/160 (61%), Positives = 107/160 (66%), Gaps = 42/160 (26%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK------------PV 48
           GIIGLGEAEEDRVGLLHTLATLPTHPESVPINAL++VKGTPLQ+QK            PV
Sbjct: 232 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALVSVKGTPLQEQKVLLIPVSYKFSMPV 291

Query: 49  EIWEMIRMIATARIVMPKAM------------------------------KLLTTPNNNF 78
           EIWEMIRMI TARIVMPKAM                              KLLTTPNN++
Sbjct: 292 EIWEMIRMIGTARIVMPKAMVRLSAGRVRFSMSEQALCFLAGANSIFTGEKLLTTPNNDY 351

Query: 79  VADQLMFKVLGLTPKAPSFHEDEANVSKAESYQEAISSSG 118
            ADQLMFKVLGL PKAPSF  +E    +AE  QEA+SSSG
Sbjct: 352 DADQLMFKVLGLIPKAPSFSGEEEKACEAEQCQEAVSSSG 391

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	118
TAIR|locus:2005497	378	BIO2 "BIOTIN AUXOTROPH 2" [Ara	0.754	0.235	0.633	6.1e-23
UNIPROTKB|Q9KSZ4	350	bioB "Biotin synthase" [Vibrio	0.593	0.2	0.492	7.2e-16
TIGR_CMR|VC_1112	350	VC_1112 "biotin synthase" [Vib	0.593	0.2	0.492	7.2e-16
UNIPROTKB|P12996	346	bioB "biotin synthase monomer"	0.550	0.187	0.507	8.3e-15
SGD|S000003518	375	BIO2 "Biotin synthase" [Saccha	0.576	0.181	0.459	2.5e-13
TIGR_CMR|ECH_0352	326	ECH_0352 "biotin synthase" [Eh	0.567	0.205	0.417	1.9e-12
TIGR_CMR|SPO_3338	318	SPO_3338 "biotin synthase" [Ru	0.754	0.279	0.4	6.8e-12
ASPGD|ASPL0000006186	393	bioB [Emericella nidulans (tax	0.694	0.208	0.402	7.4e-12
TIGR_CMR|APH_0218	322	APH_0218 "biotin synthase" [An	0.550	0.201	0.461	3.3e-11
POMBASE|SPCC1235.02	363	bio2 "biotin synthase" [Schizo	0.576	0.187	0.442	1.2e-10

TAIR|locus:2005497 BIO2 "BIOTIN AUXOTROPH 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 265 (98.3 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 57/90 (63%), Positives = 65/90 (72%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GIIGLGEAEEDR+G            ESVPINALLAVKGTPL+DQKPVEIWEMIRMI TA
Sbjct:   234 GIIGLGEAEEDRIGLLHTLATLPSHPESVPINALLAVKGTPLEDQKPVEIWEMIRMIGTA 293

Query:    61 RIVMPKAMKLLTTPNNNF-VADQLMFKVLG 89
             RIVMPKAM  L+     F +++Q +  + G
Sbjct:   294 RIVMPKAMVRLSAGRVRFSMSEQALCFLAG 323

GO:0003824 "catalytic activity" evidence=IEA

GO:0004076 "biotin synthase activity" evidence=IEA;IGI

GO:0005739 "mitochondrion" evidence=ISM

GO:0009102 "biotin biosynthetic process" evidence=IEA;TAS

GO:0051186 "cofactor metabolic process" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IDA

GO:0006084 "acetyl-CoA metabolic process" evidence=RCA

GO:0007020 "microtubule nucleation" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0016126 "sterol biosynthetic process" evidence=RCA

GO:0016132 "brassinosteroid biosynthetic process" evidence=RCA

GO:0048653 "anther development" evidence=RCA

UNIPROTKB|Q9KSZ4 bioB "Biotin synthase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 160 (61.4 bits), Expect = 7.2e-16, Sum P(2) = 7.2e-16
 Identities = 35/71 (49%), Positives = 46/71 (64%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GIIG+GE+  DR G            ESVPIN L+ VKGTPL+    VE ++ +R+IA A
Sbjct:   191 GIIGMGESTNDRAGLLVELANLPTHPESVPINMLVKVKGTPLEQVDDVEPFDFVRLIAVA 250

Query:    61 RIVMPK-AMKL 70
             RI+MPK A++L
Sbjct:   251 RIMMPKSAVRL 261

GO:0004076 "biotin synthase activity" evidence=ISS

GO:0009102 "biotin biosynthetic process" evidence=ISS

TIGR_CMR|VC_1112 VC_1112 "biotin synthase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 160 (61.4 bits), Expect = 7.2e-16, Sum P(2) = 7.2e-16
 Identities = 35/71 (49%), Positives = 46/71 (64%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GIIG+GE+  DR G            ESVPIN L+ VKGTPL+    VE ++ +R+IA A
Sbjct:   191 GIIGMGESTNDRAGLLVELANLPTHPESVPINMLVKVKGTPLEQVDDVEPFDFVRLIAVA 250

Query:    61 RIVMPK-AMKL 70
             RI+MPK A++L
Sbjct:   251 RIMMPKSAVRL 261

GO:0004076 "biotin synthase activity" evidence=ISS

GO:0009102 "biotin biosynthetic process" evidence=ISS

UNIPROTKB|P12996 bioB "biotin synthase monomer" [Escherichia coli K-12 (taxid:83333)]

 Score = 154 (59.3 bits), Expect = 8.3e-15, Sum P(2) = 8.3e-15
 Identities = 33/65 (50%), Positives = 40/65 (61%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GI+GLGE  +DR G            ESVPIN L+ VKGTPL D   V+ ++ IR IA A
Sbjct:   191 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVA 250

Query:    61 RIVMP 65
             RI+MP
Sbjct:   251 RIMMP 255

GO:0005515 "protein binding" evidence=IPI

GO:0046872 "metal ion binding" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA;IDA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA;IDA

GO:0004076 "biotin synthase activity" evidence=IEA;IDA

GO:0009102 "biotin biosynthetic process" evidence=IEA;IMP

SGD|S000003518 BIO2 "Biotin synthase" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 159 (61.0 bits), Expect = 2.5e-13, Sum P(2) = 2.5e-13
 Identities = 34/74 (45%), Positives = 49/74 (66%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQ------KPVEIWEMI 54
             GI+GLGE+E+D +G            ES+PIN L+A+KGTP+ ++      K ++  E++
Sbjct:   239 GILGLGESEDDHIGFIYTLSNMSPHPESLPINRLVAIKGTPMAEELADPKSKKLQFDEIL 298

Query:    55 RMIATARIVMPKAM 68
             R IATARIVMPKA+
Sbjct:   299 RTIATARIVMPKAI 312

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0004076 "biotin synthase activity" evidence=IEA;IMP

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA;IDA

GO:0046872 "metal ion binding" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0009102 "biotin biosynthetic process" evidence=IEA;IMP

GO:0051186 "cofactor metabolic process" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

TIGR_CMR|ECH_0352 ECH_0352 "biotin synthase" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 130 (50.8 bits), Expect = 1.9e-12, Sum P(2) = 1.9e-12
 Identities = 28/67 (41%), Positives = 39/67 (58%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GI+GLGE+ EDR               SVPIN L+ +KGTP ++   V+  + I+ IA  
Sbjct:   195 GILGLGESIEDRAKMLLTLANLKEHPRSVPINRLVPIKGTPFENNIKVDNIDFIKTIAVT 254

Query:    61 RIVMPKA 67
             RI+MPK+
Sbjct:   255 RILMPKS 261

GO:0004076 "biotin synthase activity" evidence=ISS

GO:0009102 "biotin biosynthetic process" evidence=ISS

TIGR_CMR|SPO_3338 SPO_3338 "biotin synthase" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 165 (63.1 bits), Expect = 6.8e-12, P = 6.8e-12
 Identities = 36/90 (40%), Positives = 55/90 (61%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GIIG+GE+  DR              ESVPINAL+ ++GTPL  ++ V I++++RM+ATA
Sbjct:   195 GIIGMGESLRDRAAMLQVLANFAPHPESVPINALIPIEGTPLAHRERVGIFDLVRMVATA 254

Query:    61 RIVMPKAMKLLTTPNNNF-VADQLMFKVLG 89
             RI+MP     L+   ++F  A+Q +  + G
Sbjct:   255 RIIMPLTRVRLSAGRSDFSAAEQALCFLAG 284

GO:0004076 "biotin synthase activity" evidence=ISS

GO:0009102 "biotin biosynthetic process" evidence=ISS

ASPGD|ASPL0000006186 bioB [Emericella nidulans (taxid:162425)]

 Score = 167 (63.8 bits), Expect = 7.4e-12, P = 7.4e-12
 Identities = 33/82 (40%), Positives = 49/82 (59%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GI+GLGEA+ DR+G            ES P+NAL+ +KGTPL D+K +   +++R +ATA
Sbjct:   236 GILGLGEADSDRIGLIHTVSSLPSHPESFPVNALVPIKGTPLGDRKMISFDKLLRTVATA 295

Query:    61 RIVMPKAMKLLTTPNNNFVADQ 82
             RIV+P  +  L     +   +Q
Sbjct:   296 RIVLPATIVRLAAGRISLTEEQ 317

GO:0009108 "coenzyme biosynthetic process" evidence=RCA

GO:0004076 "biotin synthase activity" evidence=IEA;RCA

GO:0009102 "biotin biosynthetic process" evidence=IMP

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

TIGR_CMR|APH_0218 APH_0218 "biotin synthase" [Anaplasma phagocytophilum HZ (taxid:212042)]

 Score = 139 (54.0 bits), Expect = 3.3e-11, Sum P(2) = 3.3e-11
 Identities = 30/65 (46%), Positives = 38/65 (58%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
             GI+G+GE+ EDR               SVPIN L+A KGTPL+  K V   + +R IA A
Sbjct:   190 GILGMGESTEDRAQMLLTLANLKQHPRSVPINRLVAFKGTPLEGAKKVNSVDFVRTIAVA 249

Query:    61 RIVMP 65
             RI+MP
Sbjct:   250 RIMMP 254

GO:0004076 "biotin synthase activity" evidence=ISS

GO:0009102 "biotin biosynthetic process" evidence=ISS

POMBASE|SPCC1235.02 bio2 "biotin synthase" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 137 (53.3 bits), Expect = 1.2e-10, Sum P(2) = 1.2e-10
 Identities = 31/70 (44%), Positives = 41/70 (58%)

Query:     1 GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQD--QKPVEIWEMIRMIA 58
             GI+GLGE + DRVG            ESVP N L+ + GTP+ D  ++ + I   +R IA
Sbjct:   209 GILGLGEKKHDRVGLIHSLATMPTHPESVPFNLLVPIPGTPVGDAVKERLPIHPFLRSIA 268

Query:    59 TARIVMPKAM 68
             TARI MPK +
Sbjct:   269 TARICMPKTI 278

GO:0004076 "biotin synthase activity" evidence=ISO

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0009102 "biotin biosynthetic process" evidence=IC

GO:0046872 "metal ion binding" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00001917001	SubName- Full=Chromosome chr5 scaffold_124, whole genome shotgun sequence; (381 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00033231001	SubName- Full=Chromosome chr9 scaffold_65, whole genome shotgun sequence; (459 aa)	•			•			•		0.961
	GSVIVG00037597001	SubName- Full=Chromosome undetermined scaffold_89, whole genome shotgun sequence; (483 aa)	•	•		•			•		0.927
	GSVIVG00024152001	SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (462 aa)	•						•		0.882
	GSVIVG00037592001	SubName- Full=Chromosome undetermined scaffold_89, whole genome shotgun sequence; (474 aa)	•	•		•			•		0.856
	GSVIVG00018944001	RecName- Full=Citrate synthase; (466 aa)	•						•		0.846
	GSVIVG00018016001	SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (489 aa)	•			•			•		0.828
	GSVIVG00037931001	SubName- Full=Chromosome chr14 scaffold_9, whole genome shotgun sequence; (489 aa)	•			•			•		0.822
	GSVIVG00036866001	SubName- Full=Chromosome chr4 scaffold_83, whole genome shotgun sequence; (471 aa)					•		•		0.805
	GSVIVG00035470001	SubName- Full=Chromosome chr12 scaffold_78, whole genome shotgun sequence; (497 aa)	•						•		0.801
	GSVIVG00003725001	SubName- Full=Chromosome chr13 scaffold_149, whole genome shotgun sequence; (326 aa)							•		0.800

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	118
PLN02389	379	PLN02389, PLN02389, biotin synthase	2e-65
COG0502	335	COG0502, BioB, Biotin synthase and related enzymes	5e-31
TIGR00433	296	TIGR00433, bioB, biotin synthase	2e-30
PRK15108	345	PRK15108, PRK15108, biotin synthase; Provisional	5e-28
PRK06256	336	PRK06256, PRK06256, biotin synthase; Validated	3e-15
smart00876	94	smart00876, BATS, Biotin and Thiamin Synthesis ass	2e-13
pfam06968	93	pfam06968, BATS, Biotin and Thiamin Synthesis asso	2e-13
PRK08508	279	PRK08508, PRK08508, biotin synthase; Provisional	3e-09
TIGR03550	322	TIGR03550, F420_cofG, 7,8-didemethyl-8-hydroxy-5-d	9e-08
TIGR03957	317	TIGR03957, rSAM_HmdB, 5,10-methenyltetrahydrometha	2e-06
smart00729	216	smart00729, Elp3, Elongator protein 3, MiaB family	2e-05
PRK06245	336	PRK06245, cofG, FO synthase subunit 1; Reviewed	8e-05
TIGR03910	347	TIGR03910, pyrrolys_PylB, pyrrolysine biosynthesis	3e-04

>gnl|CDD|215219 PLN02389, PLN02389, biotin synthase

 Score =  201 bits (513), Expect = 2e-65
 Identities = 98/147 (66%), Positives = 105/147 (71%), Gaps = 30/147 (20%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIGLGEAEEDRVGLLHTLATLP HPESVPINAL+AVKGTPL+DQKPVEIWEM+RMIATA
Sbjct: 233 GIIGLGEAEEDRVGLLHTLATLPEHPESVPINALVAVKGTPLEDQKPVEIWEMVRMIATA 292

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RIVMPKAM                              KLLTTPNN+F ADQ MFK LGL
Sbjct: 293 RIVMPKAMVRLSAGRVRFSMAEQALCFLAGANSIFTGDKLLTTPNNDFDADQAMFKELGL 352

Query: 91  TPKAPSFHEDEANVSKAESYQEAISSS 117
            PK PSF EDE   S+AE  +EA+SSS
Sbjct: 353 IPKPPSFGEDEERASEAERCEEAVSSS 379

Length = 379

>gnl|CDD|223576 COG0502, BioB, Biotin synthase and related enzymes [Coenzyme metabolism]

 Score =  111 bits (280), Expect = 5e-31
 Identities = 50/129 (38%), Positives = 66/129 (51%), Gaps = 31/129 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE  EDR  LL  LA LPT P+SVPIN L  + GTPL++ KP++ +E ++ IA A
Sbjct: 199 GIVGLGETVEDRAELLLELANLPT-PDSVPINFLNPIPGTPLENAKPLDPFEFLKTIAVA 257

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MPK+M                              K LTTP  +   D  + K LGL
Sbjct: 258 RIIMPKSMIRLSAGRETMLPELQALAFMAGANSIFVGDKYLTTPGPDEDKDLELLKDLGL 317

Query: 91  TPKAPSFHE 99
            P+  +   
Sbjct: 318 EPELLNREA 326

Length = 335

>gnl|CDD|232973 TIGR00433, bioB, biotin synthase

 Score =  109 bits (275), Expect = 2e-30
 Identities = 41/120 (34%), Positives = 52/120 (43%), Gaps = 31/120 (25%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIG+GE  EDR+ L   LA L    +SVPIN L+ + GTPL+D  P++  E +R IA  
Sbjct: 179 GIIGMGETMEDRIELAFALAELD--VDSVPINFLVPIPGTPLEDAPPLDPEECLRTIALF 236

Query: 61  RIVMPKAM-----------------------------KLLTTPNNNFVADQLMFKVLGLT 91
           R +MP A                                LTT       D  M + LGL 
Sbjct: 237 RFIMPDAEIRLAGGRELMLRELQALCFLAGANSIFTGDYLTTAGREAEEDLEMLEDLGLE 296

Catalyzes the last step of the biotin biosynthesis pathway. All members of the seed alignment are in the immediate gene neighborhood of a bioA gene [Biosynthesis of cofactors, prosthetic groups, and carriers, Biotin]. Length = 296

>gnl|CDD|185063 PRK15108, PRK15108, biotin synthase; Provisional

 Score =  104 bits (260), Expect = 5e-28
 Identities = 56/123 (45%), Positives = 67/123 (54%), Gaps = 30/123 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE  +DR GLL  LA LPT PESVPIN L+ VKGTPL D   V+ ++ IR IA A
Sbjct: 191 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVA 250

Query: 61  RIVMP-----------------KAM-------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP                 +AM             KLLTTPN     D  +F+ LGL
Sbjct: 251 RIMMPTSYVRLSAGREQMNEQTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKLGL 310

Query: 91  TPK 93
            P+
Sbjct: 311 NPQ 313

Length = 345

>gnl|CDD|235755 PRK06256, PRK06256, biotin synthase; Validated

 Score = 69.5 bits (171), Expect = 3e-15
 Identities = 26/68 (38%), Positives = 38/68 (55%), Gaps = 2/68 (2%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GIIG+GE+ EDRV     L  L    +S+PIN L  + GTPL++   +   E ++ IA  
Sbjct: 207 GIIGMGESLEDRVEHAFFLKELD--ADSIPINFLNPIPGTPLENHPELTPLECLKTIAIF 264

Query: 61  RIVMPKAM 68
           R++ P   
Sbjct: 265 RLINPDKE 272

Length = 336

>gnl|CDD|214877 smart00876, BATS, Biotin and Thiamin Synthesis associated domain

 Score = 60.6 bits (148), Expect = 2e-13
 Identities = 29/94 (30%), Positives = 36/94 (38%), Gaps = 31/94 (32%)

Query: 30 PINALLAVKGTPLQDQ-KPVEIWEMIRMIATARIVMPKAM-------------------- 68
          PIN L  ++GTPL+D   PV   E +R IA AR+ +P A                     
Sbjct: 1  PINRLRPIEGTPLEDPPPPVSPEEFLRTIAAARLALPDAGIRLSTGREALLRDLQALCFS 60

Query: 69 ----------KLLTTPNNNFVADQLMFKVLGLTP 92
                    K LTT       D  M + LGL P
Sbjct: 61 AGANSIFGGDKYLTTSGPRSADDVAMLEKLGLEP 94

Biotin synthase (BioB), , catalyses the last step of the biotin biosynthetic pathway. The reaction consists in the introduction of a sulphur atom into dethiobiotin. BioB functions as a homodimer. Thiamin synthesis if a complex process involving at least six gene products (ThiFSGH, ThiI and ThiJ). Two of the proteins required for the biosynthesis of the thiazole moiety of thiamine (vitamin B(1)) are ThiG and ThiH (this entry) and form a heterodimer. Both of these reactions are thought of involve the binding of co-factors, and both function as dimers.. This domain therefore may be involved in co-factor binding or dimerisation. Length = 94

>gnl|CDD|219245 pfam06968, BATS, Biotin and Thiamin Synthesis associated domain

 Score = 60.5 bits (148), Expect = 2e-13
 Identities = 27/93 (29%), Positives = 38/93 (40%), Gaps = 30/93 (32%)

Query: 30 PINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM--------------------- 68
          PIN L  ++GTPL+DQ P+   E ++ IA  R+++P A                      
Sbjct: 1  PINFLRPIEGTPLEDQPPLSDEEALKTIAAFRLLLPDAGIRLSGGREALLRDLQGLAFMS 60

Query: 69 ---------KLLTTPNNNFVADQLMFKVLGLTP 92
                    L T+ N +   D  M K LGL P
Sbjct: 61 GANSTFVGGYLTTSGNRSPDEDIAMLKDLGLEP 93

Biotin synthase (BioB), EC:2.8.1.6, catalyzes the last step of the biotin biosynthetic pathway. The reaction consists in the introduction of a sulphur atom into dethiobiotin. BioB functions as a homodimer. Thiamin synthesis if a complex process involving at least six gene products (ThiFSGH, ThiI and ThiJ). Two of the proteins required for the biosynthesis of the thiazole moiety of thiamine (vitamin B(1)) are ThiG and ThiH (this family) and form a heterodimer. Both of these reactions are thought of involve the binding of co-factors, and both function as dimers. This domain therefore may be involved in co-factor binding or dimerisation (Finn, RD personal observation). Length = 93

>gnl|CDD|236279 PRK08508, PRK08508, biotin synthase; Provisional

 Score = 52.3 bits (126), Expect = 3e-09
 Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 3/68 (4%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI GLGE+ EDR+  L +LA+L   P S PIN  +     PL     +   E + ++  A
Sbjct: 157 GIFGLGESWEDRISFLKSLASL--SPHSTPINFFIPNPALPL-KAPTLSADEALEIVRLA 213

Query: 61  RIVMPKAM 68
           +  +P A 
Sbjct: 214 KEALPNAR 221

Length = 279

>gnl|CDD|132589 TIGR03550, F420_cofG, 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit

 Score = 48.4 bits (116), Expect = 9e-08
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 4/79 (5%)

Query: 1   GI-IGLGEAEEDRVGLLHTLATLPT---HPESVPINALLAVKGTPLQDQKPVEIWEMIRM 56
           GI IG+GE  E+R   L  +  L     H + V +    A  GTP+++     + EM+R 
Sbjct: 168 GILIGIGETREERAESLLAIRELHERYGHIQEVIVQNFRAKPGTPMENHPEPSLEEMLRT 227

Query: 57  IATARIVMPKAMKLLTTPN 75
           +A AR+++P  + +   PN
Sbjct: 228 VAVARLILPPDISIQVPPN 246

This model represents either a subunit or a domain, depending on whether or not the genes are fused, of a bifunctional protein that completes the synthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is the chromophore of coenzyme F(420), involved in methanogenesis in methanogenic archaea but found in certain other lineages as well. The chromophore also occurs as a cofactor in DNA photolyases in Cyanobacteria [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 322

