Citrus Sinensis ID: 029891

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180------
Protein Sequence
MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAANS
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccEEEEcccEEEEEEcccccccHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHcccHHHcccccEEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccEEEEcccccccccccHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEccccccccccccccccccccccccEEEEccEEEEccccccccccccccEEEccccccccHHHccccccccccccHHHHHHHHHHHHHHcHHHHcccccEEEEEEcccEEEEEEEccccccccHHHHHHHHHHHHHHHHcHHHHHEEEcccccccccccHHHHHHHHHHcccHHccccccc
Coil and Loop (DISEMBL)
mqgvvlnpsysrphqtldspscsrpaskstksffgervsltrwrnpvchsscRLLLIRKRGAARRNVIKavatpdsaielpltaeNIESVLDEIRPylisdggnvalheidgNVVRLKLqgacgscpssvmTMKMGIERRLMEKIPEIVAVesvadeetglelnEENIEKVLEEIRPYLVGAAANS
Flexible Loop (DISEMBL)
mqgvvlnpsysrphqtldspscsrpaskstksffgervsltrwrnpvchsscRLLLIRKRGAARRNVIKavatpdsaielplTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQgacgscpssVMTMKMGIERRLMEKIPEIVAVesvadeetglelneENIEKVLEEIRPYLVGAAANS
Low Complexity Region (SEG)
MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAANS
Disordered region (IsUnstruct)
********************************FFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLV******
Disordered Region (DISOPRED)
***VVLNPSYSRP***********PASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKR***********************AENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETG*EL*EENIEKVLEEIRP*********
Disordered Region (DISEMBL)
MQGVVLNPS***********************FFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAANS
Disordered Region (DISPRO)
*QGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKR*****************IELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLV******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAANS
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	186	2.2.26 [Sep-21-2011]
Q93W20	235	NifU-like protein 2, chlo	yes	no	0.994	0.787	0.642	1e-56
Q84LK7	226	NifU-like protein 1, chlo	no	no	0.645	0.530	0.704	4e-45
Q84RQ7	236	NifU-like protein 3, chlo	no	no	0.569	0.449	0.710	1e-37
Q93W77	231	NifU-like protein 1, chlo	no	no	0.553	0.445	0.466	3e-18
P33179	112	Nitrogen fixation protein	N/A	no	0.365	0.607	0.550	1e-15
P20628	300	Nitrogen fixation protein	no	no	0.435	0.27	0.488	6e-15
Q43885	300	Nitrogen fixation protein	no	no	0.435	0.27	0.488	6e-15
O32119	111	Putative nitrogen fixatio	yes	no	0.311	0.522	0.534	2e-13
Q8SY96	283	NFU1 iron-sulfur cluster	yes	no	0.483	0.318	0.422	3e-13
B4NE93	289	NFU1 iron-sulfur cluster	N/A	no	0.473	0.304	0.422	5e-13

>sp|Q93W20|NIFU2_ARATH NifU-like protein 2, chloroplastic OS=Arabidopsis thaliana GN=NIFU2 PE=1 SV=1

 Score =  218 bits (556), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 122/190 (64%), Positives = 140/190 (73%), Gaps = 5/190 (2%)

Query: 1   MQGVVLNPS-YSR-PHQTLDSPSCSRPASKSTKSFFGERVS--LTRWRNPVCHSSCRLLL 56
           MQ + LNP+  SR P Q +D  S S       +    +R    + R  NP+     R L 
Sbjct: 1   MQLLTLNPAAISRTPPQAIDPSSSSSLLLPFPQILSSQRALGLVARPCNPLRRGLSRFLS 60

Query: 57  IRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVR 116
            R+    R  V+KAVATPD  +E+PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGN+VR
Sbjct: 61  SRQL-FRRSKVVKAVATPDPILEVPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNIVR 119

Query: 117 LKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIR 176
           +KLQGACGSCPSS MTMKMGIERRLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIR
Sbjct: 120 VKLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIR 179

Query: 177 PYLVGAAANS 186
           PYL+G A  S
Sbjct: 180 PYLIGTADGS 189

Molecular scaffold for [Fe-S] cluster assembly of chloroplastic iron-sulfur proteins. Required for biogenesis of ferredoxin, a major photosynthetic electron carrier containing [2Fe-2S] cluster. Required for the assembly of photosystem I complex.
Arabidopsis thaliana (taxid: 3702)

>sp|Q84LK7|NIFU1_ORYSJ NifU-like protein 1, chloroplastic OS=Oryza sativa subsp. japonica GN=NIFU1 PE=1 SV=1

 Score =  180 bits (457), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 86/122 (70%), Positives = 103/122 (84%), Gaps = 2/122 (1%)

Query: 67  VIKAVA--TPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACG 124
           V+ A+A   P +A++LPLTA N+ESVLD++RPYL +DGG+VALHEI GNVVRLKLQGACG
Sbjct: 58  VVGAIAGLDPVTAVQLPLTAGNVESVLDQVRPYLTADGGDVALHEIAGNVVRLKLQGACG 117

Query: 125 SCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAA 184
           SCPSS++T+K GIERRLMEKIP++ AVE V D+ETGLELNEEN+EKVL EIRPYL G   
Sbjct: 118 SCPSSLITIKRGIERRLMEKIPDVAAVEPVTDKETGLELNEENVEKVLNEIRPYLAGTGG 177

Query: 185 NS 186
             
Sbjct: 178 GG 179

Molecular scaffold for [Fe-S] cluster assembly of chloroplastic iron-sulfur proteins.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q84RQ7|NIFU3_ARATH NifU-like protein 3, chloroplastic OS=Arabidopsis thaliana GN=NIFU3 PE=2 SV=1

 Score =  155 bits (393), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 76/107 (71%), Positives = 88/107 (82%), Gaps = 1/107 (0%)

Query: 80  LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIER 139
           +PLT EN+E VLDE+RP L++DGGNVALHEIDG VV LKLQGACGSCPSS MT+KMGIE 
Sbjct: 82  MPLTEENVERVLDEVRPSLMADGGNVALHEIDGLVVVLKLQGACGSCPSSSMTLKMGIES 141

Query: 140 RLMEKIPEIVAVESVADEET-GLELNEENIEKVLEEIRPYLVGAAAN 185
           RL +KIPEI++VE   + ET GLELN+ENIEKVL E+RPYL G    
Sbjct: 142 RLRDKIPEIMSVEQFLESETGGLELNDENIEKVLSELRPYLSGTGGG 188

Molecular scaffold for [Fe-S] cluster assembly of chloroplastic iron-sulfur proteins.

Arabidopsis thaliana (taxid: 3702)

>sp|Q93W77|NIFU1_ARATH NifU-like protein 1, chloroplastic OS=Arabidopsis thaliana GN=NIFU1 PE=1 SV=1

 Score = 91.3 bits (225), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 49/105 (46%), Positives = 68/105 (64%), Gaps = 2/105 (1%)

Query: 76  SAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKM 135
           SA    LT +N++ VL+++RP+LISDGGNV +  ++  VV LKLQGAC SCPSS  TM M
Sbjct: 79  SAQTFDLTPQNVDLVLEDVRPFLISDGGNVDVVSVEDGVVSLKLQGACTSCPSSSTTMTM 138

Query: 136 GIERRLMEKIPEIVA-VESVADEETGLELNEENIEKVLEEIRPYL 179
           GIER L EK  + +  +  V DEE   ++  E +   L+ +RP +
Sbjct: 139 GIERVLKEKFGDALKDIRQVFDEEVK-QITVEAVNAHLDILRPAI 182

Molecular scaffold for [Fe-S] cluster assembly of chloroplastic iron-sulfur proteins.

Arabidopsis thaliana (taxid: 3702)

>sp|P33179|NIFU_ANASL Nitrogen fixation protein NifU (Fragment) OS=Anabaena sp. (strain L31) GN=nifU PE=3 SV=1

 Score = 82.8 bits (203), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/69 (55%), Positives = 55/69 (79%), Gaps = 1/69 (1%)

Query: 87  IESVLDE-IRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKI 145
           I+ VLDE +RP LI+DGG+V L+++DG++V++ LQGACGSCPSS  T+K+ IE RL ++I
Sbjct: 44  IQKVLDEEVRPVLIADGGDVELYDVDGDIVKVVLQGACGSCPSSTATLKIAIESRLRDRI 103

Query: 146 PEIVAVESV 154
              + VE+V
Sbjct: 104 NPSLVVEAV 112

May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.

Anabaena sp. (strain L31) (taxid: 29412)

>sp|P20628|NIFU_NOSS1 Nitrogen fixation protein NifU OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=nifU PE=3 SV=1

 Score = 80.5 bits (197), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 42/86 (48%), Positives = 61/86 (70%), Gaps = 5/86 (5%)

Query: 74  PDSAIELPLTAEN----IESVLDE-IRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPS 128
           P+S  + PLT       I+ VLDE +RP LI+DGG+V L+++DG++V++ LQGACGSC S
Sbjct: 215 PNSGQKRPLTNVQKIALIQKVLDEEVRPVLIADGGDVELYDVDGDIVKVVLQGACGSCSS 274

Query: 129 SVMTMKMGIERRLMEKIPEIVAVESV 154
           S  T+K+ IE RL ++I   + VE+V
Sbjct: 275 STATLKIAIESRLRDRINPSLVVEAV 300

May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.