>gnl|CDD|188472 TIGR03957, rSAM_HmdB, 5,10-methenyltetrahydromethanopterin hydrogenase cofactor biosynthesis protein HmdB

 Score = 44.8 bits (106), Expect = 2e-06
 Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 1/73 (1%)

Query: 2   IIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATAR 61
           +IG+GE+ EDR+  L  L       E +PI       GTP+++  P  + E  + IA  R
Sbjct: 189 LIGIGESYEDRLEHLKFLKRFENLGE-IPIMGFNPYPGTPMENHPPCSLLEQAKTIAVTR 247

Query: 62  IVMPKAMKLLTTP 74
           ++ P     + TP
Sbjct: 248 LMYPDIRITVPTP 260

Members of this archaeal protein family are HmdB, a partially characterized radical SAM protein with an unusual CX5CX2C motif. Its gene flanks the H2-forming methylene-H4-methanopterin dehydrogenase gene hmdA, found in hydrogenotrophic methanogens. HmdB appears to act in in biosynthesis of the novel cofactor of HmdA [Protein fate, Protein modification and repair, Energy metabolism, Methanogenesis]. Length = 317

>gnl|CDD|214792 smart00729, Elp3, Elongator protein 3, MiaB family, Radical SAM

 Score = 41.6 bits (98), Expect = 2e-05
 Identities = 22/61 (36%), Positives = 26/61 (42%), Gaps = 7/61 (11%)

Query: 2   IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ----KPVEIWEMIRM 56
           I+GL GE EED    L  L  L   P+ V I  L    GTPL       KP    E   +
Sbjct: 158 IVGLPGETEEDFEETLKLLKEL--GPDRVSIFPLSPRPGTPLAKMYKRLKPPTKEERAEL 215

Query: 57  I 57
           +
Sbjct: 216 L 216

This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases. Length = 216

>gnl|CDD|180485 PRK06245, cofG, FO synthase subunit 1; Reviewed

 Score = 39.9 bits (94), Expect = 8e-05
 Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 4/79 (5%)

Query: 1   GI-IGLGEAEEDRVGLLHTLATLPT---HPESVPINALLAVKGTPLQDQKPVEIWEMIRM 56
           GI IG+GE  EDR   L  +A L     H + V I       G P+++     + EM+R+
Sbjct: 172 GILIGIGETWEDRAESLEAIAELHERYGHIQEVIIQNFSPKPGIPMENHPEPSLEEMLRV 231

Query: 57  IATARIVMPKAMKLLTTPN 75
           +A AR+++P  + +   PN
Sbjct: 232 VALARLILPPDISIQVPPN 250

Length = 336

>gnl|CDD|188425 TIGR03910, pyrrolys_PylB, pyrrolysine biosynthesis radical SAM protein

 Score = 38.6 bits (90), Expect = 3e-04
 Identities = 19/67 (28%), Positives = 33/67 (49%), Gaps = 3/67 (4%)

Query: 1   GII-GLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIAT 59
           GI+ G+G+  ED    L  + +L    + V +   +  KGTPL+ +        +R+IA 
Sbjct: 206 GILTGVGDDIEDTAISLRGMKSL--DADQVRVMTFVPQKGTPLEGKDVEGNLAELRIIAI 263

Query: 60  ARIVMPK 66
            R++ P 
Sbjct: 264 MRLLFPD 270

This model describes a radical SAM protein, PylB, that is part of the three-gene cassette sufficient for the biosynthesis of pyrrolysine (the twenty-second amino acid) when expressed heterologously in E. coli. The pyrrolysine next is ligated to its own tRNA and incorporated at special UAG codons [Amino acid biosynthesis, Other]. Length = 347

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	118
PLN02389	379	biotin synthase	99.96
COG0502	335	BioB Biotin synthase and related enzymes [Coenzyme	99.95
PRK08508	279	biotin synthase; Provisional	99.94
PRK15108	345	biotin synthase; Provisional	99.93
PRK06256	336	biotin synthase; Validated	99.9
PRK08444	353	hypothetical protein; Provisional	99.9
KOG2900	380	consensus Biotin synthase [Coenzyme transport and	99.86
TIGR03550	322	F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.84
TIGR03699	340	mena_SCO4550 menaquinone biosynthesis protein, SCO	99.84
PRK07360	371	FO synthase subunit 2; Reviewed	99.83
PRK05926	370	hypothetical protein; Provisional	99.82
TIGR03700	351	mena_SCO4494 putative menaquinone biosynthesis pro	99.82
PRK09240	371	thiH thiamine biosynthesis protein ThiH; Reviewed	99.8
TIGR00433	296	bioB biotin synthetase. Catalyzes the last step of	99.8
PRK08445	348	hypothetical protein; Provisional	99.79
PRK09234	843	fbiC FO synthase; Reviewed	99.78
PRK05927	350	hypothetical protein; Provisional	99.77
TIGR00423	309	radical SAM domain protein, CofH subfamily. This p	99.76
TIGR03551	343	F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.76
PF06968	93	BATS: Biotin and Thiamin Synthesis associated doma	99.74
PRK06267	350	hypothetical protein; Provisional	99.74
TIGR02351	366	thiH thiazole biosynthesis protein ThiH. Members t	99.74
smart00876	94	BATS Biotin and Thiamin Synthesis associated domai	99.71
PRK06245	336	cofG FO synthase subunit 1; Reviewed	99.69
PRK09234	843	fbiC FO synthase; Reviewed	99.66
PRK09613	469	thiH thiamine biosynthesis protein ThiH; Reviewed	99.55
PRK07094	323	biotin synthase; Provisional	99.53
COG1060	370	ThiH Thiamine biosynthesis enzyme ThiH and related	99.46
TIGR00510	302	lipA lipoate synthase. The family shows strong seq	98.36
TIGR01212	302	radical SAM protein, TIGR01212 family. This unchar	98.35
PTZ00413	398	lipoate synthase; Provisional	98.26
PRK12928	290	lipoyl synthase; Provisional	98.24
COG2516	339	Biotin synthase-related enzyme [General function p	98.01
PRK05481	289	lipoyl synthase; Provisional	97.79
PLN02428	349	lipoic acid synthase	97.67
COG1856	275	Uncharacterized homolog of biotin synthetase [Func	97.66
TIGR01578	420	MiaB-like-B MiaB-like tRNA modifying enzyme, archa	97.63
TIGR01579	414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	97.62
PRK14331	437	(dimethylallyl)adenosine tRNA methylthiotransferas	97.47
PRK14325	444	(dimethylallyl)adenosine tRNA methylthiotransferas	97.47
TIGR00089	429	RNA modification enzyme, MiaB family. This subfami	97.43
PRK14333	448	(dimethylallyl)adenosine tRNA methylthiotransferas	97.34
TIGR01125	430	MiaB-like tRNA modifying enzyme YliG, TIGR01125. T	97.3
PRK14328	439	(dimethylallyl)adenosine tRNA methylthiotransferas	97.3
PRK14335	455	(dimethylallyl)adenosine tRNA methylthiotransferas	97.29
TIGR01574	438	miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-3	97.27
PRK14339	420	(dimethylallyl)adenosine tRNA methylthiotransferas	97.24
smart00729	216	Elp3 Elongator protein 3, MiaB family, Radical SAM	97.24
PRK14862	440	rimO ribosomal protein S12 methylthiotransferase;	97.16
PRK14337	446	(dimethylallyl)adenosine tRNA methylthiotransferas	97.15
PRK14334	440	(dimethylallyl)adenosine tRNA methylthiotransferas	97.13
PRK14330	434	(dimethylallyl)adenosine tRNA methylthiotransferas	97.1
PRK07379	400	coproporphyrinogen III oxidase; Provisional	97.09
PRK14329	467	(dimethylallyl)adenosine tRNA methylthiotransferas	97.06
TIGR00539	360	hemN_rel putative oxygen-independent coproporphyri	97.04
PRK14338	459	(dimethylallyl)adenosine tRNA methylthiotransferas	97.02
PRK14340	445	(dimethylallyl)adenosine tRNA methylthiotransferas	97.0
PRK08207	488	coproporphyrinogen III oxidase; Provisional	96.98
PRK14327	509	(dimethylallyl)adenosine tRNA methylthiotransferas	96.97
PRK05799	374	coproporphyrinogen III oxidase; Provisional	96.95
PRK14336	418	(dimethylallyl)adenosine tRNA methylthiotransferas	96.85
TIGR03471	472	HpnJ hopanoid biosynthesis associated radical SAM	96.82
PRK14326	502	(dimethylallyl)adenosine tRNA methylthiotransferas	96.8
PRK14332	449	(dimethylallyl)adenosine tRNA methylthiotransferas	96.8
PRK08599	377	coproporphyrinogen III oxidase; Provisional	96.77
PRK05904	353	coproporphyrinogen III oxidase; Provisional	96.64
TIGR02026	497	BchE magnesium-protoporphyrin IX monomethyl ester	96.61
PRK08208	430	coproporphyrinogen III oxidase; Validated	96.5
PRK08898	394	coproporphyrinogen III oxidase; Provisional	96.47
PRK09058	449	coproporphyrinogen III oxidase; Provisional	96.42
PRK05628	375	coproporphyrinogen III oxidase; Validated	96.4
TIGR01211	522	ELP3 histone acetyltransferase, ELP3 family. The S	96.4
COG0621	437	MiaB 2-methylthioadenine synthetase [Translation,	96.36
PRK09057	380	coproporphyrinogen III oxidase; Provisional	96.25
PRK05660	378	HemN family oxidoreductase; Provisional	96.2
PRK00955	620	hypothetical protein; Provisional	96.14
PRK06294	370	coproporphyrinogen III oxidase; Provisional	96.08
cd01335	204	Radical_SAM Radical SAM superfamily. Enzymes of th	96.08
COG1242	312	Predicted Fe-S oxidoreductase [General function pr	96.02
COG1032	490	Fe-S oxidoreductase [Energy production and convers	95.93
PRK06582	390	coproporphyrinogen III oxidase; Provisional	95.81
KOG4355	547	consensus Predicted Fe-S oxidoreductase [General f	95.55
COG0320	306	LipA Lipoate synthase [Coenzyme metabolism]	95.37
PRK08446	350	coproporphyrinogen III oxidase; Provisional	94.77
PRK01254	707	hypothetical protein; Provisional	94.46
PRK08629	433	coproporphyrinogen III oxidase; Provisional	93.93
TIGR01210	313	conserved hypothetical protein TIGR01210. This fam	92.13
TIGR00538	455	hemN oxygen-independent coproporphyrinogen III oxi	92.04
PRK13347	453	coproporphyrinogen III oxidase; Provisional	90.38
PRK09249	453	coproporphyrinogen III oxidase; Provisional	90.04
COG0635	416	HemN Coproporphyrinogen III oxidase and related Fe	87.43
KOG2672	360	consensus Lipoate synthase [Coenzyme transport and	82.0

>PLN02389 biotin synthase

Probab=99.96  E-value=1e-29  Score=210.49  Aligned_cols=117  Identities=82%  Similarity=1.186  Sum_probs=111.1

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      +|+|||||.+||++++..|++|+.++++||||+|+|+|||||++.+++++++++|+||++|++||+..            
T Consensus       233 ~IiGlgEt~edrv~~l~~Lr~L~~~~~~v~l~~l~P~~GTpL~~~~~~s~~e~lr~iAi~Rl~lP~~~i~i~~gr~~l~~  312 (379)
T PLN02389        233 GIIGLGEAEEDRVGLLHTLATLPEHPESVPINALVAVKGTPLEDQKPVEIWEMVRMIATARIVMPKAMVRLSAGRVRFSM  312 (379)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcccCCcEEecccceecCCCcCCCCCCCCHHHHHHHHHHHHHHCCCccccccccccccCh
Confidence            59999999999999999999996569999999999999999999999999999999999999999876            


Q ss_pred             -----------------Cc-ccCCCCCHHHHHHHHHHcCCCCCCCCCcchhhhhhhhHhHHHHhhcc
Q 041306           69 -----------------KL-LTTPNNNFVADQLMFKVLGLTPKAPSFHEDEANVSKAESYQEAISSS  117 (118)
Q Consensus        69 -----------------~y-LTt~g~~~~~d~~mI~~~G~~~~~r~~~~~~~~~~~~~~~~~~~~~~  117 (118)
                                       || |||.|.++++|++||+++||++......++||+++++++|.++.+|+
T Consensus       313 ~~~~~~l~~GAN~~~~g~~~Ltt~g~~~~~d~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~  379 (379)
T PLN02389        313 AEQALCFLAGANSIFTGDKLLTTPNNDFDADQAMFKELGLIPKPPSFGEDEERASEAERCEEAVSSS  379 (379)
T ss_pred             hHHHHHHHhCCCEEEECCcccCCCCCChHHHHHHHHHcCCCccccccccccccccccchHHHHhccC
Confidence                             88 99999999999999999999999778889999999999999999885

>COG0502 BioB Biotin synthase and related enzymes [Coenzyme metabolism]

Probab=99.95  E-value=6.8e-28  Score=197.44  Aligned_cols=94  Identities=51%  Similarity=0.820  Sum_probs=90.4

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      ||+|||||.+||+++++.|++|. +|+|||||+|+|+|||||++.+++++.+++|+||++|++||++.            
T Consensus       199 gI~GlGEs~eDri~~l~~L~~l~-~pdsVPIn~l~P~~GTPle~~~~~~~~e~lk~IA~~Ri~~P~~~Ir~s~gr~~~~~  277 (335)
T COG0502         199 GIVGLGETVEDRAELLLELANLP-TPDSVPINFLNPIPGTPLENAKPLDPFEFLKTIAVARIIMPKSMIRLSAGRETMLP  277 (335)
T ss_pred             eEecCCCCHHHHHHHHHHHHhCC-CCCeeeeeeecCCCCCccccCCCCCHHHHHHHHHHHHHHCCcceeEccCCcccccH
Confidence            79999999999999999999996 49999999999999999999999999999999999999999987            


Q ss_pred             -----------------C-cccCCCCCHHHHHHHHHHcCCCCCCC
Q 041306           69 -----------------K-LLTTPNNNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 -----------------~-yLTt~g~~~~~d~~mI~~~G~~~~~r   95 (118)
                                       + ||||.|...++|.+||+++|+++...
T Consensus       278 ~~q~~~~~aGansi~~g~~~ltt~~~~~e~D~~~l~~lgl~~e~~  322 (335)
T COG0502         278 ELQALAFMAGANSIFVGDKYLTTPGPDEDKDLELLKDLGLEPELL  322 (335)
T ss_pred             HHHHHHHHhccceeeecceEeecCCCCchhHHHHHHHcCCCcccc
Confidence                             5 99999999999999999999999864

>PRK08508 biotin synthase; Provisional

Probab=99.94  E-value=2.3e-26  Score=182.60  Aligned_cols=91  Identities=34%  Similarity=0.515  Sum_probs=86.4

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      +|+|||||.+||++++..|++||  +++||+|+|+|++||||++ ++++++++||++|++|++||++.            
T Consensus       157 ~I~GlGEt~ed~~~~l~~lr~L~--~~svpl~~~~p~~~t~~~~-~~~~~~~~lr~iAv~Rl~lp~~~i~~~~gr~~~~~  233 (279)
T PRK08508        157 GIFGLGESWEDRISFLKSLASLS--PHSTPINFFIPNPALPLKA-PTLSADEALEIVRLAKEALPNARLMVAGGREVVFG  233 (279)
T ss_pred             eEEecCCCHHHHHHHHHHHHcCC--CCEEeeCCcCCCCCCCCCC-CCCCHHHHHHHHHHHHHHCCCceeeecCChhhhch
Confidence            58999999999999999999997  8999999999999999985 56899999999999999999887            


Q ss_pred             -----------------CcccCCCCCHHHHHHHHHHcCCCCCC
Q 041306           69 -----------------KLLTTPNNNFVADQLMFKVLGLTPKA   94 (118)
Q Consensus        69 -----------------~yLTt~g~~~~~d~~mI~~~G~~~~~   94 (118)
                                       |||||.|.++++|++||+++||++..
T Consensus       234 ~~~~~~~~~g~n~~~~g~~lt~~g~~~~~d~~~~~~~~~~~~~  276 (279)
T PRK08508        234 ERQYEIFEAGANAIVIGDYLTTKGEAPKKDIEKLKSLGFEIAT  276 (279)
T ss_pred             hhHHHHHhcCCcceeecCcccCCCCChHHHHHHHHHcCCCcCc
Confidence                             99999999999999999999999864

>PRK15108 biotin synthase; Provisional

Probab=99.93  E-value=1.1e-25  Score=183.93  Aligned_cols=96  Identities=55%  Similarity=0.871  Sum_probs=89.9

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      +|||||||.+||++|+..|++||..+++||+|+|+|++||||++.+++++.+++|+||++|++||+..            
T Consensus       191 ~i~GlgEt~ed~v~~~~~l~~l~~~~~~ip~~~~~P~~gTpl~~~~~~~~~e~lr~iAi~Rl~lp~~~i~i~~g~~~~~~  270 (345)
T PRK15108        191 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVARIMMPTSYVRLSAGREQMNE  270 (345)
T ss_pred             EEEeCCCCHHHHHHHHHHHHhccCCCCEEEeCCccCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCceeeecccHhHhCh
Confidence            59999999999999999999997557899999999999999999988999999999999999999955            


Q ss_pred             -----------------C-cccCCCCCHHHHHHHHHHcCCCCCCCC
Q 041306           69 -----------------K-LLTTPNNNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 -----------------~-yLTt~g~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                       + ||||.|++.++|++||+++||+|++|+
T Consensus       271 ~~~~~~l~~Gan~~~~g~~~ltt~g~~~~~~~~~i~~~g~~~~~~~  316 (345)
T PRK15108        271 QTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKLGLNPQQTA  316 (345)
T ss_pred             hhHHHHHHcCCcEEEECCccccCCCCCHHHHHHHHHHcCCCccccc
Confidence                             5 589999999999999999999999873

>PRK06256 biotin synthase; Validated

Probab=99.90  E-value=2.8e-23  Score=166.99  Aligned_cols=93  Identities=37%  Similarity=0.514  Sum_probs=89.0

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      +|+|+|||.+|+++++..|++++  ++++|+++|+|.|||||++.+++++.+++|++|++|+++|++.            
T Consensus       207 ~I~GlgEt~ed~~~~~~~l~~l~--~~~v~i~~l~P~pGT~l~~~~~~~~~e~l~~ia~~Rl~~p~~~I~~~~gr~~~~~  284 (336)
T PRK06256        207 GIIGMGESLEDRVEHAFFLKELD--ADSIPINFLNPIPGTPLENHPELTPLECLKTIAIFRLINPDKEIRIAGGREVNLR  284 (336)
T ss_pred             eEEeCCCCHHHHHHHHHHHHhCC--CCEEeecccccCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCeeEecCchhhhch
Confidence            48999999999999999999996  9999999999999999999999999999999999999999887            


Q ss_pred             ----------------CcccCCCCCHHHHHHHHHHcCCCCCCC
Q 041306           69 ----------------KLLTTPNNNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 ----------------~yLTt~g~~~~~d~~mI~~~G~~~~~r   95 (118)
                                      |||||.|.+.++|++||+++||++...
T Consensus       285 ~~~~~~~~g~~~~~~g~~lt~~g~~~~~d~~~~~~~g~~~~~~  327 (336)
T PRK06256        285 SLQPLGLGGANSVIVGNYLTTVGQPATADLDMIEDLGFEIELD  327 (336)
T ss_pred             hhHHHHhccCceeeECCcccCCCCChHHHHHHHHHCCCCcccC
Confidence                            999999999999999999999999654

>PRK08444 hypothetical protein; Provisional

Probab=99.90  E-value=1.9e-23  Score=171.71  Aligned_cols=94  Identities=19%  Similarity=0.229  Sum_probs=85.2

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccC----CCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc--------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAV----KGTPLQDQKPVEIWEMIRMIATARIVMPKAM--------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~----~gTple~~~~~s~~e~lR~iAvaRl~lP~~~--------   68 (118)
                      +|||||||++||++|++.||+||  ++++|||+|||+    +||||++.+++++.|+||++|++|++|||+.        
T Consensus       209 ~l~G~gEt~edrv~hl~~Lr~Lq--~~t~gf~~fIp~~f~~~~t~l~~~~~~~~~e~Lr~iAi~Rl~L~~i~ni~a~w~~  286 (353)
T PRK08444        209 MLFGHIENREHRIDHMLRLRDLQ--DKTGGFNAFIPLVYQRENNYLKVEKFPSSQEILKTIAISRILLDNIPHIKAYWAT  286 (353)
T ss_pred             eEEecCCCHHHHHHHHHHHHHhc--cccCCceEEEecccCCCCCcCCCCCCCCHHHHHHHHHHHHHhcCCCCcccccccc
Confidence            58999999999999999999997  999999999999    9999999889999999999999999999984        


Q ss_pred             ------------------------------CcccCCCCCHHHHHHHHHHcCCCCCCCC
Q 041306           69 ------------------------------KLLTTPNNNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 ------------------------------~yLTt~g~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                                    |.-+..+.+.++..++|+++|++|++|+
T Consensus       287 ~g~~~~q~~L~~Ga~D~ggt~~~e~i~~~ag~~~~~~~~~~~l~~~i~~~g~~p~~R~  344 (353)
T PRK08444        287 LTLNLALVAQEFGANDLDGTIEKESIQSAAGAKSANGLSLEDFIFLIKDSGFIPVERD  344 (353)
T ss_pred             CcHHHHHHHHhcCCccCccccccccchhhccCCCCCCCCHHHHHHHHHHcCCCeeeec
Confidence                                          2222234789999999999999999983

>KOG2900 consensus Biotin synthase [Coenzyme transport and metabolism]

Probab=99.86  E-value=1.1e-22  Score=163.59  Aligned_cols=95  Identities=62%  Similarity=1.014  Sum_probs=91.1

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC--CCCCCHHHHHHHHHHHHHhCCCcc----------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD--QKPVEIWEMIRMIATARIVMPKAM----------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~--~~~~s~~e~lR~iAvaRl~lP~~~----------   68 (118)
                      ||+|+||+.+||+.++..|..+..||+|||||.++|++||||++  ..++..+++||+||.+|++||++.          
T Consensus       234 GIlGLGE~e~DriGlihtLatmp~HPESvPiN~LvaikGTP~~d~~~k~l~i~e~lR~IaTARIvMPKaiiRlaAGR~t~  313 (380)
T KOG2900|consen  234 GILGLGESEDDRIGLIHTLATMPPHPESVPINRLVAIKGTPMADEKSKKLQIDEILRTIATARIVMPKAIIRLAAGRYTM  313 (380)
T ss_pred             ccccccccccceeeeeeeeccCCCCCcccccceEEecCCcccchhhcccccHHHHHHHHhhhheechHHHHHHhcccccc
Confidence            89999999999999999999999999999999999999999998  558999999999999999999876          


Q ss_pred             --------------------CcccCCCCCHHHHHHHHHHcCCCCCCC
Q 041306           69 --------------------KLLTTPNNNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 --------------------~yLTt~g~~~~~d~~mI~~~G~~~~~r   95 (118)
                                          ++|||.+.++++|..|+..+|+.|.+.
T Consensus       314 sesEQalcFmAGaNsiFTGeKmLTTp~n~wD~D~~mf~~wGL~pm~~  360 (380)
T KOG2900|consen  314 SESEQALCFMAGANSIFTGEKMLTTPCNGWDEDKAMFAKWGLQPMEA  360 (380)
T ss_pred             chhHHHHHHHhCCccceechhhhcCCCCCcchHHHHHHHcCCCcCcc
Confidence                                889999999999999999999999875

>TIGR03550 F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit

Probab=99.84  E-value=5.6e-21  Score=154.28  Aligned_cols=95  Identities=25%  Similarity=0.395  Sum_probs=84.8

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCC---CCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc---------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPT---HPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM---------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~---~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~---------   68 (118)
                      +|||||||.+||++|+..||+||.   ++.++++++|+|.+||||++.+++++.+++|+||++|++||+..         
T Consensus       169 ~i~G~gEt~ed~~~~l~~lr~Lq~~~~g~~~~i~~~f~P~~gTpl~~~~~~s~~e~lr~iAv~Rl~l~~~~~I~~~~~l~  248 (322)
T TIGR03550       169 ILIGIGETREERAESLLAIRELHERYGHIQEVIVQNFRAKPGTPMENHPEPSLEEMLRTVAVARLILPPDISIQVPPNLN  248 (322)
T ss_pred             eeEeCCCCHHHHHHHHHHHHHHHHHcCCCeEEecCccccCCCCCccCCCCCCHHHHHHHHHHHHHHcCCCCeeecCCccC
Confidence            589999999999999999999972   25688889999999999999999999999999999999997542         


Q ss_pred             -----------------------CcccCCC--CCHHHHHHHHHHcCCCCCCC
Q 041306           69 -----------------------KLLTTPN--NNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 -----------------------~yLTt~g--~~~~~d~~mI~~~G~~~~~r   95 (118)
                                             +++++.+  .+.+++++||+++||+|++|
T Consensus       249 ~~~~~~~L~~Gand~~gt~~~~~~~~~~~~~~~~~~~~~~~i~~~g~~p~~R  300 (322)
T TIGR03550       249 REDYRLLLDAGIDDWGGVSPVTPDHVNPEAPWPEIDELARATEEAGFTLKER  300 (322)
T ss_pred             hHHHHHHHhcCCccccCcccCchhhcCCCCCCCCHHHHHHHHHHcCCCcccc
Confidence                                   5566555  68999999999999999998

This model represents either a subunit or a domain, depending on whether or not the genes are fused, of a bifunctional protein that completes the synthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin, or FO. FO is the chromophore of coenzyme F(420), involved in methanogenesis in methanogenic archaea but found in certain other lineages as well. The chromophore also occurs as a cofactor in DNA photolyases in Cyanobacteria.

>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family

Probab=99.84  E-value=6.8e-21  Score=153.77  Aligned_cols=94  Identities=18%  Similarity=0.286  Sum_probs=85.5

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccC----CCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc--------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAV----KGTPLQDQKPVEIWEMIRMIATARIVMPKAM--------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~----~gTple~~~~~s~~e~lR~iAvaRl~lP~~~--------   68 (118)
                      +|+|||||.+||++++..|++|+  +++++|..|+|.    +||||++.+++++++++|+||++|++||+..        
T Consensus       201 ~iiGlgEt~ed~~~~l~~l~~l~--~~~~~~~~fIP~~f~p~~tpl~~~~~~~~~e~l~~iA~~Rl~lp~~~~i~~~~~~  278 (340)
T TIGR03699       201 MMFGHVETLEDRIEHLERIRELQ--DKTGGFTAFIPWTFQPGNTELGKKRPATSTEYLKVLAISRIFLDNIPNIQASWVT  278 (340)
T ss_pred             eEeeCCCCHHHHHHHHHHHHHhc--hhhCCeeEEEeecccCCCCcccCCCCCCHHHHHHHHHHHHHcCCCCCcccCCccc
Confidence            58999999999999999999996  888777777773    7999999888999999999999999999854        


Q ss_pred             ------------------------CcccCCCCCH----HHHHHHHHHcCCCCCCCC
Q 041306           69 ------------------------KLLTTPNNNF----VADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 ------------------------~yLTt~g~~~----~~d~~mI~~~G~~~~~r~   96 (118)
                                              +|+|+.|.+.    ++|++||+++||+|++|+
T Consensus       279 ~g~~~~~~~l~~Gan~~~g~~~~~~~~~~~g~~~~~~~~~~~~~i~~~g~~~~~r~  334 (340)
T TIGR03699       279 QGKEVGQLALHFGANDFGSTMLEENVVAAAGATHRASREEIIRIIREAGFIPAQRD  334 (340)
T ss_pred             cChHHHHHHHhcCCccCCCccccccccccCCCCCCCCHHHHHHHHHHcCCCeeeec
Confidence                                    8999999777    999999999999999984

members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.

>PRK07360 FO synthase subunit 2; Reviewed

Probab=99.83  E-value=1.9e-20  Score=153.96  Aligned_cols=94  Identities=22%  Similarity=0.286  Sum_probs=83.3

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccC----CCCCCCCCC----CCCHHHHHHHHHHHHHhCCCcc----
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAV----KGTPLQDQK----PVEIWEMIRMIATARIVMPKAM----   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~----~gTple~~~----~~s~~e~lR~iAvaRl~lP~~~----   68 (118)
                      +|||||||.+||++|++.|++||  +++++|..|||+    +||||++..    +.++.++||+||++|++||+..    
T Consensus       221 ~i~G~gEt~edrv~~l~~lr~l~--~~~~g~~~fIp~~f~~~~Tpl~~~~~~~~~~~~~~~lr~iAi~Rl~lp~~~~~i~  298 (371)
T PRK07360        221 MMYGHVETPEHRIDHLLILREIQ--QETGGITEFVPLPFVHENAPLYERGRVKGGAPGLEDLLLYAVSRIFLGNWIKNIQ  298 (371)
T ss_pred             EEeeCCCCHHHHHHHHHHHHHhc--hhhCCeeEEEeccccCCCCccccccccCCCCCHHHHHHHHHHHHHhcCCCCCCee
Confidence            58999999999999999999997  999999999994    599998754    3588889999999999999932    


Q ss_pred             ----------------------------CcccC-CC------CCHHHHHHHHHHcCCCCCCCC
Q 041306           69 ----------------------------KLLTT-PN------NNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 ----------------------------~yLTt-~g------~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                                  +|+|+ .|      .+.+++.+||+++||+|++|.
T Consensus       299 a~~~~lg~~~~~~~l~~Gan~~~~~~~~~~v~~~~G~~~~~~~~~~~~~~~i~~~G~~~~~r~  361 (371)
T PRK07360        299 ASWVKLGLKLAQVALNCGANDLGGTLMEEHITKMAGASGGTYMSVEELQWMIKSIGRIPKQRD  361 (371)
T ss_pred             ccceeeCHHHHHHHHhcCCccCcCcCcccceecccCCCCCCCCCHHHHHHHHHHcCCceeeec
Confidence                                        77787 55      699999999999999999873

>PRK05926 hypothetical protein; Provisional

Probab=99.82  E-value=5.2e-20  Score=152.23  Aligned_cols=96  Identities=15%  Similarity=0.121  Sum_probs=82.9

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCccccccccc----CCCCCCCC----CCCCCHHHHHHHHHHHHHhCCCcc----
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLA----VKGTPLQD----QKPVEIWEMIRMIATARIVMPKAM----   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP----~~gTple~----~~~~s~~e~lR~iAvaRl~lP~~~----   68 (118)
                      +|+|||||++||++|++.||+||  ++++||..|||    .++|||..    .+..++.++||++|++||+|||..    
T Consensus       227 mi~G~gEt~edrv~~l~~Lr~Lq--~~t~gf~~fIp~~f~~~~t~l~~~~~~~~~~~~~~~lr~~AvaRl~l~n~~~iqa  304 (370)
T PRK05926        227 MLCYHRETPEDIVTHMSKLRALQ--DKTSGFKNFILLKFASENNALGKRLRKMGSRHSIPPASIIAVARLFLDNFPNIKA  304 (370)
T ss_pred             eEEeCCCCHHHHHHHHHHHHhcC--CccCCeeeeEecccCCCCCcccccccccCCCChHHHHHHHHHHHHhcCCCccccc
Confidence            58999999999999999999997  99999999999    78999964    335789999999999999999866    


Q ss_pred             ----------------------------Ccc------cCCCCCHHHHHHHHHHcCCCCCCCCCc
Q 041306           69 ----------------------------KLL------TTPNNNFVADQLMFKVLGLTPKAPSFH   98 (118)
Q Consensus        69 ----------------------------~yL------Tt~g~~~~~d~~mI~~~G~~~~~r~~~   98 (118)
                                                  +..      +..+.+.++..+||+++|+.|++|+..
T Consensus       305 ~w~~~G~~~~q~~L~~GanD~ggt~~~e~i~~~ag~~~~~~~~~~~~~~~i~~~g~~p~~rd~~  368 (370)
T PRK05926        305 LWNYLGIEVALHLLSCGANDLSSTHQGEKVFQMASSQEPIKMDIEGMAHLITQQGRIPCLTNSK  368 (370)
T ss_pred             CchhcCHHHHHHHHhCCCccCccccccchhhhccCCCCCCCCCHHHHHHHHHHcCCCceecCCC
Confidence                                        222      233468999999999999999998643

>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family

Probab=99.82  E-value=3.4e-20  Score=151.28  Aligned_cols=94  Identities=16%  Similarity=0.142  Sum_probs=82.9

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccC----CCCCCCCC--CCCCHHHHHHHHHHHHHhCCCcc------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAV----KGTPLQDQ--KPVEIWEMIRMIATARIVMPKAM------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~----~gTple~~--~~~s~~e~lR~iAvaRl~lP~~~------   68 (118)
                      +|+|||||++||++|+..|+++|  +++++|+.|||+    +||||++.  +++++++++|++|++|++||++.      
T Consensus       208 ~i~GlgEt~edrv~~l~~Lr~l~--~~~~~f~~fiP~~f~~~~tpl~~~~~~~~~~~e~lr~iA~~Rl~l~~i~~i~a~w  285 (351)
T TIGR03700       208 MLYGHIETPAHRVDHMLRLRELQ--DETGGFQAFIPLAFQPDNNRLNRLLAKGPTGLDDLKTLAVSRLYLDNIPHIKAYW  285 (351)
T ss_pred             EEeeCCCCHHHHHHHHHHHHHhh--HhhCCceEEEeecccCCCCcccCCCCCCCCHHHHHHHHHHHHHhcCCCCcccccc
Confidence            48999999999999999999997  899999999998    69999987  78999999999999999999844      


Q ss_pred             --------------------------CcccC------CCCCHHHHHHHHHHcCCCCCCCC
Q 041306           69 --------------------------KLLTT------PNNNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 --------------------------~yLTt------~g~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                                ++...      ...+.++..++|+++|++|++|.
T Consensus       286 ~~~~~~~~~~~L~~Gand~ggt~~~e~v~~~~g~~~~~~~~~~~l~~~i~~~g~~p~~r~  345 (351)
T TIGR03700       286 VMLGLKLAQVALAFGVNDLDGTVVEEKIGHDAGAKSPQALSKDELVRLIRDAGRVPVERD  345 (351)
T ss_pred             cccCHHHHHHHHhcCCCCCCccCccceeeccccCCCCCCCCHHHHHHHHHHcCCCeeeec
Confidence                                      12222      23689999999999999999984

Members of this protein family appear to be involved in menaquinone biosynthesis by an alternate pathway via futalosine, based on close phylogenetic correlation with known markers of the futalosine pathway, gene clustering in many organisms, and paralogy with the SCO4550 protein.

>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.80  E-value=8.3e-20  Score=150.33  Aligned_cols=97  Identities=15%  Similarity=0.241  Sum_probs=87.8

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCC----CCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc--------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPT----HPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM--------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~----~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~--------   68 (118)
                      +|+||||+.+||++++..|++|++    .+.+||||.|.|++| |+++.+++++.+++|+||++|+++|++.        
T Consensus       223 ~i~Glge~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~~~~~~~~e~l~~ia~~Rl~lP~~~i~~s~g~~  301 (371)
T PRK09240        223 ALLGLSDWRTDALMTALHLRYLQRKYWQAEYSISFPRLRPCTG-GIEPASIVSDKQLVQLICAFRLFLPDVEISLSTRES  301 (371)
T ss_pred             EEecCCccHHHHHHHHHHHHHHHHhCCCCceeeecCccccCCC-CCCCCCCCCHHHHHHHHHHHHHHCcccccEEecCCC
Confidence            589999999999999999999972    124999999999999 9999999999999999999999999877        


Q ss_pred             ------------------------CcccC----------CCCCHHHHHHHHHHcCCCCCCCCCc
Q 041306           69 ------------------------KLLTT----------PNNNFVADQLMFKVLGLTPKAPSFH   98 (118)
Q Consensus        69 ------------------------~yLTt----------~g~~~~~d~~mI~~~G~~~~~r~~~   98 (118)
                                              ||||+          .|++.++|++||+++||+|+..+++
T Consensus       302 ~~lrd~~~~~~~~~~~ag~~~~~G~y~~~~~~~~qf~~~~~r~~~~~~~~i~~~g~~~~~~~~~  365 (371)
T PRK09240        302 PEFRDNLIPLGITKMSAGSSTQPGGYADDHKELEQFEISDDRSVEEVAAALRAKGLQPVWKDWD  365 (371)
T ss_pred             HHHHHHHHhhcceeeccCccCCCCCcCCCCCCcCCccCCCCCCHHHHHHHHHHCCCeeccchhh
Confidence                                    99998          6999999999999999999754433

>TIGR00433 bioB biotin synthetase

Probab=99.80  E-value=2.6e-19  Score=140.73  Aligned_cols=87  Identities=53%  Similarity=0.778  Sum_probs=83.3

Q ss_pred             eeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc-------------
Q 041306            2 IIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM-------------   68 (118)
Q Consensus         2 I~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~-------------   68 (118)
                      |+|+|||.+|+++++..+++++  ++++++++|+|.+||||++.++++.+++++++|++|+++|+..             
T Consensus       179 i~Gl~et~~d~~~~~~~l~~l~--~~~i~l~~l~p~~gT~l~~~~~~s~~~~~~~ia~~r~~lp~~~i~~~~~~~~~~~~  256 (296)
T TIGR00433       179 IFGLGETVEDRIGLALALANLP--PESVPINFLVKIKGTPLADNKELSADDALKTIALARIIMPKAEIRLAGGREVNMRE  256 (296)
T ss_pred             EEeCCCCHHHHHHHHHHHHhCC--CCEEEeeeeEEcCCCccCCCCCCCHHHHHHHHHHHHHHCCcceEEEeCCcchhhhh
Confidence            8999999999999999999996  9999999999999999999889999999999999999999854             


Q ss_pred             -----------------CcccCCCCCHH-HHHHHHHHcCC
Q 041306           69 -----------------KLLTTPNNNFV-ADQLMFKVLGL   90 (118)
Q Consensus        69 -----------------~yLTt~g~~~~-~d~~mI~~~G~   90 (118)
                                       |||||.|+..+ +|++||+++||
T Consensus       257 ~~~~~~l~~G~n~i~~g~~~~~~g~~~~~~~~~~~~~~~~  296 (296)
T TIGR00433       257 LQQAMCFMAGANSIFVGDYLTTTGNPEEDKDKKLLAKLGL  296 (296)
T ss_pred             hHHHHHHHhcCceEEEcCcccCCCCCCcHHHHHHHHHcCC
Confidence                             99999999999 99999999997

Catalyzes the last step of the biotin biosynthesis pathway.

>PRK08445 hypothetical protein; Provisional

Probab=99.79  E-value=2.6e-19  Score=146.69  Aligned_cols=94  Identities=18%  Similarity=0.268  Sum_probs=79.3

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccc----cCCCCCCCCC----CCCCHHHHHHHHHHHHHhCCCcc----
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALL----AVKGTPLQDQ----KPVEIWEMIRMIATARIVMPKAM----   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fi----P~~gTple~~----~~~s~~e~lR~iAvaRl~lP~~~----   68 (118)
                      +|+|||||.+||++|+..||+||  ++++||+.|+    +.+||||++.    +++++.++||++|++|++||+..    
T Consensus       202 ~i~G~~Et~edr~~~l~~lreLq--~~~~g~~~fi~~~~~p~~tpl~~~~~~~~~~~~~e~Lr~iAv~Rl~l~~~~~i~a  279 (348)
T PRK08445        202 MMFGTVENDEEIIEHWERIRDLQ--DETGGFRAFILWSFQPDNTPLKEEIPEIKKQSSNRYLRLLAVSRLFLDNFKNIQS  279 (348)
T ss_pred             EEecCCCCHHHHHHHHHHHHHHH--HHhCCeeEEeccccCCCCCcccccCCCCCCCCHHHHHHHHHHHHHhCCCCCCccC
Confidence            58999999999999999999997  8887777776    3599999853    36899999999999999999943    


Q ss_pred             ----------------------------Cccc----CCCCCHHHHHHHHHHcCCCCCCCC
Q 041306           69 ----------------------------KLLT----TPNNNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 ----------------------------~yLT----t~g~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                                  +...    +.+.+.++..+||+++||.|++|+
T Consensus       280 ~~~~~g~~~~~~~L~~Gand~~gt~~~e~i~~~ag~~~~~~~~~~~~~i~~~g~~p~~r~  339 (348)
T PRK08445        280 SWVTQGSYIGQLALLFGANDLGSTMMEENVVKAAGASFRMNQAEMIELIKDIGEIPAKRN  339 (348)
T ss_pred             CCcccCHHHHHHHHhcCCccCccccccccchhccCCCCCCCHHHHHHHHHHcCCCeeeec
Confidence                                        2222    224789999999999999999984

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.78  E-value=7.2e-19  Score=157.82  Aligned_cols=95  Identities=22%  Similarity=0.270  Sum_probs=84.7

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCC---CCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc---------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPT---HPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM---------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~---~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~---------   68 (118)
                      +|||||||.+||++||+.||+||.   +.+++++++|+|++||||++.++++++++||+||++|++||+..         
T Consensus       238 ~L~GiGEt~edRve~L~~LR~Lq~~~g~~~evi~~~F~p~~gT~l~~~~~~s~~e~Lr~iAvaRliL~~~~~Iqa~~~l~  317 (843)
T PRK09234        238 ILIGIGETLAERAESLFAIRKLHREYGHIQEVIVQNFRAKPDTAMAGVPDAGLEELLATIAVARLVLGPKMRIQAPPNLV  317 (843)
T ss_pred             EEEECCCCHHHHHHHHHHHHHhhHhhCCCcEEeecccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCceeeCccccC
Confidence            589999999999999999999974   57899999999999999999999999999999999999998655         


Q ss_pred             ------------------------Cccc--CCCCCHHHHHHHHHHcCCCCCCC
Q 041306           69 ------------------------KLLT--TPNNNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 ------------------------~yLT--t~g~~~~~d~~mI~~~G~~~~~r   95 (118)
                                              ++.+  +...+.++..++|+++||.|++|
T Consensus       318 g~~~~~~~L~~GanD~GG~~~~~~d~~~p~~~~~~~~~l~~~~~~aG~~~~eR  370 (843)
T PRK09234        318 SGDECAALLGAGIDDWGGVSPLTPDHVNPERPWPQLDELAAVTAEAGFTLVER  370 (843)
T ss_pred             CHHHHHHHHhcCCCcccchhhhHhhccCccCCCCCHHHHHHHHHHcCCCcccc
Confidence                                    2222  23357899999999999999998

>PRK05927 hypothetical protein; Provisional

Probab=99.77  E-value=1.2e-18  Score=143.20  Aligned_cols=94  Identities=19%  Similarity=0.137  Sum_probs=80.2

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccC----CCCCCCCCC--CCCHHHHHHHHHHHHHhCCCcc------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAV----KGTPLQDQK--PVEIWEMIRMIATARIVMPKAM------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~----~gTple~~~--~~s~~e~lR~iAvaRl~lP~~~------   68 (118)
                      +|||||||++||++|++.||+||  +++.+|..|||+    +||||++..  +++++++||++|++|++||++.      
T Consensus       205 ~l~G~gEt~e~ri~~l~~Lr~lq--d~~~gf~~fIp~~~~~~~tpl~~~~~~~~s~~e~Lr~iAv~Rl~lp~~~~i~~~w  282 (350)
T PRK05927        205 MMFGHVESPEDILLHLQTLRDAQ--DENPGFYSFIPWSYKPGNTALGRRVPHQASPELYYRILAVARIFLDNFDHIAASW  282 (350)
T ss_pred             eEEeeCCCHHHHHHHHHHHHHhh--HhhCCeeeeeecCcCCCCCccccCCCCCCCHHHHHHHHHHHHHhCCCCCcccCCc
Confidence            58999999999999999999997  778888888997    799998642  6999999999999999999876      