Nostoc sp. (strain PCC 7120 / UTEX 2576) (taxid: 103690)

>sp|Q43885|NIFU_TRIAZ Nitrogen fixation protein NifU OS=Trichormus azollae GN=nifU PE=3 SV=1

 Score = 80.5 bits (197), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 42/86 (48%), Positives = 61/86 (70%), Gaps = 5/86 (5%)

Query: 74  PDSAIELPLTAEN----IESVLDE-IRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPS 128
           P+S  + PLT       I+ VLDE +RP LI+DGG+V L+++DG++V++ LQGACGSC S
Sbjct: 215 PNSGQKRPLTNVQKIALIQKVLDEEVRPVLIADGGDVELYDVDGDIVKVVLQGACGSCSS 274

Query: 129 SVMTMKMGIERRLMEKIPEIVAVESV 154
           S  T+K+ IE RL ++I   + VE+V
Sbjct: 275 STATLKIAIESRLRDRINPSLVVEAV 300

May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.

Anabaena azollae (taxid: 1164)

>sp|O32119|YUTI_BACSU Putative nitrogen fixation protein YutI OS=Bacillus subtilis (strain 168) GN=yutI PE=3 SV=1

 Score = 75.1 bits (183), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 31/58 (53%), Positives = 46/58 (79%)

Query: 85  ENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLM 142
           E ++ VLD++RP+L+ DGG+  L ++D  +V+L+L GACGSCPSS +T+K GIER L+
Sbjct: 41  EQVQEVLDKLRPFLLRDGGDCELVDVDEGIVKLRLLGACGSCPSSTITLKAGIERALL 98

May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins.

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|Q8SY96|NFU1_DROME NFU1 iron-sulfur cluster scaffold homolog, mitochondrial OS=Drosophila melanogaster GN=CG32500 PE=2 SV=1

 Score = 74.7 bits (182), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/97 (42%), Positives = 62/97 (63%), Gaps = 7/97 (7%)

Query: 87  IESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKI 145
           I+ +LD  IRP +  DGG++     +G VV+LK+QG+C SCPSS++T+K G++  L   I
Sbjct: 182 IKELLDTRIRPTVQEDGGDIVFMGYEGGVVKLKMQGSCSSCPSSIVTLKNGVQNMLQFYI 241

Query: 146 PEIVAVESVADE-----ETGLELNEENIEKVLEEIRP 177
           PE+ +VE V DE     E+  E  E+N+ K L++  P
Sbjct: 242 PEVESVEQVFDEADRMIESEFERFEKNL-KTLKQQEP 277

Molecular scaffold for [Fe-S] cluster assembly of mitochondrial iron-sulfur proteins.

Drosophila melanogaster (taxid: 7227)

>sp|B4NE93|NFU1_DROWI NFU1 iron-sulfur cluster scaffold homolog, mitochondrial OS=Drosophila willistoni GN=GK25604 PE=3 SV=1

 Score = 73.9 bits (180), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 38/90 (42%), Positives = 57/90 (63%), Gaps = 2/90 (2%)

Query: 87  IESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKI 145
           I+ +LD  IRP +  DGG++     D  VV+LK+QG+C SCPSS++T+K G++  L   I
Sbjct: 183 IKELLDTRIRPTVQEDGGDIVFMSYDNGVVKLKMQGSCSSCPSSIVTLKNGVQNMLQFYI 242

Query: 146 PEIVAVESVADEETGLELNE-ENIEKVLEE 174
           PE+ +VE V DE   +   E E  E+ L++
Sbjct: 243 PEVESVEQVFDEADKMADKEFERFERNLKQ 272

Molecular scaffold for [Fe-S] cluster assembly of mitochondrial iron-sulfur proteins.

Drosophila willistoni (taxid: 7260)

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	186
255576215	226	Nitrogen fixation protein nifU, putative	0.967	0.796	0.747	8e-70
449435134	228	PREDICTED: nifU-like protein 2, chloropl	0.956	0.780	0.714	2e-65
224129660	234	predicted protein [Populus trichocarpa]	0.962	0.764	0.687	2e-63
449503323	216	PREDICTED: nifU-like protein 2, chloropl	0.795	0.685	0.772	6e-59
225448154	227	PREDICTED: nifU-like protein 2, chloropl	0.602	0.493	0.926	9e-59
297792273	707	hypothetical protein ARALYDRAFT_331396 [	0.994	0.261	0.666	1e-56
357445313	224	NifU-like protein [Medicago truncatula]	0.956	0.794	0.655	5e-56
8777425	684	unnamed protein product [Arabidopsis tha	0.994	0.270	0.642	7e-55
18423084	235	NifU-like protein 2 [Arabidopsis thalian	0.994	0.787	0.642	7e-55
346467251	211	hypothetical protein [Amblyomma maculatu	0.618	0.545	0.851	1e-53

>gi|255576215|ref|XP_002529001.1| Nitrogen fixation protein nifU, putative [Ricinus communis] gi|223531541|gb|EEF33371.1| Nitrogen fixation protein nifU, putative [Ricinus communis]

 Score =  268 bits (685), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 139/186 (74%), Positives = 154/186 (82%), Gaps = 6/186 (3%)