Q ss_pred             --------------------------CcccCC----CCCHHHHHHHHHHcCCCCCCCC
Q 041306           69 --------------------------KLLTTP----NNNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 --------------------------~yLTt~----g~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                                ++-...    +.+.++..++|+++|++|++|.
T Consensus       283 ~~~G~~~~q~~L~~GanDlggt~~~e~v~~~ag~~~~~~~~~l~~~i~~~G~~~~~R~  340 (350)
T PRK05927        283 FGEGKEEGAKGLHYGADDFGGTILDESVHKCTGWDLQSSEEEICAMILSEGFIPVERN  340 (350)
T ss_pred             cccCHHHHHHHHhCCCccccCCCccceeeccCCCCCcCCHHHHHHHHHHcCCCeeeec
Confidence                                      111122    2468999999999999999983

>TIGR00423 radical SAM domain protein, CofH subfamily

Probab=99.76  E-value=2.2e-18  Score=138.05  Aligned_cols=94  Identities=17%  Similarity=0.218  Sum_probs=81.7

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCccccccccc----CCCCC-CCCC--CCCCHHHHHHHHHHHHHhCCCcc-----
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLA----VKGTP-LQDQ--KPVEIWEMIRMIATARIVMPKAM-----   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP----~~gTp-le~~--~~~s~~e~lR~iAvaRl~lP~~~-----   68 (118)
                      +|+|||||.+||++++..|++|+  +++++|+.|+|    .+||| |++.  ++++++++||+||++|++||+..     
T Consensus       165 ~iiG~~Et~ed~~~~l~~lr~l~--~~~~~f~~fiP~~f~~~~t~~l~~~~~~~~~~~e~lr~iA~~Rl~lp~~~~i~a~  242 (309)
T TIGR00423       165 MMFGHVENPEHRVEHLLRIRKIQ--EKTGGFTEFIPLPFQPENNPYLEGEVRKGASGIDDLKVIAISRILLNNIRNIQAS  242 (309)
T ss_pred             EEecCCCCHHHHHHHHHHHHhhc--hhhCCeeeEEeeeecCCCChhhccCCCCCCCHHHHHHHHHHHHHhcCCCccceec
Confidence            48999999999999999999996  89999999999    47999 8875  78999999999999999999755     


Q ss_pred             --------------------------Cccc-CC------CCCHHHHHHHHHHcCCCCCCCC
Q 041306           69 --------------------------KLLT-TP------NNNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 --------------------------~yLT-t~------g~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                                .+.+ .+      .++.++..++|+++|++|++|.
T Consensus       243 ~~~l~~~~~~~~l~~Gand~~gt~~~e~v~~~ag~~~~~~~~~~~l~~~~~~~g~~~~~r~  303 (309)
T TIGR00423       243 WVKLGLKLAQVALEFGANDLGGTLMEENISKAAGAKSGVGLTVEELIEAIKDAGRVPAQRD  303 (309)
T ss_pred             chhcCHHHHHHHHhCCCccCCcccccceeccccCCCCCCCCCHHHHHHHHHHcCCCeeecC
Confidence                                      1122 11      4689999999999999999984

This protein family includes the CofH protein of coenzyme F(420) biosynthesis from Methanocaldococcus jannaschii, but appears to hit genomes more broadly than just the subset that make coenzyme F(420), so that narrower group is being built as a separate family.

>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit

Probab=99.76  E-value=1.9e-18  Score=140.35  Aligned_cols=94  Identities=19%  Similarity=0.144  Sum_probs=80.3

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCC----CCCCCCC----CCCCHHHHHHHHHHHHHhCCCc--c--
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVK----GTPLQDQ----KPVEIWEMIRMIATARIVMPKA--M--   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~----gTple~~----~~~s~~e~lR~iAvaRl~lP~~--~--   68 (118)
                      +|+|||||.+||++++..|++|+  +++++|..|+|++    ||||.+.    ++++++++||+||++|++||+.  .  
T Consensus       199 ~i~G~~Et~ed~~~~l~~lr~l~--~~~~~~~~~iP~~f~~~gT~l~~~~~~~~~~~~~~~lr~iAv~Rl~lp~~~~~i~  276 (343)
T TIGR03551       199 IMYGHVETPEHWVDHLLILREIQ--EETGGFTEFVPLPFVHYNAPLYLKGMARPGPTGREDLKVHAIARILLHGLIDNIQ  276 (343)
T ss_pred             EEEecCCCHHHHHHHHHHHHHhh--HHhCCeeEEEeccccCCCCccccccCCCCCCCHHHHHHHHHHHHHhCCCcccCee
Confidence            58999999999999999999996  8998888888865    9999743    4679999999999999999996  2  


Q ss_pred             -----------------------Cccc------C------CCCCHHHHHHHHHHcCCCCCCCC
Q 041306           69 -----------------------KLLT------T------PNNNFVADQLMFKVLGLTPKAPS   96 (118)
Q Consensus        69 -----------------------~yLT------t------~g~~~~~d~~mI~~~G~~~~~r~   96 (118)
                                             |-++      .      ...+.++.++||+++||+|++|.
T Consensus       277 a~~~~l~~~~~~~~l~~Gan~~~g~~~~e~v~~~~g~~~~~~~~~~~~~~~i~~~g~~~~~r~  339 (343)
T TIGR03551       277 ASWVKLGKKLAQVALRCGANDLGGTLMEESISRAAGASHGEYLSPEELEAIIEDAGRIPKQRT  339 (343)
T ss_pred             ccccccCHHHHHHHHhCCCccCCccceecccccccCCCCCCCCCHHHHHHHHHHcCCCeeecC
Confidence                                   1121      1      35789999999999999999984

This enzyme, together with CofG, complete the biosynthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the chromophore of coenzyme F420. The chromophore is also used in cyanobacteria DNA photolyases.

>PF06968 BATS: Biotin and Thiamin Synthesis associated domain; InterPro: IPR010722 Biotin synthase (BioB), 2

Probab=99.74  E-value=2.2e-18  Score=117.91  Aligned_cols=63  Identities=41%  Similarity=0.631  Sum_probs=52.1

Q ss_pred             cccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc-----------------------------CcccCCC-CCHH
Q 041306           30 PINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM-----------------------------KLLTTPN-NNFV   79 (118)
Q Consensus        30 pin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~-----------------------------~yLTt~g-~~~~   79 (118)
                      |||+|+|++|||+++..+++.++++|+||++|+++|++.                             ||||+.| .+++
T Consensus         1 pin~l~P~~Gtpl~~~~~l~~~e~lr~ia~~Rl~~P~a~I~la~gr~~~~~~~~~~~~~sg~n~~~~G~ylt~~g~~~~~   80 (93)
T PF06968_consen    1 PINFLRPIPGTPLEDPPPLSDEEFLRIIAAFRLLLPEAGIRLAGGREALLRDLQPLTFMSGANSIMVGGYLTTSGNRSVD   80 (93)
T ss_dssp             EEEE----TTSTTTTS----HHHHHHHHHHHHHHSTTSEEEEECCHHHCSCCHHHHHHCCT--EEE-CSBTSSSCTSHHH
T ss_pred             CeeeEEeCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCcceEeecCccccCHHHHHHHHhcccceeEECCccccCCCCCHH
Confidence            799999999999999999999999999999999999977                             9999999 9999


Q ss_pred             HHHHHHHHcCCCC
Q 041306           80 ADQLMFKVLGLTP   92 (118)
Q Consensus        80 ~d~~mI~~~G~~~   92 (118)
                      +|++||+++||+|
T Consensus        81 ~d~~~i~~lG~~P   93 (93)
T PF06968_consen   81 EDIEMIEKLGLEP   93 (93)
T ss_dssp             HHHHHHHHTT-ES
T ss_pred             HHHHHHHHcCCCC
Confidence            9999999999986

8.1.6 from EC, catalyses the last step of the biotin biosynthetic pathway. The reaction consists in the introduction of a sulphur atom into dethiobiotin. BioB functions as a homodimer []. Thiamin synthesis if a complex process involving at least six gene products (ThiFSGH, ThiI and ThiJ). Two of the proteins required for the biosynthesis of the thiazole moiety of thiamine (vitamin B(1)) are ThiG and ThiH (this entry) and form a heterodimer[]. Both of these reactions are thought of involve the binding of co-factors, and both function as dimers [, ]. This domain therefore may be involved in co-factor binding or dimerisation.; GO: 0051536 iron-sulfur cluster binding, 0051186 cofactor metabolic process; PDB: 1R30_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A.

>PRK06267 hypothetical protein; Provisional

Probab=99.74  E-value=7e-18  Score=138.03  Aligned_cols=83  Identities=24%  Similarity=0.337  Sum_probs=78.5

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      +|+|+|||.+|+.+++..|++++  ++++++++|+|.|||||++.+++++++++|+||++|++||++.            
T Consensus       173 ~IiGlgEt~ed~~~~l~~l~~l~--~d~v~~~~L~P~pGTp~~~~~~~s~~e~lr~ia~~Rl~lP~~~I~~~~~~~~l~~  250 (350)
T PRK06267        173 IILGLGETEDDIEKLLNLIEELD--LDRITFYSLNPQKGTIFENKPSVTTLEYMNWVSSVRLNFPKIKIITGTWVDKLTN  250 (350)
T ss_pred             EEEeCCCCHHHHHHHHHHHHHcC--CCEEEEEeeeECCCCcCCCCCCCCHHHHHHHHHHHHHHCCCCCcchhhHhHhcch
Confidence            48999999999999999999996  9999999999999999999999999999999999999999877            


Q ss_pred             -------------------CcccCCCCCHHHHHHHH
Q 041306           69 -------------------KLLTTPNNNFVADQLMF   85 (118)
Q Consensus        69 -------------------~yLTt~g~~~~~d~~mI   85 (118)
                                         +|||+.|+++++|+..-
T Consensus       251 ~~~~~~aGaN~i~~~p~~g~ylt~~g~~~~~~~~~~  286 (350)
T PRK06267        251 IGPLIMSGSNVITKFPLFSMYGTKEGKRVENEIRWT  286 (350)
T ss_pred             hhHHhhcCcceeeccchhccCcccCCCCHHHHHHHh
Confidence                               89999999999998653

>TIGR02351 thiH thiazole biosynthesis protein ThiH

Probab=99.74  E-value=6.3e-18  Score=138.87  Aligned_cols=93  Identities=17%  Similarity=0.185  Sum_probs=86.7

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCC----CCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc--------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPT----HPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM--------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~----~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~--------   68 (118)
                      +|+||||+.+|++++++.|++|++    .+.+||||.|.|++| |++...++++.+++|+||++|+++|+..        
T Consensus       222 ~i~Gl~e~~~d~~~~a~~l~~L~~~~~~~~~sv~~~~l~P~~g-~~~~~~~l~~~~~~~~i~~~R~~~P~~~i~~s~g~~  300 (366)
T TIGR02351       222 ALLGLDDWRTDAFFTAYHLRYLQKKYWKTEISISVPRLRPCTN-GLKPKVIVTDRELVQIICAYRLFDPFVEISLSTRES  300 (366)
T ss_pred             EEEeCchhHHHHHHHHHHHHHHHHHcCCCCccccccccccCCC-CCCCCCcCCHHHHHHHHHHHHHhCcccccEEecCCC
Confidence            589999999999999999999973    137999999999999 9999999999999999999999999987        


Q ss_pred             ------------------------CcccCCC----------CCHHHHHHHHHHcCCCCCC
Q 041306           69 ------------------------KLLTTPN----------NNFVADQLMFKVLGLTPKA   94 (118)
Q Consensus        69 ------------------------~yLTt~g----------~~~~~d~~mI~~~G~~~~~   94 (118)
                                              ||||+.|          +++++|++||+++||+|+-
T Consensus       301 ~~lrd~~~~~~~~~~~a~~~~~~G~y~~~~~~~~qf~~~d~r~~~~~~~~i~~~g~~~~~  360 (366)
T TIGR02351       301 KKFRDNVIPLGITKMSAGSSTEPGGYSSEKKGLEQFEISDERSVAEVEEDLRSKGLQPVW  360 (366)
T ss_pred             HHHHHHHHhhcceeeccCcccCCCCcCCCCCCcCcccCCCCCCHHHHHHHHHHCCCeecc
Confidence                                    9999999          9999999999999999964

Members this protein family are the ThiH protein of thiamine biosynthesis, a homolog of the BioB protein of biotin biosynthesis. Genes for the this protein generally are found in operons with other thiamin biosynthesis genes.

>smart00876 BATS Biotin and Thiamin Synthesis associated domain

Probab=99.71  E-value=2.2e-17  Score=113.02  Aligned_cols=63  Identities=44%  Similarity=0.674  Sum_probs=59.8

Q ss_pred             cccccccCCCCCCCCC-CCCCHHHHHHHHHHHHHhCCCcc-----------------------------C-cccCCCCCH
Q 041306           30 PINALLAVKGTPLQDQ-KPVEIWEMIRMIATARIVMPKAM-----------------------------K-LLTTPNNNF   78 (118)
Q Consensus        30 pin~fiP~~gTple~~-~~~s~~e~lR~iAvaRl~lP~~~-----------------------------~-yLTt~g~~~   78 (118)
                      |||+|+|++||||++. +.++.++++|+||++|+++|++.                             + |||+.|...
T Consensus         1 pin~l~P~~gTp~~~~~~~~~~~~~l~~ia~~Rl~~P~~~I~~~~gr~~~~~~~~~~~l~aGan~~~~G~~~lt~~g~~~   80 (94)
T smart00876        1 PINRLRPIEGTPLEDPPPPVSPEEFLRTIAAARLALPDAGIRLSTGREALLRDLQALCFSAGANSIFGGDKYLTTSGPRS   80 (94)
T ss_pred             CCCccccCCCCCcccCCCCCCHHHHHHHHHHHHHHCCCcceEEecCCchhcchHHHHhhhccCceeeeCCccccCCCcCc
Confidence            7999999999999988 78999999999999999999987                             5 999999999


Q ss_pred             HHHHHHHHHcCCCC
Q 041306           79 VADQLMFKVLGLTP   92 (118)
Q Consensus        79 ~~d~~mI~~~G~~~   92 (118)
                      .+|++||+++||++
T Consensus        81 ~~d~~~i~~~g~~~   94 (94)
T smart00876       81 ADDVAMLEKLGLEP   94 (94)
T ss_pred             HHHHHHHHHcCCCC
Confidence            99999999999975

Biotin synthase (BioB), , catalyses the last step of the biotin biosynthetic pathway. The reaction consists in the introduction of a sulphur atom into dethiobiotin. BioB functions as a homodimer PUBMED:12482614. Thiamin synthesis if a complex process involving at least six gene products (ThiFSGH, ThiI and ThiJ). Two of the proteins required for the biosynthesis of the thiazole moiety of thiamine (vitamin B(1)) are ThiG and ThiH (this entry) and form a heterodimerPUBMED:12650933. Both of these reactions are thought of involve the binding of co-factors, and both function as dimers PUBMED:12482614, PUBMED:12650933. This domain therefore may be involved in co-factor binding or dimerisation.

>PRK06245 cofG FO synthase subunit 1; Reviewed

Probab=99.69  E-value=1.3e-16  Score=128.63  Aligned_cols=95  Identities=25%  Similarity=0.407  Sum_probs=84.9

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCC---CCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc---------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPT---HPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM---------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~---~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~---------   68 (118)
                      .|+|+|||.+|+++++..|++|+.   ++.+++++.|+|.+|||+++.+.++.+++++++|++|++||+..         
T Consensus       173 ~i~G~gEt~ed~~~~l~~l~~l~~~~gg~~~~~~~~f~P~~~T~~~~~~~~s~~e~l~~ia~~Rl~l~~~i~i~~~~~~~  252 (336)
T PRK06245        173 ILIGIGETWEDRAESLEAIAELHERYGHIQEVIIQNFSPKPGIPMENHPEPSLEEMLRVVALARLILPPDISIQVPPNLN  252 (336)
T ss_pred             eeeECCCCHHHHHHHHHHHHHHHHhhCCCcEEecCCCcCCCCCCcccCCCcCHHHHHHHHHHHHHHCCCCceEecCCccc
Confidence            479999999999999999999973   25789999999999999988888899999999999999997532         


Q ss_pred             -----------------------CcccCC--CCCHHHHHHHHHHcCCCCCCC
Q 041306           69 -----------------------KLLTTP--NNNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 -----------------------~yLTt~--g~~~~~d~~mI~~~G~~~~~r   95 (118)
                                             +|+|+.  +.+.+++++||+++|+.|++|
T Consensus       253 ~~~~~~~L~~Gand~~g~~~~~~~~~~~~~~~~~~~~~~~~i~~~g~~~~~r  304 (336)
T PRK06245        253 RDTGLLLLDAGADDLGGISPVTKDYVNPEYPWPDIEELREILEEAGWPLKER  304 (336)
T ss_pred             hHHHHHHHhcCCccccCCccCCCceeCCCCCCCCHHHHHHHHHHcCCCcccc
Confidence                                   577765  579999999999999999998

>PRK09234 fbiC FO synthase; Reviewed

Probab=99.66  E-value=4.6e-16  Score=139.88  Aligned_cols=93  Identities=14%  Similarity=0.108  Sum_probs=79.0

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCccccccccc----CCCCCCC--C--CCCCCHHHHHHHHHHHHHhCCC-cc---
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLA----VKGTPLQ--D--QKPVEIWEMIRMIATARIVMPK-AM---   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP----~~gTple--~--~~~~s~~e~lR~iAvaRl~lP~-~~---   68 (118)
                      +|||||||.+||++|++.||+||  +++.+|..|||    +++||+.  +  .+.+++.++||++|++||+||+ ..   
T Consensus       686 mm~G~~Et~edrv~hl~~LreLq--~~tgGf~~fIPl~F~~~~tpl~l~~~~~~~~t~~e~Lr~iAvaRl~Lp~~i~~Iq  763 (843)
T PRK09234        686 MMYGHVDTPRHWVAHLRVLRDIQ--DRTGGFTEFVPLPFVHQNAPLYLAGAARPGPTHRENRAVHALARIMLHGRIDNIQ  763 (843)
T ss_pred             eEEcCCCCHHHHHHHHHHHHhcC--cccCCeeeeeeccccCCCCCcccccCCCCCCCHHHHHHHHHHHHHhCCCCccccc
Confidence            58999999999999999999997  88888888888    6788873  3  3578999999999999999984 32   


Q ss_pred             -----------------------Cccc----------CC--CCCHHHHHHHHHHcCCCCCCC
Q 041306           69 -----------------------KLLT----------TP--NNNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 -----------------------~yLT----------t~--g~~~~~d~~mI~~~G~~~~~r   95 (118)
                                             |+|+          +.  .++.++..++|+++|+.|++|
T Consensus       764 a~wv~lg~~~~q~~L~~GaNDlgGtl~ee~i~~~aG~~~~~~~~~~~l~~~i~~aG~~p~~R  825 (843)
T PRK09234        764 TSWVKLGVEGTRAMLRGGANDLGGTLMEETISRMAGSEHGSAKTVAELEAIAEGAGRPARQR  825 (843)
T ss_pred             chhhhcCHHHHHHHHhcCCcCcccccccceeeeccCCCCCCCCCHHHHHHHHHHcCCCeeee
Confidence                                   3332          22  368999999999999999998

>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed

Probab=99.55  E-value=2.1e-14  Score=122.32  Aligned_cols=93  Identities=17%  Similarity=0.248  Sum_probs=81.9

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCC----CCCCcccccccccCCCCCCCCCC-CCCHHHHHHHHHHHHHhCCCcc-------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLP----THPESVPINALLAVKGTPLQDQK-PVEIWEMIRMIATARIVMPKAM-------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~----~~~~svpin~fiP~~gTple~~~-~~s~~e~lR~iAvaRl~lP~~~-------   68 (118)
                      +|+||||+.+|+++++..++.|+    .+|++|+|+.|.|.+||||++.+ ++|.++++|+||++|+++|...       
T Consensus       240 ~L~GLge~~~E~~~l~~hl~~L~~~~gvgp~tIsvprl~P~~Gtpl~~~~~~vsd~e~lriiA~~RL~~P~~~I~lStRE  319 (469)
T PRK09613        240 VLFGLYDYKFEVLGLLMHAEHLEERFGVGPHTISVPRLRPADGSDLENFPYLVSDEDFKKIVAILRLAVPYTGMILSTRE  319 (469)
T ss_pred             EEEcCCCCHHHHHHHHHHHHHHHHhhCCCCccccccceecCCCCCcccCCCCCCHHHHHHHHHHHHHHCCCCCceeecCC
Confidence            58999999999999999999993    34899999999999999998776 6899999999999999999875       


Q ss_pred             -------------------------CcccC------------CCCCHHHHHHHHHHcCCCCC
Q 041306           69 -------------------------KLLTT------------PNNNFVADQLMFKVLGLTPK   93 (118)
Q Consensus        69 -------------------------~yLTt------------~g~~~~~d~~mI~~~G~~~~   93 (118)
                                               +|-..            ..++.++.+++|.+.|+.|+
T Consensus       320 ~~~~r~~~~~~gvt~~sags~t~~ggy~~~~~~~~~~QF~~~d~r~~~ev~~~l~~~g~~p~  381 (469)
T PRK09613        320 SAELRREVLELGVSQISAGSRTGVGGYSEEEEEEEKAQFELGDHRSLDEVIRELCEMGYIPS  381 (469)
T ss_pred             CHHHHHHHHhhcceeecccccCCCCCcCCCCCCCCCCCccCCCCCCHHHHHHHHHHCCCeEE
Confidence                                     55432            22699999999999999996

>PRK07094 biotin synthase; Provisional

Probab=99.53  E-value=4.9e-14  Score=112.71  Aligned_cols=66  Identities=26%  Similarity=0.398  Sum_probs=62.8

Q ss_pred             Ceeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc
Q 041306            1 GIIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM   68 (118)
Q Consensus         1 gI~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~   68 (118)
                      .|+|+ |||.+|+++++..+++++  +++++++.|+|.|||||.+.++++.++++|++|++|+++|+..
T Consensus       185 ~iiGlpget~ed~~~~l~~l~~l~--~~~v~~~~~~P~pgTpl~~~~~~~~~~~~~~~a~~R~~lp~~~  251 (323)
T PRK07094        185 FMVGLPGQTLEDLADDILFLKELD--LDMIGIGPFIPHPDTPLKDEKGGSLELTLKVLALLRLLLPDAN  251 (323)
T ss_pred             EEEECCCCCHHHHHHHHHHHHhCC--CCeeeeeccccCCCCCcccCCCCCHHHHHHHHHHHHHhCcCCC
Confidence            38999 999999999999999996  9999999999999999999998999999999999999999855

>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]

Probab=99.46  E-value=2.2e-13  Score=113.25  Aligned_cols=95  Identities=20%  Similarity=0.269  Sum_probs=77.9

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccC-----CCC-CCCCCCCCCHHHHHHHHHHHHHhCCCcc------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAV-----KGT-PLQDQKPVEIWEMIRMIATARIVMPKAM------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~-----~gT-ple~~~~~s~~e~lR~iAvaRl~lP~~~------   68 (118)
                      +++|+|||.+||++||..||+||  .++.+|+.|||.     .++ ++...++.++.++|++||++|++|++..      
T Consensus       219 ml~Gh~E~~ed~~~hl~~ir~lQ--~~~gg~~~fI~~~f~p~~~~~~~~~~~~~~~~~~l~~iAiaRi~l~~~i~~~~a~  296 (370)
T COG1060         219 MLLGHVETREDRIDHLEHIRDLQ--DETGGFQEFIPLRFRPENGPLPAEVVPEASLEQDLKAIALARIFLDNNISNIQAS  296 (370)
T ss_pred             eEEEecCCHHHHHHHHHHHHHHH--HHhCCcEEEEcccccCCCCCccccCCCCCCHHHHHHHHHHHHHHccCccccccCc
Confidence            57999999999999999999998  677777777773     444 6777778899999999999999999443      


Q ss_pred             ---------------------------Cccc------CCCCCHHHHHHHHHHcCCCCCCCCC
Q 041306           69 ---------------------------KLLT------TPNNNFVADQLMFKVLGLTPKAPSF   97 (118)
Q Consensus        69 ---------------------------~yLT------t~g~~~~~d~~mI~~~G~~~~~r~~   97 (118)
                                                 +...      ..+++.++..++|+++||.|+.|+.
T Consensus       297 w~~~g~~~~~~~l~~GanD~ggt~~~E~v~~~a~~~~~~~~~~eel~~~i~~aG~~p~~Rdt  358 (370)
T COG1060         297 WLRDGVILAQAALLSGANDLGGTGYEEKVNPAAGAFSGDWRSVEELAALIKEAGRIPVERDT  358 (370)
T ss_pred             ccccchHHHHHHHHhCcccCcCCCcccccccccccccCCCCCHHHHHHHHHHcCCCeeeecc
Confidence                                       1122      2247899999999999999999843

>TIGR00510 lipA lipoate synthase

Probab=98.36  E-value=6.9e-07  Score=72.66  Aligned_cols=58  Identities=22%  Similarity=0.300  Sum_probs=51.4

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCccccccccc--CCCCCCCCCCCCCHHHHHHHHHHH
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLA--VKGTPLQDQKPVEIWEMIRMIATA   60 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP--~~gTple~~~~~s~~e~lR~iAva   60 (118)
                      .|+|||||.+|+++++..|++++  ++.++|+.|..  .+++|+.....+...+.+|.+|+.
T Consensus       213 iIVGlGETeee~~etl~~Lrelg--~d~v~igqYl~p~~~~~~v~~~~~p~~f~~~~~~a~~  272 (302)
T TIGR00510       213 IMVGLGETNEEIKQTLKDLRDHG--VTMVTLGQYLRPSRRHLPVKRYVSPEEFDYYRSVALE  272 (302)
T ss_pred             EEEECCCCHHHHHHHHHHHHhcC--CCEEEeecccCCCCCCCccccCCCHHHHHHHHHHHHH
Confidence            48999999999999999999996  99999987754  589999999888888899988764

The family shows strong sequence conservation.

>TIGR01212 radical SAM protein, TIGR01212 family

Probab=98.35  E-value=1.1e-06  Score=70.73  Aligned_cols=84  Identities=21%  Similarity=0.258  Sum_probs=66.3

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC------CCCCHHHHHHHHHHHHHhCCCcc------
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ------KPVEIWEMIRMIATARIVMPKAM------   68 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~------~~~s~~e~lR~iAvaRl~lP~~~------   68 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.++.|.|.|||||...      .+++.++++..++.+...+|...      
T Consensus       184 I~GlPget~e~~~~t~~~l~~l~--~d~i~i~~l~~~pgT~L~~~~~~g~~~~~~~~e~~~~~~~~l~~l~~~~~i~Rl~  261 (302)
T TIGR01212       184 ILGLPGEDREEMMETAKIVSLLD--VDGIKIHPLHVVKGTKMAKMYEKGELKTLSLEEYISLACDFLEHLPPEVVIHRIS  261 (302)
T ss_pred             EECCCCCCHHHHHHHHHHHHhcC--CCEEEEEEEEecCCCHHHHHHHcCCCCCCCHHHHHHHHHHHHHhCCcCeEEEEec
Confidence            8999 999999999999999996  99999999999999999764      56889998988888877776532      


Q ss_pred             ----CcccCCC---CCHHHHHHHHHH
Q 041306           69 ----KLLTTPN---NNFVADQLMFKV   87 (118)
Q Consensus        69 ----~yLTt~g---~~~~~d~~mI~~   87 (118)
                          +++.-.|   .+..+.++.|.+
T Consensus       262 ~~~~~~~~l~~~~~~~k~~~l~~i~~  287 (302)
T TIGR01212       262 GDAPRETLIAPEWCKNKWEIMNKISE  287 (302)
T ss_pred             CCCCccceEcccccccHHHHHHHHHH
Confidence                4444444   355555555543

This uncharacterized protein family shows significant similarity to TIGR01211, a longer protein that is a histone acetyltransferase at its C-terminus and is a subunit of RNA polymerase II (in yeast). This family lacks the GNAT acetyltransferase domain.

>PTZ00413 lipoate synthase; Provisional

Probab=98.26  E-value=1.1e-06  Score=74.11  Aligned_cols=43  Identities=28%  Similarity=0.318  Sum_probs=35.1

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccc-cccccCC-CCCCCCC
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPI-NALLAVK-GTPLQDQ   45 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpi-n~fiP~~-gTple~~   45 (118)
                      +|+|||||.+|+++++..|++++  +++++| |.+.|.+ .-|....
T Consensus       301 iIVGLGET~eEvie~m~dLrelG--VDivtIGQYL~Ps~~h~~V~~y  345 (398)
T PTZ00413        301 IMLGLGETEEEVRQTLRDLRTAG--VSAVTLGQYLQPTKTRLKVSRY  345 (398)
T ss_pred             eEecCCCCHHHHHHHHHHHHHcC--CcEEeeccccCCCcccCCceec
Confidence            69999999999999999999996  999999 6667743 3344333

>PRK12928 lipoyl synthase; Provisional

Probab=98.24  E-value=1.5e-06  Score=70.12  Aligned_cols=57  Identities=26%  Similarity=0.387  Sum_probs=49.3

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCccccccccc--CCCCCCCCCCCCCHHHHHHHHHH
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLA--VKGTPLQDQKPVEIWEMIRMIAT   59 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP--~~gTple~~~~~s~~e~lR~iAv   59 (118)
                      .|+|+|||.+|+++++..|++++  ++.++++.|.+  .++.|+...-.+...+.++.+|.
T Consensus       210 iIvG~GET~ed~~etl~~Lrel~--~d~v~i~~Yl~p~~~~~~v~~~~~~~~f~~~~~~~~  268 (290)
T PRK12928        210 LMLGLGETEDEVIETLRDLRAVG--CDRLTIGQYLRPSLAHLPVQRYWTPEEFEALGQIAR  268 (290)
T ss_pred             EEEeCCCCHHHHHHHHHHHHhcC--CCEEEEEcCCCCCccCCceeeccCHHHHHHHHHHHH
Confidence            48999999999999999999997  99999988877  57888888776677777777766

>COG2516 Biotin synthase-related enzyme [General function prediction only]

Probab=98.01  E-value=1.3e-05  Score=66.22  Aligned_cols=63  Identities=29%  Similarity=0.446  Sum_probs=56.3

Q ss_pred             eeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc
Q 041306            2 IIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM   68 (118)
Q Consensus         2 I~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~   68 (118)
                      |+|+|||+.|.++.+...++.+   --+-+.+|.|.+||.|++..+++.+ ..|-+++||+++.+..
T Consensus       194 iVglGesD~~~ve~~~~v~~~g---~~v~Lfaf~P~~gt~me~r~~~pve-~Yrk~q~a~yli~~G~  256 (339)
T COG2516         194 IVGLGESDKDIVETIKRVRKRG---GIVSLFAFTPLKGTQMENRKPPPVE-RYRKIQVARYLIGNGE  256 (339)
T ss_pred             EeccCCchHHHHHHHHHHHhcC---ceEEEEEecccccccccCCCCCcHH-HHHHHHHHHHHHhcCc
Confidence            7999999999999999999995   7899999999999999999986665 5577799999988765

>PRK05481 lipoyl synthase; Provisional

Probab=97.79  E-value=4e-05  Score=61.66  Aligned_cols=34  Identities=24%  Similarity=0.450  Sum_probs=32.5

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCccccccccc
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLA   36 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP   36 (118)
                      .|+|+|||.+|+++++..|++++  ++.++++.|.|
T Consensus       202 ~IvGfGET~ed~~~tl~~lrel~--~d~v~if~Ys~  235 (289)
T PRK05481        202 LMVGLGETDEEVLEVMDDLRAAG--VDILTIGQYLQ  235 (289)
T ss_pred             eEEECCCCHHHHHHHHHHHHhcC--CCEEEEEccCC
Confidence            48999999999999999999996  99999999999

>PLN02428 lipoic acid synthase

Probab=97.67  E-value=5.7e-05  Score=62.84  Aligned_cols=33  Identities=27%  Similarity=0.438  Sum_probs=29.9

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccc
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALL   35 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fi   35 (118)
                      .|+|||||.+|+++++..|++++  ++.++|..|+
T Consensus       253 ~MvGLGET~Edv~e~l~~Lrelg--vd~vtigqyL  285 (349)
T PLN02428        253 IMLGLGETDEEVVQTMEDLRAAG--VDVVTFGQYL  285 (349)
T ss_pred             EEEecCCCHHHHHHHHHHHHHcC--CCEEeecccc
Confidence            48999999999999999999996  9999995554

>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]

Probab=97.66  E-value=0.00029  Score=56.44  Aligned_cols=79  Identities=16%  Similarity=0.252  Sum_probs=64.5

Q ss_pred             HHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc--CcccCCCCCHHHHHHHHHHcCCC
Q 041306           14 GLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM--KLLTTPNNNFVADQLMFKVLGLT   91 (118)
Q Consensus        14 e~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~--~yLTt~g~~~~~d~~mI~~~G~~   91 (118)
                      +.+.-|.+.  .++.+-++.|+|.+||.|++.++++++|.++.+.-||-.+||-.  |-....|...-+.-+-...+|..
T Consensus       170 kaIdiL~~~--~~DalVl~vliPtpGtkm~~~~pp~~eE~i~v~~~AR~~f~~pv~iGCmrP~Ge~rvk~d~~av~~gVd  247 (275)
T COG1856         170 KAIDILVNY--EPDALVLVVLIPTPGTKMGNSPPPPVEEAIKVVKYARKKFPNPVSIGCMRPRGEWRVKLDKEAVLAGVD  247 (275)
T ss_pred             HHHHHHhcC--CCCeEEEEEEecCCchhccCCCCcCHHHHHHHHHHHHHhCCCCeeEeecCcCchhHHHHHHHHHHcCCc
Confidence            334445555  48999999999999999999999999999999999999999922  66667777777777777888876


Q ss_pred             CCC
Q 041306           92 PKA   94 (118)
Q Consensus        92 ~~~   94 (118)
                      ...
T Consensus       248 ~It  250 (275)
T COG1856         248 RIT  250 (275)
T ss_pred             eee
Confidence            654

>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type

Probab=97.63  E-value=0.00017  Score=60.48  Aligned_cols=48  Identities=25%  Similarity=0.396  Sum_probs=43.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIW   51 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~   51 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+...+..+..
T Consensus       291 IvG~PgET~ed~~~t~~~~~~~~--~~~i~~~~~~p~pGT~~~~~~~v~~~  339 (420)
T TIGR01578       291 IVGFPTETDDDFEETMELLRKYR--PEKINITKFSPRPGTPAAKMKRIPTN  339 (420)
T ss_pred             EEeCCCCCHHHHHHHHHHHHHhC--CCEEEEEEeeCCCCCcccCCCCCCHH
Confidence            8999 999999999999999995  89999999999999999887765544

This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model.

>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme

Probab=97.62  E-value=0.00017  Score=59.95  Aligned_cols=55  Identities=27%  Similarity=0.273  Sum_probs=46.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHHHHHHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWEMIRMIA   58 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e~lR~iA   58 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+...+ ..+....-+-+.
T Consensus       296 IvG~PgET~ed~~~tl~~i~~~~--~~~~~~~~~sp~pGT~~~~~~~~v~~~~~~~r~~  352 (414)
T TIGR01579       296 IVGFPGESEEDFQETLRMVKEIE--FSHLHIFPYSARPGTPASTMKDKVPETIKKERVK  352 (414)
T ss_pred             EEECCCCCHHHHHHHHHHHHhCC--CCEEEeeecCCCCCCchhhCCCCCCHHHHHHHHH
Confidence            8999 999999999999999996  899999999999999998876 556655443333

This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.47  E-value=0.00034  Score=58.83  Aligned_cols=49  Identities=27%  Similarity=0.158  Sum_probs=43.1

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e   52 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+...+ ..+..+
T Consensus       303 IvG~PgET~ed~~~tl~~l~~l~--~~~i~~f~~sp~pGT~~~~~~~~~~~~~  353 (437)
T PRK14331        303 IVGFPTETEEDFEETLDVLKKVE--FEQVFSFKYSPRPGTPAAYMEGQEPDEV  353 (437)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--cceeeeeEecCCCCcchhhCCCCCCHHH
Confidence            7998 999999999999999996  888999999999999998876 445544

>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.47  E-value=0.00036  Score=58.63  Aligned_cols=51  Identities=22%  Similarity=0.188  Sum_probs=44.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWEMI   54 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e~l   54 (118)
                      |+|+ |||.++..+.+..+++++  ++.+.++.|.|.||||+...+ ..+....-
T Consensus       307 IvG~PgET~ed~~~tl~~i~~~~--~~~~~~~~~sp~pGT~~~~~~~~v~~~~~~  359 (444)
T PRK14325        307 IVGFPGETDEDFEATMKLIEDVG--FDQSFSFIYSPRPGTPAADLPDDVPEEVKK  359 (444)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCeeeeeeccCCCCCchhhCCCCCCHHHHH
Confidence            7999 999999999999999996  899999999999999998876 55555433

>TIGR00089 RNA modification enzyme, MiaB family

Probab=97.43  E-value=0.00044  Score=57.77  Aligned_cols=49  Identities=29%  Similarity=0.293  Sum_probs=43.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e   52 (118)
                      |+|+ |||.++..+.+..+++++  ++.+.++.|.|.||||+...+ ..+...
T Consensus       297 IvG~PgET~ed~~~tl~~i~~~~--~~~~~~~~~sp~pgT~~~~~~~~v~~~~  347 (429)
T TIGR00089       297 IVGFPGETEEDFEETLDLVEEVK--FDKLHSFIYSPRPGTPAADMKDQVPEEV  347 (429)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCEeeccccCCCCCCchhhCCCCCCHHH
Confidence            8999 999999999999999996  899999999999999999776 445444

This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.34  E-value=0.00059  Score=57.64  Aligned_cols=49  Identities=20%  Similarity=0.208  Sum_probs=42.8

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e   52 (118)
                      |+|+ |||.+|-.+.+..+++++  ++.+.++.|.|.||||+.... ..+...
T Consensus       313 IvGfPgET~edf~~tl~~l~~~~--~~~~~~~~~sp~pGT~~~~~~~~v~~~~  363 (448)
T PRK14333        313 IVGFPGETEAQFENTLKLVEEIG--FDQLNTAAYSPRPGTPAALWDNQLSEEV  363 (448)
T ss_pred             EEECCCCCHHHHHHHHHHHHHcC--CCEEeeeeeecCCCCchhhCCCCCCHHH
Confidence            8998 999999999999999996  899999999999999987764 444444

>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125

Probab=97.30  E-value=0.00078  Score=56.43  Aligned_cols=50  Identities=24%  Similarity=0.161  Sum_probs=44.0

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWEM   53 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e~   53 (118)
                      |+|+ |||.++..+.+..+++++  ++.+-++.|.|.||||+...+ ..++.+.
T Consensus       293 I~G~PgET~e~~~~t~~fl~~~~--~~~~~~~~~sp~pGT~~~~~~~~i~~~~~  344 (430)
T TIGR01125       293 IVGFPGETEEDFQELLDFVEEGQ--FDRLGAFTYSPEEGTDAFALPDQVPEEVK  344 (430)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCEEeeeeccCCCCCccccCCCCCCHHHH
Confidence            7999 999999999999999995  899999999999999997765 4665544

This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.

>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.30  E-value=0.00067  Score=57.10  Aligned_cols=48  Identities=29%  Similarity=0.277  Sum_probs=42.4

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIW   51 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~   51 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+...+ .++.+
T Consensus       305 IvG~PgET~ed~~~tl~~i~~l~--~~~~~~~~~sp~pGT~~~~~~~~v~~~  354 (439)
T PRK14328        305 IVGFPGETEEDFEETLDLVKEVR--YDSAFTFIYSKRKGTPAAKMEDQVPED  354 (439)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCcccceEecCCCCChhhhCCCCCCHH
Confidence            8998 999999999999999995  899999999999999998765 44443

>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.29  E-value=0.00073  Score=57.32  Aligned_cols=49  Identities=27%  Similarity=0.263  Sum_probs=43.8

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e   52 (118)
                      |+|+ |||.+|.-+.+..+++++  ++.+.++.|.|.||||+.+.+ .++...
T Consensus       316 IvGfPgET~edf~~Tl~~i~~l~--~~~~~~~~~sp~pGT~~~~~~~~v~~~~  366 (455)
T PRK14335        316 LIGFPGETEEDFEQTLDLMREVE--FDSAFMYHYNPREGTPAYDFPDRIPDEV  366 (455)
T ss_pred             EEeCCCCCHHHHHHHHHHHHhcC--CCeEEEEEecCCCCCchhhCCCCCCHHH
Confidence            8998 999999999999999996  899999999999999998876 455544

>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB

Probab=97.27  E-value=0.00083  Score=56.54  Aligned_cols=49  Identities=29%  Similarity=0.255  Sum_probs=42.9

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e   52 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+.+.+ ..+...
T Consensus       305 IvG~PgEt~ed~~~tl~~i~~~~--~~~~~~~~~sp~pGT~~~~~~~~v~~~~  355 (438)
T TIGR01574       305 IVGFPGETEEDFEETLDLLREVE--FDSAFSFIYSPRPGTPAADMPDQIPEEI  355 (438)
T ss_pred             EEeCCCCCHHHHHHHHHHHHhcC--CCeeeeEEecCCCCCchhhCCCCCCHHH
Confidence            8999 999999999999999995  889999999999999999876 334443

Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme.

>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.24  E-value=0.00096  Score=56.06  Aligned_cols=49  Identities=20%  Similarity=0.142  Sum_probs=42.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e   52 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+.+.+ ..+...
T Consensus       288 IvGfPgETeedf~~Tl~fl~~l~--~~~~~~f~~sp~pGT~a~~~~~~v~~~~  338 (420)
T PRK14339        288 IVGFPGESDKDFEDTMDVLEKVR--FEQIFSFKYSPRPLTEAAAWKNQVDEEV  338 (420)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCEEeeEecCCCCCCchhhCCCCCCHHH
Confidence            8999 999999999999999995  788899999999999988765 455543

>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM

Probab=97.24  E-value=0.00029  Score=50.52  Aligned_cols=52  Identities=38%  Similarity=0.472  Sum_probs=43.1

Q ss_pred             eeecC-CCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC----CCCHHHHHH
Q 041306            2 IIGLG-EAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK----PVEIWEMIR   55 (118)
Q Consensus         2 I~GlG-ET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~----~~s~~e~lR   55 (118)
                      |+|++ ++.++..+.+..+++++  ++.+.++.|+|.+|||+...+    +++.+++++
T Consensus       158 ~~g~~~~~~~~~~~~~~~~~~~~--~~~i~~~~~~p~~~t~~~~~~~~~~~~~~~~~~~  214 (216)
T smart00729      158 IVGLPGETEEDFEETLKLLKELG--PDRVSIFPLSPRPGTPLAKLYKRLKPPDKEERLE  214 (216)
T ss_pred             EecCCCCCHHHHHHHHHHHHHcC--CCeEEeeeeeeCCCChHHHhcccCCCCChhhhhh
Confidence            57885 99999999999999996  999999999999999998765    345554443

This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.