Query: 1   MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKR 60
           MQ VV+NP+YSRPHQTLDS + S      + S F  RVSL R RN +    CR + +   
Sbjct: 1   MQAVVINPTYSRPHQTLDS-APSSSRPFKSSSLFSARVSLNRGRNHLRRIPCRSVRL--- 56

Query: 61  GAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQ 120
              RR V++AVATP+SA+ELPLTAEN+ESVLDE+RPYLI+DGGNVALHEIDGNVVRLKLQ
Sbjct: 57  --TRRLVVRAVATPNSALELPLTAENVESVLDEVRPYLIADGGNVALHEIDGNVVRLKLQ 114

Query: 121 GACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLV 180
           GACGSCPSSVMTMKMGIERRLMEKIPEIVAVE +ADEETGLELNEENIEKVLEEIRPYLV
Sbjct: 115 GACGSCPSSVMTMKMGIERRLMEKIPEIVAVEPIADEETGLELNEENIEKVLEEIRPYLV 174

Query: 181 GAAANS 186
           GAA  S
Sbjct: 175 GAAGGS 180

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449435134|ref|XP_004135350.1| PREDICTED: nifU-like protein 2, chloroplastic-like [Cucumis sativus]

 Score =  253 bits (647), Expect = 2e-65,   Method: Compositional matrix adjust.
 Identities = 135/189 (71%), Positives = 151/189 (79%), Gaps = 11/189 (5%)

Query: 1   MQGVVLNPS---YSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLI 57
           MQ V+LN +   Y+R  QTL+SPSCSR  +     FF  R  ++ WR      SCR L I
Sbjct: 1   MQAVLLNLNTSPYTRSPQTLESPSCSR--NFKVSRFFVLR-HVSPWRK-----SCRSLRI 52

Query: 58  RKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRL 117
           R   ++R   I+AVATP+SA+ELPLT EN+ESVLDE+RPYLI+DGGNVALHEIDGNVVRL
Sbjct: 53  RLPSSSRTRFIRAVATPNSALELPLTVENVESVLDEVRPYLIADGGNVALHEIDGNVVRL 112

Query: 118 KLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRP 177
           KLQGACGSCPSSV TMKMGIERRLMEKIPEIVAVE +ADEETGLELNEENIEKVLEEIRP
Sbjct: 113 KLQGACGSCPSSVTTMKMGIERRLMEKIPEIVAVEPIADEETGLELNEENIEKVLEEIRP 172

Query: 178 YLVGAAANS 186
           YLVGAA  S
Sbjct: 173 YLVGAAGGS 181

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129660|ref|XP_002328771.1| predicted protein [Populus trichocarpa] gi|222839069|gb|EEE77420.1| predicted protein [Populus trichocarpa]

 Score =  246 bits (629), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 134/195 (68%), Positives = 147/195 (75%), Gaps = 16/195 (8%)

Query: 1   MQGVVLNPSYSRPHQTLDSPSCSRP----ASKSTKSFFGERVSLTRW--RNPVCHSSCRL 54
           MQ VV NP++    QTLD+ SCS P      KS K FFG  V       R   CHS    
Sbjct: 1   MQSVVWNPTHCSAQQTLDT-SCSSPLPLLHHKSCKGFFGAHVRSANQLRRGTPCHS---- 55

Query: 55  LLIRKR---GAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEID 111
             +R R      RR V+KAVATPDSA+ELPLTA+N+ESVLDE+RPYLISDGGNVALHEID
Sbjct: 56  --LRARLPSFTQRRLVVKAVATPDSAVELPLTADNVESVLDEVRPYLISDGGNVALHEID 113

Query: 112 GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKV 171
           GNVVRLKLQGAC SC +SV TMKMGIERRLMEKIPEIVAVE+++DEETGLEL EENIEKV
Sbjct: 114 GNVVRLKLQGACSSCSASVTTMKMGIERRLMEKIPEIVAVEAISDEETGLELKEENIEKV 173

Query: 172 LEEIRPYLVGAAANS 186
           LEEIRPYLVGAA  S
Sbjct: 174 LEEIRPYLVGAAGGS 188

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449503323|ref|XP_004161945.1| PREDICTED: nifU-like protein 2, chloroplastic-like [Cucumis sativus]

 Score =  232 bits (591), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 119/154 (77%), Positives = 130/154 (84%), Gaps = 6/154 (3%)

Query: 33  FFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLD 92
           FF  R  ++ WR      SCR L IR   ++R   I+AVATP+SA+ELPLT EN+ESVLD
Sbjct: 22  FFVLR-HVSPWRK-----SCRSLRIRLPSSSRTRFIRAVATPNSALELPLTVENVESVLD 75

Query: 93  EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVE 152
           E+RPYLI+DGGNVALHEIDGNVVRLKLQGACGSCPSSV TMKMGIERRLMEKIPEIVAVE
Sbjct: 76  EVRPYLIADGGNVALHEIDGNVVRLKLQGACGSCPSSVTTMKMGIERRLMEKIPEIVAVE 135