>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional

Probab=97.16  E-value=0.0013  Score=55.66  Aligned_cols=53  Identities=28%  Similarity=0.231  Sum_probs=44.9

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHHHHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWEMIRM   56 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e~lR~   56 (118)
                      |+|+ |||.++.-+.+..+++++  .+.+.++.|.|.||||....+ .+++.+..+-
T Consensus       304 IvGfPgET~edf~~tl~fi~e~~--~d~~~~f~ysP~pGT~a~~~~~~v~~~~~~~r  358 (440)
T PRK14862        304 IVGFPGETEEDFQMLLDFLKEAQ--LDRVGCFKYSPVEGATANDLPDQVPEEVKEER  358 (440)
T ss_pred             EEECCCCCHHHHHHHHHHHHHcC--CCeeeeEeecCCCCCchhhCCCCCCHHHHHHH
Confidence            8998 999999999999999995  899999999999999986544 5666654443

>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.15  E-value=0.0014  Score=55.35  Aligned_cols=49  Identities=27%  Similarity=0.152  Sum_probs=43.3

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e   52 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+-++.|.|.||||....+ ..+...
T Consensus       307 IvG~PgET~ed~~~tl~~l~~~~--~~~~~~f~ysp~pgT~a~~~~~~v~~~v  357 (446)
T PRK14337        307 IVGFPGETEEDFEQTLEAMRTVG--FASSFSFCYSDRPGTRAEMLPGKVPEEV  357 (446)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCeeEEEecCCCCCCccccCCCCCCHHH
Confidence            8999 999999999999999996  899999999999999998876 355544

>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.13  E-value=0.0011  Score=55.90  Aligned_cols=50  Identities=24%  Similarity=0.194  Sum_probs=43.2

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWEM   53 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e~   53 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+.... ..++++.
T Consensus       295 IvG~PgEt~ed~~~tl~~i~~l~--~~~i~~f~ysp~pGT~~~~~~~~v~~~~~  346 (440)
T PRK14334        295 IVGFPGETEEDFQETLSLYDEVG--YDSAYMFIYSPRPGTPSYKHFQDLPREVK  346 (440)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCEeeeeEeeCCCCChhHhccCCCCHHHH
Confidence            7899 999999999999999996  999999999999999996643 4555544

>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.10  E-value=0.00093  Score=56.11  Aligned_cols=41  Identities=22%  Similarity=0.261  Sum_probs=39.2

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD   44 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~   44 (118)
                      |+|+ |||.++..+.+..+++++  ++.+.++.|.|.||||+.+
T Consensus       298 IvGfPgET~edf~~tl~fi~~~~--~~~~~~~~~sp~pGT~~~~  339 (434)
T PRK14330        298 IVGFPTETEEDFMETVDLVEKAQ--FERLNLAIYSPREGTVAWK  339 (434)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCEEeeeeccCCCCChhhh
Confidence            8999 999999999999999996  9999999999999999977

>PRK07379 coproporphyrinogen III oxidase; Provisional

Probab=97.09  E-value=0.00094  Score=55.72  Aligned_cols=64  Identities=23%  Similarity=0.219  Sum_probs=55.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC------CCCCHHHHHHHHHHHHHhCCCc
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ------KPVEIWEMIRMIATARIVMPKA   67 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~------~~~s~~e~lR~iAvaRl~lP~~   67 (118)
                      |+|+ |||.++..+.+..+.+++  |+.|.+..|+|.|||||...      ..++.++..++...++-+|...
T Consensus       173 I~GlPgqt~e~~~~tl~~~~~l~--p~~is~y~L~~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~~  243 (400)
T PRK07379        173 ISGLPHQTLEDWQASLEAAIALN--PTHLSCYDLVLEPGTAFGKQYQPGKAPLPSDETTAAMYRLAQEILTQA  243 (400)
T ss_pred             ecCCCCCCHHHHHHHHHHHHcCC--CCEEEEecceecCCchhHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHc
Confidence            8999 999999999999999995  99999999999999998643      2467788888888888888643

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.06  E-value=0.00097  Score=56.82  Aligned_cols=49  Identities=20%  Similarity=0.102  Sum_probs=42.2

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC-CC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD-QK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~-~~-~~s~~e   52 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+.. .+ .++.+.
T Consensus       331 IvGfPgET~edf~~tl~~i~~l~--~~~~~v~~~sp~pGT~~~~~~~~~v~~~~  382 (467)
T PRK14329        331 IAGFPTETEEDHQDTLSLMEEVG--YDFAFMFKYSERPGTYAARKLEDDVPEEV  382 (467)
T ss_pred             EEeCCCCCHHHHHHHHHHHHhhC--CCeEeeeEecCCCCChhhhhCCCCCCHHH
Confidence            8998 999999999999999995  8999999999999999985 43 344443

>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase

Probab=97.04  E-value=0.0012  Score=53.95  Aligned_cols=63  Identities=14%  Similarity=0.076  Sum_probs=53.6

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC--CCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK--PVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~--~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.+..|+|.+|||+....  .++.++..++...++-+|..
T Consensus       158 i~GlPgqt~~~~~~~l~~~~~l~--~~~is~y~l~~~~gT~~~~~~~~~~~~~~~~~~~~~~~~~L~~  223 (360)
T TIGR00539       158 MYGLPLQTLNSLKEELKLAKELP--INHLSAYALSVEPNTNFEKNAKKLPDDDSCAHFDEVVREILEG  223 (360)
T ss_pred             cCCCCCCCHHHHHHHHHHHHccC--CCEEEeecceEcCCChhhhhhhcCcCHHHHHHHHHHHHHHHHH
Confidence            7899 999999999999999996  999999999999999997643  35677777887777777643

Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo.

>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.02  E-value=0.0019  Score=54.89  Aligned_cols=43  Identities=28%  Similarity=0.311  Sum_probs=40.0

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK   46 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~   46 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+-++.|.|.||||+...+
T Consensus       313 IvG~PgET~ed~~~ti~~l~~l~--~~~v~i~~ysp~pGT~~~~~~  356 (459)
T PRK14338        313 IVGHPGETEEQFQRTYDLLEEIR--FDKVHIAAYSPRPGTLAAEME  356 (459)
T ss_pred             EEECCCCCHHHHHHHHHHHHHcC--CCEeEEEecCCCCCChhhhCc
Confidence            7899 999999999999999996  899999999999999998765

>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=97.00  E-value=0.0019  Score=54.83  Aligned_cols=47  Identities=26%  Similarity=0.220  Sum_probs=41.6

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC-CC-CCCH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD-QK-PVEI   50 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~-~~-~~s~   50 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+.. .+ ..+.
T Consensus       306 IvGfPgET~edf~~tl~~~~~~~--~~~~~~f~~sp~pGT~~~~~~~~~v~~  355 (445)
T PRK14340        306 IAGFCGETEEDHRATLSLMEEVR--FDSAFMFYYSVRPGTLAARTLPDDVPE  355 (445)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCEEeeEEecCCCCChhhhhCCCCCCH
Confidence            8999 999999999999999996  8999999999999999984 43 4553

>PRK08207 coproporphyrinogen III oxidase; Provisional

Probab=96.98  E-value=0.0016  Score=56.15  Aligned_cols=63  Identities=29%  Similarity=0.404  Sum_probs=55.0

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC----CCCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ----KPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~----~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |||.++..+.+..+.+|+  |+.+.++.+.|.+||+|...    ..++.++..++...++-.+..
T Consensus       327 I~GLPgEt~ed~~~tl~~l~~L~--pd~isv~~L~i~~gT~l~~~~~~~~~~~~~~~~~m~~~a~~~l~~  394 (488)
T PRK08207        327 IIGLPGEGLEEVKHTLEEIEKLN--PESLTVHTLAIKRASRLTENKEKYKVADREEIEKMMEEAEEWAKE  394 (488)
T ss_pred             EeCCCCCCHHHHHHHHHHHHhcC--cCEEEEEeceEcCCChHHHhcCcCCCcCHHHHHHHHHHHHHHHHH
Confidence            7999 999999999999999995  99999999999999999642    346778888898888887753

>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=96.97  E-value=0.00097  Score=57.79  Aligned_cols=47  Identities=21%  Similarity=0.239  Sum_probs=41.7

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEI   50 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~   50 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+...+ ..+.
T Consensus       370 IvGfPgET~edf~~Tl~~v~~l~--~d~~~~f~ysprpGT~a~~~~~~vp~  418 (509)
T PRK14327        370 IVGFPNETDEQFEETLSLYREVG--FDHAYTFIYSPREGTPAAKMKDNVPM  418 (509)
T ss_pred             EEeCCCCCHHHHHHHHHHHHHcC--CCeEEEeeeeCCCCCchHhCcCCCCH
Confidence            7999 999999999999999996  899999999999999998765 3444

>PRK05799 coproporphyrinogen III oxidase; Provisional

Probab=96.95  E-value=0.0018  Score=53.07  Aligned_cols=63  Identities=24%  Similarity=0.301  Sum_probs=53.3

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC------CCCCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD------QKPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~------~~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.+..|.|.||||+..      ...++.++..++...++-+|..
T Consensus       157 i~GlPgqt~e~~~~~l~~~~~l~--~~~is~y~l~~~pgT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~~  226 (374)
T PRK05799        157 MFGLPNQTLEDWKETLEKVVELN--PEHISCYSLIIEEGTPFYNLYENGKLKLPDEEEEREMYHYTIEFLKE  226 (374)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcC--CCEEEEeccEecCCCHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHH
Confidence            7899 999999999999999996  9999999999999999853      2345677778888888777754

>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=96.85  E-value=0.0031  Score=52.96  Aligned_cols=48  Identities=19%  Similarity=0.205  Sum_probs=41.7

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC-CC-CCCHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD-QK-PVEIW   51 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~-~~-~~s~~   51 (118)
                      |+|+ |||.++-.+.+..+++++  ++.+.++.|.|.||||+.. .+ ..+..
T Consensus       282 IvGfPGET~edf~~tl~fi~~~~--~~~~~v~~ysp~pGT~a~~~~~~~v~~~  332 (418)
T PRK14336        282 IVGFPSETEEQFNQSYKLMADIG--YDAIHVAAYSPRPQTVAARDMADDVPVI  332 (418)
T ss_pred             EEECCCCCHHHHHHHHHHHHhcC--CCEEEeeecCCCCCChhHhhCccCCCHH
Confidence            8998 999999999999999995  8999999999999999974 43 45443

>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ

Probab=96.82  E-value=0.00093  Score=56.46  Aligned_cols=40  Identities=28%  Similarity=0.419  Sum_probs=37.6

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQ   43 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple   43 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.++.|+|.|||||.
T Consensus       344 IiGlPget~e~~~~ti~~~~~l~--~~~~~~~~l~P~PGT~l~  384 (472)
T TIGR03471       344 ILGLPGETRETIRKTIDFAKELN--PHTIQVSLAAPYPGTELY  384 (472)
T ss_pred             EEeCCCCCHHHHHHHHHHHHhcC--CCceeeeecccCCCcHHH
Confidence            7899 999999999999999995  899999999999999984

One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.

>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=96.80  E-value=0.003  Score=54.43  Aligned_cols=47  Identities=26%  Similarity=0.281  Sum_probs=41.6

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEI   50 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~   50 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+.... ..+.
T Consensus       315 IvGfPgET~edf~~Tl~~i~~~~--~~~~~~f~~sp~pGT~~~~~~~~v~~  363 (502)
T PRK14326        315 IVGFPGETEEDFQATLDVVREAR--FSSAFTFQYSKRPGTPAAEMEGQLPK  363 (502)
T ss_pred             EEECCCCCHHHHHHHHHHHHHcC--CCEEEEEeecCCCCChHHhCcCCCCH
Confidence            8999 999999999999999995  888899999999999998775 4443

>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional

Probab=96.80  E-value=0.0033  Score=53.44  Aligned_cols=49  Identities=18%  Similarity=0.125  Sum_probs=42.3

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCC-CCC-CCCHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQ-DQK-PVEIWE   52 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple-~~~-~~s~~e   52 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||.. ..+ ..+.++
T Consensus       309 IvGfPgET~edf~~tl~~v~~l~--~~~~~~f~ys~~~GT~a~~~~~~~v~~~~  360 (449)
T PRK14332        309 IVGFPNETEEEFEDTLAVVREVQ--FDMAFMFKYSEREGTMAKRKLPDNVPEEV  360 (449)
T ss_pred             EeeCCCCCHHHHHHHHHHHHhCC--CCEEEEEEecCCCCChhHHhCcCCCCHHH
Confidence            8999 999999999999999996  899999999999999997 444 344443

>PRK08599 coproporphyrinogen III oxidase; Provisional

Probab=96.77  E-value=0.0035  Score=51.46  Aligned_cols=62  Identities=18%  Similarity=-0.001  Sum_probs=48.9

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC------CCCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ------KPVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~------~~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.++.|+|.||||+...      +.++.+....+.+.++-.|-
T Consensus       158 i~GlPgqt~~~~~~~l~~~~~l~--~~~i~~y~l~~~pgT~~~~~~~~g~~~~~~~~~~~~~~~~~~~~l~  226 (377)
T PRK08599        158 IYALPGQTIEDFKESLAKALALD--IPHYSAYSLILEPKTVFYNLMRKGKLRLPGEDLEAEMYEYLMDEME  226 (377)
T ss_pred             ecCCCCCCHHHHHHHHHHHHccC--CCEEeeeceeecCCChhHHHHhcCCCCCCCHHHHHHHHHHHHHHHH
Confidence            7899 999999999999999996  99999999999999998532      12455555556565555553

>PRK05904 coproporphyrinogen III oxidase; Provisional

Probab=96.64  E-value=0.004  Score=51.38  Aligned_cols=62  Identities=8%  Similarity=0.028  Sum_probs=51.0

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |||.++..+.+..+.+++  |+.+.+..|.+.||||+.... .++.++..++...++-+|.
T Consensus       161 I~GlPgqt~e~~~~tl~~~~~l~--p~~is~y~L~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~L~  224 (353)
T PRK05904        161 LYCLPILKLKDLDEVFNFILKHK--INHISFYSLEIKEGSILKKYHYTIDEDKEAEQLNYIKAKFN  224 (353)
T ss_pred             eecCCCCCHHHHHHHHHHHHhcC--CCEEEEEeeEecCCChHhhcCCCCChHHHHHHHHHHHHHHH
Confidence            7898 999999999999999996  999999999999999997654 3455556666666666663

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase

Probab=96.61  E-value=0.0017  Score=55.56  Aligned_cols=41  Identities=20%  Similarity=0.140  Sum_probs=38.1

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD   44 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~   44 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.++.|+|.|||||-+
T Consensus       344 I~G~P~et~e~~~~t~~~~~~l~--~~~~~~~~~tP~PGT~l~~  385 (497)
T TIGR02026       344 ITGFENETDETFEETYRQLLDWD--PDQANWLMYTPWPFTSLFG  385 (497)
T ss_pred             EEECCCCCHHHHHHHHHHHHHcC--CCceEEEEecCCCCcHHHH
Confidence            7998 999999999999999996  8999999999999999843

This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.

>PRK08208 coproporphyrinogen III oxidase; Validated

Probab=96.50  E-value=0.0065  Score=51.12  Aligned_cols=63  Identities=17%  Similarity=0.156  Sum_probs=54.9

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |+|.++..+.+..+.+++  ++.+-+..+.+.+||+|......+.++..++...++-.|..
T Consensus       199 I~GlP~qt~e~~~~~l~~~~~l~--~~~is~y~L~~~~~T~l~~~~~~~~~~~~~m~~~~~~~L~~  262 (430)
T PRK08208        199 IYGIPGQTHASWMESLDQALVYR--PEELFLYPLYVRPLTGLGRRARAWDDQRLSLYRLARDLLLE  262 (430)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhCC--CCEEEEccccccCCCccchhcCCCHHHHHHHHHHHHHHHHH
Confidence            7898 999999999999999996  99999999999999999876656777788888888777643

>PRK08898 coproporphyrinogen III oxidase; Provisional

Probab=96.47  E-value=0.0063  Score=50.63  Aligned_cols=61  Identities=11%  Similarity=0.071  Sum_probs=50.6

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC--CCCHHHHHHHHHHHHHhC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK--PVEIWEMIRMIATARIVM   64 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~--~~s~~e~lR~iAvaRl~l   64 (118)
                      |+|+ |+|.++..+.+..+.+++  |+.|.+..|.|.+||||....  .++.+....+...++-+|
T Consensus       179 I~GlPgqt~~~~~~~l~~~~~l~--p~~is~y~l~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~~L  242 (394)
T PRK08898        179 MYALPGQTLDEALADVETALAFG--PPHLSLYHLTLEPNTLFAKFPPALPDDDASADMQDWIEARL  242 (394)
T ss_pred             EcCCCCCCHHHHHHHHHHHHhcC--CCEEEEeeeEECCCChhhhccCCCCChHHHHHHHHHHHHHH
Confidence            8999 999999999999999996  999999999999999997653  245555666666666666

>PRK09058 coproporphyrinogen III oxidase; Provisional

Probab=96.42  E-value=0.0052  Score=52.08  Aligned_cols=63  Identities=30%  Similarity=0.303  Sum_probs=53.9

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC------CCC-CHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ------KPV-EIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~------~~~-s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |||.++..+.+..+.+++  ++.|.+..|++.|||||...      +.+ +.++..++.+.++-.|..
T Consensus       221 I~GlPgqT~e~~~~~l~~~~~l~--~~~is~y~L~~~pgT~l~~~~~~g~l~~~~~~~~~~~my~~~~~~L~~  291 (449)
T PRK09058        221 IFGLPGQTPEIWQQDLAIVRDLG--LDGVDLYALNLLPGTPLAKAVEKGKLPPPATPAERADMYAYGVEFLAK  291 (449)
T ss_pred             EeeCCCCCHHHHHHHHHHHHhcC--CCEEEEeccccCCCCHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            7999 999999999999999996  99999999999999998642      233 778888888888887754

>PRK05628 coproporphyrinogen III oxidase; Validated

Probab=96.40  E-value=0.0063  Score=50.01  Aligned_cols=62  Identities=21%  Similarity=0.213  Sum_probs=50.7

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC------CCCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ------KPVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~------~~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |||.++..+.+..+.+++  |+.+-+..+.+.+|||+...      +.++.++..++...++-+|.
T Consensus       166 i~GlPgqt~~~~~~tl~~~~~l~--~~~i~~y~l~~~~gT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~l~  234 (375)
T PRK05628        166 IYGTPGESDDDWRASLDAALEAG--VDHVSAYALIVEDGTALARRVRRGELPAPDDDVLADRYELADARLS  234 (375)
T ss_pred             eccCCCCCHHHHHHHHHHHHhcC--CCEEEeeeeecCCCChHHHHhhcCCCCCCChHHHHHHHHHHHHHHH
Confidence            7898 999999999999999996  99999999999999998652      23455556677777776664

>TIGR01211 ELP3 histone acetyltransferase, ELP3 family

Probab=96.40  E-value=0.0052  Score=53.60  Aligned_cols=87  Identities=24%  Similarity=0.338  Sum_probs=67.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhc---CCCCCCcccccccccCCCCCCCC------CCCCCHHHHHHHHHHHHHhCCCcc---
Q 041306            2 IIGL-GEAEEDRVGLLHTLAT---LPTHPESVPINALLAVKGTPLQD------QKPVEIWEMIRMIATARIVMPKAM---   68 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~---L~~~~~svpin~fiP~~gTple~------~~~~s~~e~lR~iAvaRl~lP~~~---   68 (118)
                      |+|+ |||.++-.+.+..+-+   ++  |+.+-|..+.+.+||+|..      ..+++.++++.+++.+..++|...   
T Consensus       263 M~GLPgqt~e~~~~t~~~l~~~~~l~--pD~Ikiypl~V~~gT~L~~~~~~G~y~p~t~ee~v~l~~~~~~~lp~~i~v~  340 (522)
T TIGR01211       263 MPGLPGSSFERDLEMFREIFEDPRFK--PDMLKIYPTLVTRGTELYELWKRGEYKPYTTEEAVELIVEIKRMMPKWVRIQ  340 (522)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhccCCC--cCEEEEecceeeCCCHHHHHHHcCCCCCCCHHHHHHHHHHHHHhCCcceEEE
Confidence            7899 9999999999988874   85  9999999999999999964      457899999999999999999432   


Q ss_pred             --------CcccCCCC----CHHHHHHHHHHcCCC
Q 041306           69 --------KLLTTPNN----NFVADQLMFKVLGLT   91 (118)
Q Consensus        69 --------~yLTt~g~----~~~~d~~mI~~~G~~   91 (118)
                              +.|. .|.    -.+...+.+++.|+.
T Consensus       341 R~qrdip~~~l~-ag~~k~~l~~li~~~l~~~G~~  374 (522)
T TIGR01211       341 RIQRDIPAPLIV-AGVKKSNLRELVYRRMKEHGIT  374 (522)
T ss_pred             eeccCCChhhcc-CccchHHHHHHHHHHHHHCCCe
Confidence                    2222 232    234445566678877

The Saccharomyces cerevisiae member YPL086C has been characterized in vitro as an N-terminal acetyltransferase for all four core histones. It is a component of the RNA polymerase II holoenzyme, designated Elp3p for Elongator Protein 3. Members of this family are found in eukaryotes and archaea. These proteins are part of the larger set of GNAT acetyltransferases.

>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]

Probab=96.36  E-value=0.0058  Score=52.37  Aligned_cols=43  Identities=26%  Similarity=0.321  Sum_probs=40.2

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK   46 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~   46 (118)
                      |+|+ |||.||--+.+..+++.+  .+.+-++.|-|.||||-...+
T Consensus       303 IVGFPgETeedFe~tl~lv~e~~--fd~~~~F~YSpRpGTpAa~~~  346 (437)
T COG0621         303 IVGFPGETEEDFEETLDLVEEVR--FDRLHVFKYSPRPGTPAALMP  346 (437)
T ss_pred             EEECCCCCHHHHHHHHHHHHHhC--CCEEeeeecCCCCCCccccCC
Confidence            8999 999999999999999996  999999999999999987544

>PRK09057 coproporphyrinogen III oxidase; Provisional

Probab=96.25  E-value=0.0088  Score=49.49  Aligned_cols=63  Identities=11%  Similarity=0.064  Sum_probs=54.2

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC------CCCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ------KPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~------~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |+|.++-.+.+..+.+++  |+.|.+..+.+.|||||...      ..++.++..++...++-+|.+
T Consensus       161 i~GlPgqt~~~~~~~l~~~~~l~--p~~is~y~L~~~~gT~l~~~~~~g~~~~~~~~~~~~~~~~~~~~L~~  230 (380)
T PRK09057        161 IYARPGQTLAAWRAELKEALSLA--ADHLSLYQLTIEEGTAFYGLHAAGKLILPDEDLAADLYELTQEITAA  230 (380)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcC--CCeEEeecceecCCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHH
Confidence            7999 999999999999999995  99999999999999998642      236778888888888888854

>PRK05660 HemN family oxidoreductase; Provisional

Probab=96.20  E-value=0.013  Score=48.58  Aligned_cols=63  Identities=13%  Similarity=0.141  Sum_probs=52.6

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC--CCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK--PVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~--~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |+|.++..+.+..+.+++  |+.+.+..|+|.+||++....  .++.++...+...+.-+|..
T Consensus       165 i~Glpgqt~~~~~~~l~~~~~l~--p~~is~y~l~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~~L~~  230 (378)
T PRK05660        165 MHGLPDQSLEEALDDLRQAIALN--PPHLSWYQLTIEPNTLFGSRPPVLPDDDALWDIFEQGHQLLTA  230 (378)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcC--CCeEEeeccEeccCCcccccCCCCcCHHHHHHHHHHHHHHHHH
Confidence            6898 999999999999999996  999999999999999998643  34556667777777777654

>PRK00955 hypothetical protein; Provisional

Probab=96.14  E-value=0.0058  Score=54.45  Aligned_cols=40  Identities=18%  Similarity=0.190  Sum_probs=36.8

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQ   43 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple   43 (118)
                      |+|+ |||.+|-.+.+..+++++  .+.+-++.|+|.|||+-.
T Consensus       485 IvGfPGETeEDf~et~eflkel~--~~~~qV~~fTP~PGT~At  525 (620)
T PRK00955        485 MSSHPGSTLEDAIELAEYTKDLG--YQPEQVQDFYPTPGTLST  525 (620)
T ss_pred             EEECCCCCHHHHHHHHHHHHHcC--CCcceeeeeecCCCcchh
Confidence            7898 999999999999999996  889999999999998653

>PRK06294 coproporphyrinogen III oxidase; Provisional

Probab=96.08  E-value=0.0077  Score=49.74  Aligned_cols=63  Identities=21%  Similarity=0.191  Sum_probs=51.1

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC------CCCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ------KPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~------~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |||.++..+.+..+.+++  |+.+.+..|+|.|||||...      ..++.++...+...++-.|..
T Consensus       161 i~GlPgqt~~~~~~~l~~~~~l~--~~~is~y~l~~~~gT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~  230 (370)
T PRK06294        161 IYGLPTQSLSDFIVDLHQAITLP--ITHISLYNLTIDPHTSFYKHRKRLLPSIADEEILAEMSLAAEELLTS  230 (370)
T ss_pred             ecCCCCCCHHHHHHHHHHHHccC--CCeEEEeeeEecCCChHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHH
Confidence            7898 999999999999999996  99999999999999998542      124566666777766666643

>cd01335 Radical_SAM Radical SAM superfamily

Probab=96.08  E-value=0.013  Score=41.18  Aligned_cols=56  Identities=38%  Similarity=0.623  Sum_probs=42.7

Q ss_pred             eeecCCC-HHHHHHHHHHHhcCCCCCCcccccccccCCCCCCC-CCCCCCHHHHHHHHH
Q 041306            2 IIGLGEA-EEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQ-DQKPVEIWEMIRMIA   58 (118)
Q Consensus         2 I~GlGET-~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple-~~~~~s~~e~lR~iA   58 (118)
                      |+|+++. .++..+.+..+.++. .+..+.++.|.|.+||||+ ..+..+.....|+++
T Consensus       146 i~g~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~~~p~~~t~~~~~~~~~~~~~~~~~~~  203 (204)
T cd01335         146 LVGLGDEDEEDDLEELELLAEFR-SPDRVSLFRLLPEEGTPLELAAPVVPAEKLLRLIA  203 (204)
T ss_pred             EEecCCChhHHHHHHHHHHHhhc-CcchhhhhhhcccCCCeeeeccccccHHHHHHHhh
Confidence            6888665 489999999999983 3789999999999999998 333445555555543

Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme o

>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]

Probab=96.02  E-value=0.014  Score=48.02  Aligned_cols=63  Identities=25%  Similarity=0.449  Sum_probs=56.1

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC------CCCCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD------QKPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~------~~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|| |||.++-++-+..+.+++  ++-|=|..+.=.+||||+.      ...+|.+||+.+++-+=-++|.
T Consensus       189 I~GLPgE~~~~mleTak~v~~~~--v~GIKlH~LhvvkgT~m~k~Y~~G~l~~ls~eeYv~~~~d~le~lpp  258 (312)
T COG1242         189 INGLPGETRDEMLETAKIVAELG--VDGIKLHPLHVVKGTPMEKMYEKGRLKFLSLEEYVELVCDQLEHLPP  258 (312)
T ss_pred             eeCCCCCCHHHHHHHHHHHHhcC--CceEEEEEEEEecCChHHHHHHcCCceeccHHHHHHHHHHHHHhCCc
Confidence            8999 999999999999999995  9999999999999999964      4579999999999887777754

>COG1032 Fe-S oxidoreductase [Energy production and conversion]

Probab=95.93  E-value=0.0098  Score=48.69  Aligned_cols=48  Identities=35%  Similarity=0.511  Sum_probs=39.7

Q ss_pred             eeec-CCCHHHHHHH---HHHHhcCCCCCC-cccccccccCCCCCCCCCCCCCHH
Q 041306            2 IIGL-GEAEEDRVGL---LHTLATLPTHPE-SVPINALLAVKGTPLQDQKPVEIW   51 (118)
Q Consensus         2 I~Gl-GET~edrve~---l~~Lr~L~~~~~-svpin~fiP~~gTple~~~~~s~~   51 (118)
                      |+|+ |||.+|-...   +..+++++  +. .+.+++|+|.||||+.........
T Consensus       358 i~G~pget~ed~~~t~~~~~~~~~~~--~~~~~~~~~~~p~p~t~~~~~~~~~~~  410 (490)
T COG1032         358 IVGLPGETEEDVKETIELAKFIKKLG--PKLYVSPSPFVPLPGTPLQEMPKLENE  410 (490)
T ss_pred             EEcCCCCCHHHHHHHHHHHHHHHHhC--ccceEEEeeeeCCCCCchhhcccccch
Confidence            7899 8999988887   78888886  54 799999999999999887653333

>PRK06582 coproporphyrinogen III oxidase; Provisional

Probab=95.81  E-value=0.021  Score=47.75  Aligned_cols=63  Identities=17%  Similarity=0.129  Sum_probs=54.2

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC------CCCCCHHHHHHHHHHHHHhCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD------QKPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~------~~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      |+|+ |+|.++-.+.+..+.+|+  |+.|.+..|.+.+||||..      ...++.++..++...++-+|..
T Consensus       168 I~GlPgqt~e~~~~~l~~~~~l~--p~his~y~L~i~~gT~l~~~~~~g~~~~p~~~~~~~~~~~~~~~L~~  237 (390)
T PRK06582        168 IYARSGQTLKDWQEELKQAMQLA--TSHISLYQLTIEKGTPFYKLFKEGNLILPHSDAAAEMYEWTNHYLES  237 (390)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcC--CCEEEEecCEEccCChHHHHHhcCCCCCCChHHHHHHHHHHHHHHHH
Confidence            8999 999999999999999995  9999999999999999853      2346777888888888888754

>KOG4355 consensus Predicted Fe-S oxidoreductase [General function prediction only]

Probab=95.55  E-value=0.023  Score=48.95  Aligned_cols=61  Identities=25%  Similarity=0.257  Sum_probs=48.7

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHH-HHHHHHHHHHhC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWE-MIRMIATARIVM   64 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e-~lR~iAvaRl~l   64 (118)
                      |.|+ |||+||--+.+..+++..  --|+=||-|-|.||||-+.....+..+ --|+-++.+++-
T Consensus       346 IcgFPtETdeDFeeTmeLv~kYK--FPslfInQfyPRpGTPAAkmkki~a~~vkkRTk~ls~lF~  408 (547)
T KOG4355|consen  346 ICGFPTETDEDFEETMELVRKYK--FPSLFINQFYPRPGTPAAKMKKIPAVEVKKRTKALSELFR  408 (547)
T ss_pred             eecCCCCchHHHHHHHHHHHHcc--CchhhhhhcCCCCCChHHhhhcccHHHHHHHHHHHHHHHH
Confidence            7899 999999999999999995  779999999999999988777544444 345555555543

>COG0320 LipA Lipoate synthase [Coenzyme metabolism]

Probab=95.37  E-value=0.031  Score=45.91  Aligned_cols=33  Identities=24%  Similarity=0.530  Sum_probs=29.0

Q ss_pred             eeecCCCHHHHHHHHHHHhcCCCCCCccccccccc
Q 041306            2 IIGLGEAEEDRVGLLHTLATLPTHPESVPINALLA   36 (118)
Q Consensus         2 I~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP   36 (118)
                      |+|||||.++.++.|..||+.+  ++.+-|.-|.-
T Consensus       220 MlGLGEt~~Ev~e~m~DLr~~g--vdilTiGQYlq  252 (306)
T COG0320         220 MVGLGETDEEVIEVMDDLRSAG--VDILTIGQYLQ  252 (306)
T ss_pred             eeecCCcHHHHHHHHHHHHHcC--CCEEEeccccC
Confidence            7999999999999999999996  88888766643

>PRK08446 coproporphyrinogen III oxidase; Provisional

Probab=94.77  E-value=0.028  Score=46.01  Aligned_cols=42  Identities=17%  Similarity=0.150  Sum_probs=39.0

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQ   45 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~   45 (118)
                      |+|+ |||.++..+.+..+.+++  |+.+-+..|.|.||||+...
T Consensus       156 i~GlPgqt~~~~~~~l~~~~~l~--~~~is~y~L~~~~gT~l~~~  198 (350)
T PRK08446        156 IYDTPLDNKKLLKEELKLAKELP--INHLSAYSLTIEENTPFFEK  198 (350)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhcC--CCEEEeccceecCCChhHHh
Confidence            7898 999999999999999996  99999999999999999653

>PRK01254 hypothetical protein; Provisional

Probab=94.46  E-value=0.033  Score=50.37  Aligned_cols=40  Identities=20%  Similarity=0.152  Sum_probs=35.9

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCC---CCCCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVK---GTPLQ   43 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~---gTple   43 (118)
                      |+|+ |||.+|-.+++..|++++  .+..-++.|+|.|   ||.|-
T Consensus       564 IvGhPGeTeeDf~eLaefLkel~--f~~eQVQ~FTPtP~t~~T~MY  607 (707)
T PRK01254        564 ISAHPGTTDEDMVNLALWLKKNR--FRLDQVQNFYPSPMANATTMY  607 (707)
T ss_pred             EEECCCCCHHHHHHHHHHHHHhC--CCcceeeeeecCCCcCchHHH
Confidence            8898 999999999999999996  7778888999999   77764

>PRK08629 coproporphyrinogen III oxidase; Provisional

Probab=93.93  E-value=0.17  Score=43.03  Aligned_cols=62  Identities=13%  Similarity=0.074  Sum_probs=50.5

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC---CCCCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD---QKPVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~---~~~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |||.++..+.+..+.+++  |+.|-+.++.+.+||+...   ...++.++..++.++++-++.
T Consensus       205 I~GlPgqT~e~~~~~l~~~~~l~--p~~is~y~L~~~~~t~~~~~~~~~~p~~d~~~~~~~~~~~~l~  270 (433)
T PRK08629        205 IFNFPGQTDEVLQHDLDIAKRLD--PRQITTYPLMKSHQTRKSVKGSLGASQKDNERQYYQIINELFG  270 (433)
T ss_pred             EccCCCCCHHHHHHHHHHHHhCC--CCEEEEccceeccCchhhhcCCCCCcCHHHHHHHHHHHHHHHC
Confidence            7899 999999999999999996  9999999999999998532   223466666677777777774

>TIGR01210 conserved hypothetical protein TIGR01210

Probab=92.13  E-value=0.69  Score=37.58  Aligned_cols=89  Identities=16%  Similarity=0.188  Sum_probs=55.9

Q ss_pred             eeec-C----CCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC------CCCCCHHHHHHHHHHHHHhCCCcc--
Q 041306            2 IIGL-G----EAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD------QKPVEIWEMIRMIATARIVMPKAM--   68 (118)
Q Consensus         2 I~Gl-G----ET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~------~~~~s~~e~lR~iAvaRl~lP~~~--   68 (118)
                      |+|+ |    ||.++-.+.+..+..+  . +.+.++.+.|.+||+|+.      ..++..|..+.++.-.+-..+.+.  
T Consensus       176 i~G~P~~se~ea~ed~~~ti~~~~~l--~-~~vs~~~l~v~~gT~l~~~~~~G~~~pp~lws~~e~l~e~~~~~~~~~~d  252 (313)
T TIGR01210       176 LFKPPFLSEKEAIADMISSIRKCIPV--T-DTVSINPTNVQKGTLVEFLWNRGLYRPPWLWSVAEVLKEAKKIGAEVLSD  252 (313)
T ss_pred             EecCCCCChhhhHHHHHHHHHHHHhc--C-CcEEEECCEEeCCCHHHHHHHcCCCCCCCHHHHHHHHHHHHhhCCeEEec
Confidence            6776 3    5666677778888888  3 899999999999999853      335644555555544443332222  


Q ss_pred             --CcccCCC-----CCHHHHHHHHHHcCCCCC
Q 041306           69 --KLLTTPN-----NNFVADQLMFKVLGLTPK   93 (118)
Q Consensus        69 --~yLTt~g-----~~~~~d~~mI~~~G~~~~   93 (118)
                        |+=+..|     .--...+++|++-.++..
T Consensus       253 ~~g~~~~rg~~nc~~c~~~~~~~~~~~~~~q~  284 (313)
T TIGR01210       253 PVGAGSDRGAHNCGKCDKRVKEAIRKFSLTQD  284 (313)
T ss_pred             CCCCCCcCCCcCcchhhHHHHHHHHHhcccCC
Confidence              3333332     344566678888776643

This family of exclusively archaeal proteins has no characterized close homologs. Several rounds of PSI-BLAST with a stringent cutoff of 1e-8 shows apparent similarity of the central region of this family to the central regions of the oxygen-independent coproporphyrinogen III dehydrogenase HemN and to other enzymes.

>TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase

Probab=92.04  E-value=0.51  Score=39.96  Aligned_cols=62  Identities=19%  Similarity=0.258  Sum_probs=47.9

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCC-CCC----CCCCCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGT-PLQ----DQKPVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gT-ple----~~~~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |+|.++..+.+..+.+++  ++.+.+..|.+.+++ +..    ....++.++.+++...++-.+.
T Consensus       209 i~GlPgqt~e~~~~tl~~~~~l~--~~~is~y~L~~~p~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~L~  276 (455)
T TIGR00538       209 IYGLPKQTKESFAKTLEKVAELN--PDRLAVFNYAHVPWVKPAQRKIPEAALPSAEEKLDILQETIAFLT  276 (455)
T ss_pred             EeeCCCCCHHHHHHHHHHHHhcC--CCEEEEecCccccchhHHHhcccccCCCCHHHHHHHHHHHHHHHH
Confidence            7898 999999999999999996  999999999776653 322    2234578888888777665553

This model represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. Several species, including E. coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterized protein.

>PRK13347 coproporphyrinogen III oxidase; Provisional

Probab=90.38  E-value=0.96  Score=38.36  Aligned_cols=62  Identities=16%  Similarity=0.192  Sum_probs=46.0

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCC-----CCCCCCCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTP-----LQDQKPVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTp-----le~~~~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |||.++..+.+..+.+++  |+.+.+..|...++..     .+....++.++.+++...+.-.|.
T Consensus       210 i~GlPgqt~e~~~~tl~~~~~l~--p~~i~~y~l~~~p~~~~~~~~~~~~~lp~~~~~~~~~~~~~~~L~  277 (453)
T PRK13347        210 IYGLPHQTVESFRETLDKVIALS--PDRIAVFGYAHVPSRRKNQRLIDEAALPDAEERLRQARAVADRLL  277 (453)
T ss_pred             EEeCCCCCHHHHHHHHHHHHhcC--CCEEEEeccccccchhhHHhcCCccCCcCHHHHHHHHHHHHHHHH
Confidence            7898 999999999999999996  9999988886443321     122334577777777776666654

>PRK09249 coproporphyrinogen III oxidase; Provisional

Probab=90.04  E-value=0.9  Score=38.47  Aligned_cols=61  Identities=15%  Similarity=0.132  Sum_probs=45.7

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCC-----CCCCCCCHHHHHHHHHHHHHhC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPL-----QDQKPVEIWEMIRMIATARIVM   64 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTpl-----e~~~~~s~~e~lR~iAvaRl~l   64 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.+..|++.+++..     .....++.++..++...+.-.+
T Consensus       209 i~GlPgqt~e~~~~~l~~~~~l~--~~~i~~y~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L  275 (453)
T PRK09249        209 IYGLPKQTPESFARTLEKVLELR--PDRLAVFNYAHVPWLFKAQRKIDEADLPSPEEKLAILQQTIETL  275 (453)
T ss_pred             EccCCCCCHHHHHHHHHHHHhcC--CCEEEEccCccchhhhhHhcCCCcccCCCHHHHHHHHHHHHHHH
Confidence            7898 999999999999999996  99999999885544311     1122357777777776666555

>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]

Probab=87.43  E-value=1.2  Score=37.68  Aligned_cols=62  Identities=23%  Similarity=0.248  Sum_probs=51.1

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-----CCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-----PVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-----~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |+|.++-.+.+..+.+++  |+.+.+..|+=.|+|++....     .++.++.+.+...++-.|-
T Consensus       195 IyglP~QT~~~~~~~l~~a~~l~--pdhis~y~L~~~p~t~~~~~~~~~~~lP~~d~~~~~~~~~~e~L~  262 (416)
T COG0635         195 IYGLPGQTLESLKEDLEQALELG--PDHLSLYSLAIEPGTKFAQRKIKGKALPDEDEKADMYELVEELLE  262 (416)
T ss_pred             ecCCCCCCHHHHHHHHHHHHhCC--CCEEEEeeeecCCCchhhhhcccCCCCcChHHHHHHHHHHHHHHH
Confidence            8999 999999999999999996  999999999999999886533     3566666666666666554

>KOG2672 consensus Lipoate synthase [Coenzyme transport and metabolism]

Probab=82.00  E-value=1.9  Score=35.92  Aligned_cols=39  Identities=23%  Similarity=0.370  Sum_probs=32.7

Q ss_pred             eeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCC
Q 041306            2 IIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPL   42 (118)
Q Consensus         2 I~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTpl   42 (118)
                      ++|+|||+|+....+..||+.+  ++-+-+.-|.+..---|
T Consensus       263 Mlglgetdeei~~tl~dLr~~~--vdv~t~gqym~ptkrhl  301 (360)
T KOG2672|consen  263 MLGLGETDEEIKQTLKDLRAAD--VDVVTFGQYMQPTKRHL  301 (360)
T ss_pred             hhccCCCHHHHHHHHHHHHHcC--CcEEecccccCCccccc
Confidence            6899999999999999999996  88888888877543333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	118
1r30_A	369	The Crystal Structure Of Biotin Synthase, An S- Ade		8e-14

>pdb|1R30|A Chain A, The Crystal Structure Of Biotin Synthase, An S- Adenosylmethionine-dependent Radical Enzyme Length = 369

Iteration: 1
 Score = 72.0 bits (175), Expect = 8e-14,   Method: Composition-based stats.
 Identities = 48/123 (39%), Positives = 59/123 (47%), Gaps = 30/123 (24%)
Query: 1   GIIGLGEAEEDRVGXXXXXXXXXXXXESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE  +DR G            ESVPIN L+ VKGTPL D   V+ ++ IR IA A
Sbjct: 214 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVA 273
Query: 61  RIVMP-----------------KAM-------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP                 +AM             KLLTTPN     D  +F+ LGL
Sbjct: 274 RIMMPTSYVRLSAGREQMNEQTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKLGL 333
Query: 91  TPK 93
            P+
Sbjct: 334 NPQ 336

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	118
1r30_A	369	Biotin synthase; SAM radical protein, TIM barrel,	1e-43
3t7v_A	350	Methylornithine synthase PYLB; TIM-barrel fold, mu	8e-23
3iix_A	348	Biotin synthetase, putative; adoMet radical, SAM r	2e-18
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04

>1r30_A Biotin synthase; SAM radical protein, TIM barrel, FES cluster, transferase; HET: SAM DTB; 3.40A {Escherichia coli} SCOP: c.1.28.1 Length = 369

 Score =  145 bits (367), Expect = 1e-43
 Identities = 54/139 (38%), Positives = 68/139 (48%), Gaps = 30/139 (21%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE  +DR GLL  LA LPT PESVPIN L+ VKGTPL D   V+ ++ IR IA A
Sbjct: 214 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVA 273

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP +                               KLLTTPN     D  +F+ LGL
Sbjct: 274 RIMMPTSYVRLSAGREQMNEQTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKLGL 333

Query: 91  TPKAPSFHEDEANVSKAES 109
            P+  +    +    +   
Sbjct: 334 NPQQTAVLAGDNEQQQRLE 352

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri} Length = 350

 Score = 89.6 bits (223), Expect = 8e-23
 Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 2/73 (2%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
            + G+G   E  +  L  ++T    P+ V +   L  +GTPL+  +       +++I+  
Sbjct: 208 ILTGVGNDIESTILSLRGMSTN--DPDMVRVMTFLPQEGTPLEGFRDKSNLSELKIISVL 265

Query: 61  RIVMPKAMKLLTT 73
           R++ PK +   + 
Sbjct: 266 RLMFPKRLIPASL 278