Query: 153 SVADEETGLELNEENIEKVLEEIRPYLVGAAANS 186
            +ADEETGLELNEENIEKVLEEIRPYLVGAA  S
Sbjct: 136 PIADEETGLELNEENIEKVLEEIRPYLVGAAGGS 169

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225448154|ref|XP_002264418.1| PREDICTED: nifU-like protein 2, chloroplastic [Vitis vinifera] gi|297739542|emb|CBI29724.3| unnamed protein product [Vitis vinifera]

 Score =  231 bits (589), Expect = 9e-59,   Method: Compositional matrix adjust.
 Identities = 114/123 (92%), Positives = 118/123 (95%)

Query: 64  RRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGAC 123
           R  V+KAVATPDSA+ELPLTAEN+ESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGAC
Sbjct: 59  RSRVVKAVATPDSAVELPLTAENVESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGAC 118

Query: 124 GSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAA 183
           GSCPSSVMTMKMGIERRLMEKIPEIVAVE +ADEETGLELNEENIEKVLEEIRPYLVGAA
Sbjct: 119 GSCPSSVMTMKMGIERRLMEKIPEIVAVEPIADEETGLELNEENIEKVLEEIRPYLVGAA 178

Query: 184 ANS 186
             S
Sbjct: 179 GGS 181

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297792273|ref|XP_002864021.1| hypothetical protein ARALYDRAFT_331396 [Arabidopsis lyrata subsp. lyrata] gi|297309856|gb|EFH40280.1| hypothetical protein ARALYDRAFT_331396 [Arabidopsis lyrata subsp. lyrata]

 Score =  224 bits (570), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 126/189 (66%), Positives = 140/189 (74%), Gaps = 4/189 (2%)

Query: 1   MQGVVLNPS-YSR-PHQTLDSPSCSRPASKSTKSFFGERVSLTRWR-NPVCHSSCRLLLI 57
           MQ + LNP+  SR P Q LD  S SR             + L  W  NP+     R L  
Sbjct: 1   MQLLTLNPAAISRTPSQALDPSSSSRLLPSPQILSSQRALGLVAWPCNPLRRGLSRSLSS 60

Query: 58  RKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRL 117
           R+    R  V+KAVATPD  +E+PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGN+VR+
Sbjct: 61  RQL-FRRSKVVKAVATPDPILEVPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNIVRV 119

Query: 118 KLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRP 177
           KLQGACGSCPSS MTMKMGIERRLMEKIPEIVAVE+VADEETGLELNEENIEKVLEEIRP
Sbjct: 120 KLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEAVADEETGLELNEENIEKVLEEIRP 179

Query: 178 YLVGAAANS 186
           YL+G A  S
Sbjct: 180 YLIGTADGS 188

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445313|ref|XP_003592934.1| NifU-like protein [Medicago truncatula] gi|355481982|gb|AES63185.1| NifU-like protein [Medicago truncatula]

 Score =  222 bits (566), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 122/186 (65%), Positives = 134/186 (72%), Gaps = 8/186 (4%)

Query: 1   MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKR 60
           MQGVV+  + S     L   S +R   K    FFG  +      N        L   +  
Sbjct: 1   MQGVVVLNTQSYCRTVLQPSSFTR---KVGTMFFGPNLPFRSTSNNHLLPPPSLCFHKPP 57

Query: 61  GAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQ 120
            A     IKAVA P+ A+ELPLTAEN+E+VLDEIRPYLISDGGNVALHEIDGNVVRLKLQ
Sbjct: 58  FA-----IKAVAIPNPAVELPLTAENVETVLDEIRPYLISDGGNVALHEIDGNVVRLKLQ 112

Query: 121 GACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLV 180
           GACGSCPSSVMTMKMGIERRLMEKIPEIVAVE V DEETGLELN+ENIEKVLEE+RPYLV
Sbjct: 113 GACGSCPSSVMTMKMGIERRLMEKIPEIVAVEPVTDEETGLELNDENIEKVLEELRPYLV 172

Query: 181 GAAANS 186
           GAA  +
Sbjct: 173 GAAGGT 178

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|8777425|dbj|BAA97015.1| unnamed protein product [Arabidopsis thaliana]

 Score =  218 bits (556), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 122/190 (64%), Positives = 140/190 (73%), Gaps = 5/190 (2%)

Query: 1   MQGVVLNPS-YSR-PHQTLDSPSCSRPASKSTKSFFGERVS--LTRWRNPVCHSSCRLLL 56
           MQ + LNP+  SR P Q +D  S S       +    +R    + R  NP+     R L 
Sbjct: 1   MQLLTLNPAAISRTPPQAIDPSSSSSLLLPFPQILSSQRALGLVARPCNPLRRGLSRFLS 60

Query: 57  IRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVR 116
            R+    R  V+KAVATPD  +E+PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGN+VR
Sbjct: 61  SRQL-FRRSKVVKAVATPDPILEVPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNIVR 119

Query: 117 LKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIR 176
           +KLQGACGSCPSS MTMKMGIERRLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIR
Sbjct: 120 VKLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIR 179

Query: 177 PYLVGAAANS 186
           PYL+G A  S
Sbjct: 180 PYLIGTADGS 189

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18423084|ref|NP_568715.1| NifU-like protein 2 [Arabidopsis thaliana] gi|75163219|sp|Q93W20.1|NIFU2_ARATH RecName: Full=NifU-like protein 2, chloroplastic; Short=AtCNfu2; Short=AtCnfU-V; Flags: Precursor gi|13878181|gb|AAK44168.1|AF370353_1 unknown protein [Arabidopsis thaliana] gi|16226434|gb|AAL16167.1|AF428399_1 AT5g49940/K9P8_8 [Arabidopsis thaliana] gi|17104539|gb|AAL34158.1| unknown protein [Arabidopsis thaliana] gi|26452324|dbj|BAC43248.1| unknown protein [Arabidopsis thaliana] gi|28207818|emb|CAD55559.1| NFU2 protein [Arabidopsis thaliana] gi|332008490|gb|AED95873.1| NifU-like protein 2 [Arabidopsis thaliana]

 Score =  218 bits (556), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 122/190 (64%), Positives = 140/190 (73%), Gaps = 5/190 (2%)

Query: 1   MQGVVLNPS-YSR-PHQTLDSPSCSRPASKSTKSFFGERVS--LTRWRNPVCHSSCRLLL 56
           MQ + LNP+  SR P Q +D  S S       +    +R    + R  NP+     R L 
Sbjct: 1   MQLLTLNPAAISRTPPQAIDPSSSSSLLLPFPQILSSQRALGLVARPCNPLRRGLSRFLS 60

Query: 57  IRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVR 116
            R+    R  V+KAVATPD  +E+PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGN+VR
Sbjct: 61  SRQL-FRRSKVVKAVATPDPILEVPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNIVR 119

Query: 117 LKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIR 176
           +KLQGACGSCPSS MTMKMGIERRLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIR
Sbjct: 120 VKLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIR 179

Query: 177 PYLVGAAANS 186
           PYL+G A  S
Sbjct: 180 PYLIGTADGS 189

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|346467251|gb|AEO33470.1| hypothetical protein [Amblyomma maculatum]

 Score =  214 bits (546), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 103/121 (85%), Positives = 110/121 (90%)

Query: 64  RRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGAC 123
           R   IKA+ATPD  +ELPLTAEN+ESVLDE+RPYLISDGGNVALHEIDGNVVRLKLQGAC
Sbjct: 76  RNQAIKAIATPDPVLELPLTAENVESVLDEVRPYLISDGGNVALHEIDGNVVRLKLQGAC 135

Query: 124 GSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAA 183
           GSCPSSVMTMKMGI+RRLMEKIPEIVAVE V DEETGLELN ENIEKVL++IRPYLVG  
Sbjct: 136 GSCPSSVMTMKMGIQRRLMEKIPEIVAVEPVTDEETGLELNNENIEKVLDKIRPYLVGTG 195

Query: 184 A 184
            
Sbjct: 196 G 196

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

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	186
TAIR|locus:2158849	235	NFU2 "NIFU-like protein 2" [Ar	0.994	0.787	0.642	7e-54
TAIR|locus:2120745	236	NFU3 "NFU domain protein 3" [A	0.548	0.432	0.737	9.2e-36
UNIPROTKB|P74558	76	ssl2667 "NifU protein" [Synech	0.403	0.986	0.653	2.3e-23
TAIR|locus:2141400	231	NFU1 "NFU domain protein 1" [A	0.543	0.437	0.475	1.4e-18
UNIPROTKB|Q81XP7	78	BAS4821 "NifU domain protein"	0.413	0.987	0.506	7.5e-18
TIGR_CMR|BA_5186	78	BA_5186 "nifU domain protein"	0.413	0.987	0.506	7.5e-18
UNIPROTKB|B4M375	298	GJ19011 "NFU1 iron-sulfur clus	0.483	0.302	0.402	1.7e-15
UNIPROTKB|Q74FX2	74	GSU0480 "Thioredoxin/NifU-like	0.370	0.932	0.569	3.3e-15
TIGR_CMR|GSU_0480	74	GSU_0480 "NifU-like domain pro	0.370	0.932	0.569	3.3e-15
FB|FBgn0052500	283	CG32500 [Drosophila melanogast	0.505	0.332	0.416	6.9e-15

TAIR|locus:2158849 NFU2 "NIFU-like protein 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 557 (201.1 bits), Expect = 7.0e-54, P = 7.0e-54
 Identities = 122/190 (64%), Positives = 140/190 (73%)