>3iix_A Biotin synthetase, putative; adoMet radical, SAM radical, adoMet cleavage, Fe4S4 cluster, HYDE, hydrogenase, maturation, beta barrel; HET: OTY CSO 5AD CPS; 1.25A {Thermotoga maritima} PDB: 3ciw_A* 3iiz_A* 3cix_A* Length = 348

 Score = 77.7 bits (191), Expect = 2e-18
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 3/74 (4%)

Query: 1   GIIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIAT 59
            ++GL G+  +D V  L  L       + V I   +    TPL ++K  +    ++M+A 
Sbjct: 198 SMVGLPGQTIDDLVDDLLFLKEHD--FDMVGIGPFIPHPDTPLANEKKGDFTLTLKMVAL 255

Query: 60  ARIVMPKAMKLLTT 73
            RI++P +    TT
Sbjct: 256 TRILLPDSNIPATT 269

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.1 bits (90), Expect = 1e-04
 Identities = 23/157 (14%), Positives = 43/157 (27%), Gaps = 53/157 (33%)

Query: 1   GI--IGLGEAEEDRVGLLHTLATL-----------PTHPESVPINA---------LLAVK 38
            I  + L         +L  L  L             H  ++ +           LL  K
Sbjct: 183 KIFWLNLKNCNSPE-TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 39  GTP-----LQDQKPVEIWEM--IRMIATARIVMPKAMKLLTTPNNNFVADQLMF---KVL 88
                   L + +  + W    +      +I       LLTT     V D L       +
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLS----CKI-------LLTTRFKQ-VTDFLSAATTTHI 289

Query: 89  GLTPKAPSFHEDEA--------NVSKAESYQEAISSS 117
            L   + +   DE         +    +  +E ++++
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN 326

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	118
3t7v_A	350	Methylornithine synthase PYLB; TIM-barrel fold, mu	99.72
1r30_A	369	Biotin synthase; SAM radical protein, TIM barrel,	99.68
3iix_A	348	Biotin synthetase, putative; adoMet radical, SAM r	99.47
2qgq_A	304	Protein TM_1862; alpha-beta protein, structural ge	97.7
1olt_A	457	Oxygen-independent coproporphyrinogen III oxidase;	96.62
3c8f_A	245	Pyruvate formate-lyase 1-activating enzyme; adoMet	90.33
2yx0_A	342	Radical SAM enzyme; predicted tRNA modification en	87.25
2z2u_A	311	UPF0026 protein MJ0257; metal binding protein; 2.4	85.11

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri}

Probab=99.72  E-value=7.8e-18  Score=133.77  Aligned_cols=92  Identities=20%  Similarity=0.401  Sum_probs=83.0

Q ss_pred             eeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc-------------
Q 041306            2 IIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM-------------   68 (118)
Q Consensus         2 I~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~-------------   68 (118)
                      |+|+|||.+|+++++..+++++  +++++|+.|+|.+||||++.++++.++++|++|++|++||+..             
T Consensus       209 i~Glget~e~~~~~l~~l~~l~--~~~v~~~~f~p~~gT~l~~~~~~~~~e~l~~ia~~Rl~lp~~~I~a~~~~~g~~~~  286 (350)
T 3t7v_A          209 LTGVGNDIESTILSLRGMSTND--PDMVRVMTFLPQEGTPLEGFRDKSNLSELKIISVLRLMFPKRLIPASLDLEGIDGM  286 (350)
T ss_dssp             EESSSCCHHHHHHHHHHHHHTC--CSEEEEEECCCCTTSTTTTCCCCCCCCHHHHHHHHHHHSTTSBCEEEHHHHHHHHH
T ss_pred             EeecCCCHHHHHHHHHHHHhCC--CCEEEecceeeCCCCcCccCCCCChHHHHHHHHHHHHhCCCcCccccccccChhHH
Confidence            7999999999999999999996  9999999999999999999998999999999999999999975             


Q ss_pred             ----------------------CcccC------CCCCHHHHHHHHHHcCCCCCCC
Q 041306           69 ----------------------KLLTT------PNNNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 ----------------------~yLTt------~g~~~~~d~~mI~~~G~~~~~r   95 (118)
                                            |+-+.      ...+.++.+++|+++||+|++|
T Consensus       287 ~~~l~~Gan~~~~~~~~~~~~ag~~~~~~~~~~~~~~~~~~~~~i~~~G~~~~~r  341 (350)
T 3t7v_A          287 VLRLNAGANIVTSILPPDSQLEGVANYDRDLEERDRDIKSVVRRLEIMGMKPARQ  341 (350)
T ss_dssp             HHHHHTTCCEEEEECCSSCCCCCSSCTTTTCSSCCCCHHHHHHHHHHHTCEECCH
T ss_pred             HHHHhcCCceecCCCCCCCCCCCCCCCcccchhccCCHHHHHHHHHHcCCccccH
Confidence                                  22211      1368999999999999999986

>1r30_A Biotin synthase; SAM radical protein, TIM barrel, FES cluster, transferase; HET: SAM DTB; 3.40A {Escherichia coli} SCOP: c.1.28.1

Probab=99.68  E-value=3.1e-16  Score=125.73  Aligned_cols=97  Identities=56%  Similarity=0.883  Sum_probs=89.0

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      .|+|+|||.+|+.+++..+++|+.++++++++.|+|.+||||.+.++++.++++++++++|++||+..            
T Consensus       214 ~I~Gl~et~ed~~~~l~~l~~l~~~~~~i~~~~l~p~~gT~l~~~~~~~~~~~~~~~~~~r~~l~~~~i~i~~~~~~l~~  293 (369)
T 1r30_A          214 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVARIMMPTSYVRLSAGREQMNE  293 (369)
T ss_dssp             EEECSSCCHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSSCCCCCHHHHHHHHHHHHHHCTTSEEEEESSGGGSCH
T ss_pred             eEeeCCCCHHHHHHHHHHHHhhcCCCCEEEeeeeeecCCCcCCCCCCCCHHHHHHHHHHHHHhCCCCceEeecchhhcCh
Confidence            38999999999999999999996448899999999999999999888999999999999999999843            


Q ss_pred             ------------------CcccCCCCCHHHHHHHHHHcCCCCCCCCC
Q 041306           69 ------------------KLLTTPNNNFVADQLMFKVLGLTPKAPSF   97 (118)
Q Consensus        69 ------------------~yLTt~g~~~~~d~~mI~~~G~~~~~r~~   97 (118)
                                        .|+|+.|.+.+++++||+++|+.|..|..
T Consensus       294 ~~~~~~l~~Gan~~~~g~~~~t~~~~~~~~~~~~i~~~g~~~~~~~~  340 (369)
T 1r30_A          294 QTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKLGLNPQQTAV  340 (369)
T ss_dssp             HHHHHHHHHTCCEEECSSBSSSSBCCCHHHHHHHHHHTTCCSCCCC-
T ss_pred             HHHHHHhhCCCceEEeCCeeeCCCCCCHHHHHHHHHHcCCCeecccc
Confidence                              47899999999999999999999998764

>3iix_A Biotin synthetase, putative; adoMet radical, SAM radical, adoMet cleavage, Fe4S4 cluster, HYDE, hydrogenase, maturation, beta barrel; HET: OTY CSO 5AD CPS; 1.25A {Thermotoga maritima} PDB: 3ciw_A* 3iiz_A* 3cix_A*

Probab=99.47  E-value=1.5e-13  Score=107.94  Aligned_cols=93  Identities=25%  Similarity=0.354  Sum_probs=80.3

Q ss_pred             Ceeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc-----------
Q 041306            1 GIIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM-----------   68 (118)
Q Consensus         1 gI~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~-----------   68 (118)
                      .|+|+ |||.+++.+++..+++++  +++++|+.|+|.+||||.+.++.+.+++++++|++|+++|+..           
T Consensus       198 ~i~G~p~et~e~~~~~~~~l~~l~--~~~i~i~~~~p~~gt~l~~~~~~~~~e~~~~~a~~R~~lp~~~i~~~~~~~~~~  275 (348)
T 3iix_A          198 SMVGLPGQTIDDLVDDLLFLKEHD--FDMVGIGPFIPHPDTPLANEKKGDFTLTLKMVALTRILLPDSNIPATTAMGTIV  275 (348)
T ss_dssp             BEESCTTCCHHHHHHHHHHHHHHT--CSEECCEECCCCTTSTTTTSCCCCHHHHHHHHHHHHHHSTTSBCBCCHHHHHHS
T ss_pred             eEEeCCCCCHHHHHHHHHHHHhcC--CCEEeeeeeecCCCCCcccCCCCCHHHHHHHHHHHHHHCCCCCchhcchhhhcC
Confidence            37999 999999999999999996  9999999999999999999999999999999999999999854           


Q ss_pred             --------------------------CcccCCC---------CCHHHHHHHHHHcCCCCCCC
Q 041306           69 --------------------------KLLTTPN---------NNFVADQLMFKVLGLTPKAP   95 (118)
Q Consensus        69 --------------------------~yLTt~g---------~~~~~d~~mI~~~G~~~~~r   95 (118)
                                                +|....+         .+.++..++|+++|+.|...
T Consensus       276 ~~~~~~~l~~Gan~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~  337 (348)
T 3iix_A          276 PGGREITLRCGANVIMPNWTPSPYRQLYQLYPGKICVFEKDTACIPCVMKMIELLGRKPGRD  337 (348)
T ss_dssp             TTHHHHHHTTTCCEECCBCCCTTTGGGCCSSSCCTTTTSCTTCHHHHHHHHHHHTTCEECSS
T ss_pred             HHHHHHHHhcCCcEEeCCCCchhcccccccCCCCcccCCCchhhHHHHHHHHHHcCCEeCCC
Confidence                                      1221122         46788899999999998753

>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: CXS; 2.00A {Thermotoga maritima MSB8}

Probab=97.70  E-value=4.6e-05  Score=59.45  Aligned_cols=51  Identities=24%  Similarity=0.205  Sum_probs=35.7

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCC-CCCHHHHH
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQK-PVEIWEMI   54 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~-~~s~~e~l   54 (118)
                      |+|+ |||.+|..+.+..+++++  ++.+.++.|.|.||||+...+ .++.+...
T Consensus       162 IvG~PgEt~ed~~~t~~~l~~l~--~~~v~~~~~~p~pgT~~~~~~~~v~~~~~~  214 (304)
T 2qgq_A          162 IVGFPGETEEDFEELKQFVEEIQ--FDKLGAFVYSDEEGTVAFNLKEKVDPEMAK  214 (304)
T ss_dssp             EECCTTCCHHHHHHHHHHHHHHC--CSEEEEEECCC-----------CCCHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHHHHHcC--CCEEEEEEeeCCCCChhHhCcCCCCHHHHH
Confidence            7899 999999999999999996  899999999999999998876 56655433

>1olt_A Oxygen-independent coproporphyrinogen III oxidase; heme biosynthesis, decarboxylase, radical SAM enzyme, 4Fe- 4 cluster; HET: SAM; 2.07A {Escherichia coli} SCOP: c.1.28.2

Probab=96.62  E-value=0.0019  Score=53.07  Aligned_cols=62  Identities=13%  Similarity=0.138  Sum_probs=51.1

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC-----CCCCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD-----QKPVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~-----~~~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |||.++..+.+..+.+++  ++.+.+..|+|.|||++..     ...++.++.+++...++-.+.
T Consensus       211 I~GlPget~e~~~~tl~~~~~l~--~~~i~~y~l~~~p~t~~~~~~~~~~~lp~~~~~~~~~~~~~~~L~  278 (457)
T 1olt_A          211 IYGLPKQTPESFAFTLKRVAELN--PDRLSVFNYAHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLT  278 (457)
T ss_dssp             EESCTTCCHHHHHHHHHHHHHHC--CSEEEEEECCCCTTTSGGGGGSCGGGSCCHHHHHHHHHHHHHHHH
T ss_pred             EcCCCCCCHHHHHHHHHHHHhcC--cCEEEeecCcCCcCchhHhhccccCCCcCHHHHHHHHHHHHHHHH
Confidence            7899 999999999999999996  9999999999999998653     124577777777776655553

>3c8f_A Pyruvate formate-lyase 1-activating enzyme; adoMet radical, SAM radical, activase, glycyl radical, 4Fe- 4S, carbohydrate metabolism, cytoplasm; HET: MT2 PGE; 2.25A {Escherichia coli} PDB: 3cb8_A*

Probab=90.33  E-value=0.31  Score=34.90  Aligned_cols=56  Identities=14%  Similarity=0.136  Sum_probs=41.0

Q ss_pred             ecCCCHHHHHHHHHHHhcCCCCC-CcccccccccCCCC---------CCCCCCCCCHHHHHHHHHHHH
Q 041306            4 GLGEAEEDRVGLLHTLATLPTHP-ESVPINALLAVKGT---------PLQDQKPVEIWEMIRMIATAR   61 (118)
Q Consensus         4 GlGET~edrve~l~~Lr~L~~~~-~svpin~fiP~~gT---------ple~~~~~s~~e~lR~iAvaR   61 (118)
                      |++++.++..+.+..+++++  + ..+-+..|.|.+++         ++.+.++++.+++.++...+|
T Consensus       172 g~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  237 (245)
T 3c8f_A          172 GWSDDDDSAHRLGEFTRDMG--NVEKIELLPYHELGKHKWVAMGEEYKLDGVKPPKKETMERVKGILE  237 (245)
T ss_dssp             TTTCCHHHHHHHHHHHHHHC--CEEEEEEEECCCCSHHHHHHTTCCCTTTTCCCCCHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHhcC--CCceeEEEeccccChhHHHhhCcccccccCCCCCHHHHHHHHHHHH
Confidence            45678899999999999995  4 67777778886544         455556678887777766665

>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal binding protein, structural genomics, NPPSFA; 2.21A {Pyrococcus horikoshii}

Probab=87.25  E-value=0.33  Score=37.63  Aligned_cols=62  Identities=13%  Similarity=0.034  Sum_probs=44.2

Q ss_pred             eecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCC--CCCCCCCCCCHHHHHHHHHHHHHhCCC
Q 041306            3 IGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKG--TPLQDQKPVEIWEMIRMIATARIVMPK   66 (118)
Q Consensus         3 ~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~g--Tple~~~~~s~~e~lR~iAvaRl~lP~   66 (118)
                      +.-|++.++..+++..+++++  ++.+-+.+|+|.++  +++.....++.+++.+....++-.+|+
T Consensus       245 l~~g~n~~~~~~l~~~l~~~~--~~~i~l~~~~~~~~~~~~l~~~~~~~~e~~~~~~~~l~~~l~~  308 (342)
T 2yx0_A          245 LVKGENMHSPEKYAKLILKAR--PMFVEAKAYMFVGYSRNRLTINNMPSHQDIREFAEALVKHLPG  308 (342)
T ss_dssp             ECTTTTCCCHHHHHHHHHHHC--CSEEEEEECC------CCCCGGGSCCHHHHHHHHHHHHTTCTT
T ss_pred             EECCccHHHHHHHHHHHHHcC--CCEEEEEeeeecCCCcccccccCCCCHHHHHHHHHHHHHhccC
Confidence            444777777777888888885  78887777777543  566555577899999999999888865

>2z2u_A UPF0026 protein MJ0257; metal binding protein; 2.40A {Methanocaldococcus jannaschii}

Probab=85.11  E-value=0.34  Score=36.86  Aligned_cols=54  Identities=9%  Similarity=0.157  Sum_probs=33.1

Q ss_pred             CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCC--CCCCCCCCHHHHHHHHHHHHH
Q 041306            6 GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTP--LQDQKPVEIWEMIRMIATARI   62 (118)
Q Consensus         6 GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTp--le~~~~~s~~e~lR~iAvaRl   62 (118)
                      |++. |..+++..+++++  ++.+.++.|+|.++++  +.....++.+++++.+..++-
T Consensus       227 g~n~-~~~~~~~~~~~~~--~~~i~l~~~~p~g~~~~~~~~~~~~~~~e~~~~~~~l~~  282 (311)
T 2z2u_A          227 GYND-DILKFVELYERAD--VHFIELKSYMHVGYSQKRLKKEDMLQHDEILKLAKMLDE  282 (311)
T ss_dssp             TTTC-CGGGTHHHHHHHT--CSEEEEEECC------------CCCCHHHHHHHHHHHHT
T ss_pred             Ccch-hHHHHHHHHHHcC--CCEEEEEeeEEccccccccccccCCCHHHHHHHHHHHHH
Confidence            5555 6666777777885  8899999999988876  333456788888887776664

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	118
d1r30a_	312	c.1.28.1 (A:) Biotin synthase {Escherichia coli [T	2e-14

>d1r30a_ c.1.28.1 (A:) Biotin synthase {Escherichia coli [TaxId: 562]} Length = 312

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Biotin synthase
domain: Biotin synthase
species: Escherichia coli [TaxId: 562]

 Score = 65.0 bits (157), Expect = 2e-14
 Identities = 54/123 (43%), Positives = 65/123 (52%), Gaps = 30/123 (24%)

Query: 1   GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATA 60
           GI+GLGE  +DR GLL  LA LPT PESVPIN L+ VKGTPL D   V+ ++ IR IA A
Sbjct: 188 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVA 247

Query: 61  RIVMPKAM------------------------------KLLTTPNNNFVADQLMFKVLGL 90
           RI+MP +                               KLLTTPN     D  +F+ LGL
Sbjct: 248 RIMMPTSYVRLSAGREQMNEQTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKLGL 307

Query: 91  TPK 93
            P+
Sbjct: 308 NPQ 310

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	118
d1r30a_	312	Biotin synthase {Escherichia coli [TaxId: 562]}	99.9
d1olta_	441	Oxygen-independent coproporphyrinogen III oxidase	92.65

>d1r30a_ c.1.28.1 (A:) Biotin synthase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Biotin synthase
domain: Biotin synthase
species: Escherichia coli [TaxId: 562]

Probab=99.90  E-value=5.7e-24  Score=163.64  Aligned_cols=94  Identities=57%  Similarity=0.906  Sum_probs=89.4

Q ss_pred             CeeecCCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCcc------------
Q 041306            1 GIIGLGEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQDQKPVEIWEMIRMIATARIVMPKAM------------   68 (118)
Q Consensus         1 gI~GlGET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~~~~~s~~e~lR~iAvaRl~lP~~~------------   68 (118)
                      .|+|+|||.+|+++++..|++|+.++.++++++|+|.+||||++.+++++++++|++|++||+||+..            
T Consensus       188 ~i~G~~et~~d~~~~l~~l~~l~~~~~~i~~~~~~p~~gT~l~~~~~~~~~e~l~~iA~~Rl~lp~~~i~i~~~~~~~~~  267 (312)
T d1r30a_         188 GIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVARIMMPTSYVRLSAGREQMNE  267 (312)
T ss_dssp             EEECSSCCHHHHHHHHHHHHSSSSCCSEEEEEECCCCTTSTTSSCCCCCHHHHHHHHHHHHHHCTTSEEEEESSGGGSCH
T ss_pred             eEecCcCcHHHHHHHHHHHHhcCCCCCeeeeccccCCCCcccccccCCCHHHHHHHHHHHHHhCCCcceEEEechhhcCH
Confidence            38999999999999999999998778899999999999999999999999999999999999999865            


Q ss_pred             ------------------CcccCCCCCHHHHHHHHHHcCCCCCC
Q 041306           69 ------------------KLLTTPNNNFVADQLMFKVLGLTPKA   94 (118)
Q Consensus        69 ------------------~yLTt~g~~~~~d~~mI~~~G~~~~~   94 (118)
                                        +|+|+.|.+.++|++||+++||+|.+
T Consensus       268 ~~~~~~L~~Gan~~~~~~~~~t~~~~~~~~~~~~i~~~G~~P~~  311 (312)
T d1r30a_         268 QTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKLGLNPQQ  311 (312)
T ss_dssp             HHHHHHHHHTCCEEECSSBSSSSBCCCHHHHHHHHHHTTCCSCC
T ss_pred             HHHHHHHhcCCcEEEecCccccCCCCCHHHHHHHHHHcCCCcCC
Confidence                              78999999999999999999999976

>d1olta_ c.1.28.2 (A:) Oxygen-independent coproporphyrinogen III oxidase HemN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: Oxygen-independent coproporphyrinogen III oxidase HemN
domain: Oxygen-independent coproporphyrinogen III oxidase HemN
species: Escherichia coli [TaxId: 562]

Probab=92.65  E-value=0.059  Score=42.25  Aligned_cols=62  Identities=13%  Similarity=0.138  Sum_probs=51.8

Q ss_pred             eeec-CCCHHHHHHHHHHHhcCCCCCCcccccccccCCCCCCCC-----CCCCCHHHHHHHHHHHHHhCC
Q 041306            2 IIGL-GEAEEDRVGLLHTLATLPTHPESVPINALLAVKGTPLQD-----QKPVEIWEMIRMIATARIVMP   65 (118)
Q Consensus         2 I~Gl-GET~edrve~l~~Lr~L~~~~~svpin~fiP~~gTple~-----~~~~s~~e~lR~iAvaRl~lP   65 (118)
                      |+|+ |||.++-.+.+..+.+|+  |+.+.+..|...|+|....     ..-++.++.+++...++-+|-
T Consensus       208 I~GlPgqT~~~~~~tl~~~~~l~--pd~is~y~~~~~p~~~~~q~~~~~~~lp~~~~~~~~~~~~~~~L~  275 (441)
T d1olta_         208 IYGLPKQTPESFAFTLKRVAELN--PDRLSVFNYAHLPTIFAAQRKIKDADLPSPQQKLDILQETIAFLT  275 (441)
T ss_dssp             EESCTTCCHHHHHHHHHHHHHHC--CSEEEEEECCCCTTTSGGGGGSCGGGSCCHHHHHHHHHHHHHHHH
T ss_pred             ccccCCcchHHHHHHHHHHHhhC--CCccccccceeccchhHhhhhccccchhhhHHHHHHHHHHHHHHH
Confidence            7999 999999999999999996  9999999999888886543     224678888888888777664