Query:     1 MQGVVLNPS-YSR-PHQTLDSPSCSRPASKSTKSFFGERVS--LTRWRNPVCHSSCRLLL 56
             MQ + LNP+  SR P Q +D  S S       +    +R    + R  NP+     R L 
Sbjct:     1 MQLLTLNPAAISRTPPQAIDPSSSSSLLLPFPQILSSQRALGLVARPCNPLRRGLSRFLS 60

Query:    57 IRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVR 116
              R+    R  V+KAVATPD  +E+PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGN+VR
Sbjct:    61 SRQL-FRRSKVVKAVATPDPILEVPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNIVR 119

Query:   117 LKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIR 176
             +KLQGACGSCPSS MTMKMGIERRLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIR
Sbjct:   120 VKLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIR 179

Query:   177 PYLVGAAANS 186
             PYL+G A  S
Sbjct:   180 PYLIGTADGS 189

GO:0005506 "iron ion binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016226 "iron-sulfur cluster assembly" evidence=IEA;IGI;IMP

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

GO:0005198 "structural molecule activity" evidence=TAS

GO:0009658 "chloroplast organization" evidence=IMP

GO:0009570 "chloroplast stroma" evidence=IDA

TAIR|locus:2120745 NFU3 "NFU domain protein 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 386 (140.9 bits), Expect = 9.2e-36, P = 9.2e-36
 Identities = 76/103 (73%), Positives = 88/103 (85%)

Query:    80 LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIER 139
             +PLT EN+E VLDE+RP L++DGGNVALHEIDG VV LKLQGACGSCPSS MT+KMGIE 
Sbjct:    82 MPLTEENVERVLDEVRPSLMADGGNVALHEIDGLVVVLKLQGACGSCPSSSMTLKMGIES 141

Query:   140 RLMEKIPEIVAVESVADEETG-LELNEENIEKVLEEIRPYLVG 181
             RL +KIPEI++VE   + ETG LELN+ENIEKVL E+RPYL G
Sbjct:   142 RLRDKIPEIMSVEQFLESETGGLELNDENIEKVLSELRPYLSG 184

GO:0005506 "iron ion binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;ISS;IDA

GO:0016226 "iron-sulfur cluster assembly" evidence=IEA;IGI;ISS

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

GO:0005198 "structural molecule activity" evidence=TAS

GO:0009658 "chloroplast organization" evidence=ISS

GO:0009570 "chloroplast stroma" evidence=IDA

UNIPROTKB|P74558 ssl2667 "NifU protein" [Synechocystis sp. PCC 6803 substr. Kazusa (taxid:1111708)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 49/75 (65%), Positives = 63/75 (84%)

Query:    80 LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIER 139
             + LT  N+E+VLDE+RPYL++DGGNV + E+DG +V+++LQGACGSCPSS MT+KMGIER
Sbjct:     1 MELTLNNVETVLDELRPYLMADGGNVEVVELDGPIVKVRLQGACGSCPSSTMTLKMGIER 60

Query:   140 RLMEKIPEIVAVESV 154
             +L E IPEI  VE V
Sbjct:    61 KLREMIPEIAEVEQV 75

GO:0016226 "iron-sulfur cluster assembly" evidence=IDA

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

TAIR|locus:2141400 NFU1 "NFU domain protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 224 (83.9 bits), Expect = 1.4e-18, P = 1.4e-18
 Identities = 49/103 (47%), Positives = 67/103 (65%)

Query:    76 SAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKM 135
             SA    LT +N++ VL+++RP+LISDGGNV +  ++  VV LKLQGAC SCPSS  TM M
Sbjct:    79 SAQTFDLTPQNVDLVLEDVRPFLISDGGNVDVVSVEDGVVSLKLQGACTSCPSSSTTMTM 138

Query:   136 GIERRLMEKIPEIVA-VESVADEETGLELNEENIEKVLEEIRP 177
             GIER L EK  + +  +  V DEE   ++  E +   L+ +RP
Sbjct:   139 GIERVLKEKFGDALKDIRQVFDEEVK-QITVEAVNAHLDILRP 180

GO:0005506 "iron ion binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016226 "iron-sulfur cluster assembly" evidence=IEA;IGI;ISS

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

GO:0005198 "structural molecule activity" evidence=TAS

GO:0009658 "chloroplast organization" evidence=ISS

UNIPROTKB|Q81XP7 BAS4821 "NifU domain protein" [Bacillus anthracis (taxid:1392)]

 Score = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 39/77 (50%), Positives = 58/77 (75%)

Query:    78 IELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGI 137
             +E P   E +  VLD++RP+L+ DGG+V L +I+  +V+L+L GACGSCPSS +T+K GI
Sbjct:     1 MENPHMQEQVLEVLDKLRPFLLRDGGDVELVDIEEGIVKLRLMGACGSCPSSTITLKAGI 60

Query:   138 ERRLMEKIPEIVAVESV 154
             ER L+E++P ++ VE V
Sbjct:    61 ERALLEEVPGVIEVEQV 77

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|BA_5186 BA_5186 "nifU domain protein" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 39/77 (50%), Positives = 58/77 (75%)

Query:    78 IELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGI 137
             +E P   E +  VLD++RP+L+ DGG+V L +I+  +V+L+L GACGSCPSS +T+K GI
Sbjct:     1 MENPHMQEQVLEVLDKLRPFLLRDGGDVELVDIEEGIVKLRLMGACGSCPSSTITLKAGI 60

Query:   138 ERRLMEKIPEIVAVESV 154
             ER L+E++P ++ VE V
Sbjct:    61 ERALLEEVPGVIEVEQV 77

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|B4M375 GJ19011 "NFU1 iron-sulfur cluster scaffold homolog, mitochondrial" [Drosophila virilis (taxid:7244)]

 Score = 175 (66.7 bits), Expect = 1.7e-15, Sum P(2) = 1.7e-15
 Identities = 37/92 (40%), Positives = 56/92 (60%)

Query:    83 TAENIESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRL 141
             T   I+ +LD  IRP +  DGG++     +  +V+LK+QG+C SCPSS++T+K G++  L
Sbjct:   186 TVMMIKELLDTRIRPTVQEDGGDIVFMGYENGIVKLKMQGSCSSCPSSIVTLKNGVQNML 245

Query:   142 MEKIPEIVAVESVADEETGLELNE-ENIEKVL 172
                IPE+ +VE V D+   +   E E  EK L
Sbjct:   246 QFYIPEVESVEQVFDDADKMANKEFERFEKSL 277

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q74FX2 GSU0480 "Thioredoxin/NifU-like domain protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 41/72 (56%), Positives = 53/72 (73%)

Query:    85 ENIESVLDEIRPYLISDGGNVALHEI--DGNVVRLKLQGACGSCPSSVMTMKMGIERRLM 142
             E+++ VLD +RP L +DGG+V L E+  DG VV++KL GACG CP S MT+KMGIER L 
Sbjct:     3 EDVKKVLDLVRPALQADGGDVELVEVTEDG-VVKVKLVGACGHCPMSTMTLKMGIERTLK 61

Query:   143 EKIPEIVAVESV 154
             EK+P +  V SV
Sbjct:    62 EKVPGVKEVVSV 73

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|GSU_0480 GSU_0480 "NifU-like domain protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 41/72 (56%), Positives = 53/72 (73%)

Query:    85 ENIESVLDEIRPYLISDGGNVALHEI--DGNVVRLKLQGACGSCPSSVMTMKMGIERRLM 142
             E+++ VLD +RP L +DGG+V L E+  DG VV++KL GACG CP S MT+KMGIER L 
Sbjct:     3 EDVKKVLDLVRPALQADGGDVELVEVTEDG-VVKVKLVGACGHCPMSTMTLKMGIERTLK 61

Query:   143 EKIPEIVAVESV 154
             EK+P +  V SV
Sbjct:    62 EKVPGVKEVVSV 73

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

FB|FBgn0052500 CG32500 [Drosophila melanogaster (taxid:7227)]

 Score = 189 (71.6 bits), Expect = 6.9e-15, P = 6.9e-15
 Identities = 40/96 (41%), Positives = 61/96 (63%)

Query:    83 TAENIESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRL 141
             T   I+ +LD  IRP +  DGG++     +G VV+LK+QG+C SCPSS++T+K G++  L
Sbjct:   178 TVMMIKELLDTRIRPTVQEDGGDIVFMGYEGGVVKLKMQGSCSSCPSSIVTLKNGVQNML 237

Query:   142 MEKIPEIVAVESVADE-ETGLELNEENIEKVLEEIR 176
                IPE+ +VE V DE +  +E   E  EK L+ ++
Sbjct:   238 QFYIPEVESVEQVFDEADRMIESEFERFEKNLKTLK 273

GO:0016226 "iron-sulfur cluster assembly" evidence=IEA

GO:0005506 "iron ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0008026 "ATP-dependent helicase activity" evidence=IEA

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

GO:0005737 "cytoplasm" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q93W20	NIFU2_ARATH	No assigned EC number	0.6421	0.9946	0.7872	yes	no

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

Fail to connect to STRING server

---

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	186
pfam01106	68	pfam01106, NifU, NifU-like domain	3e-28
COG0694	93	COG0694, COG0694, Thioredoxin-like proteins and do	2e-25
TIGR02000	290	TIGR02000, NifU_proper, Fe-S cluster assembly prot	6e-18
TIGR03341	190	TIGR03341, YhgI_GntY, IscR-regulated protein YhgI	7e-13
PRK11190	192	PRK11190, PRK11190, Fe/S biogenesis protein NfuA;	2e-08

>gnl|CDD|144628 pfam01106, NifU, NifU-like domain

 Score =   99 bits (250), Expect = 3e-28
 Identities = 37/68 (54%), Positives = 52/68 (76%)

Query: 87  IESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIP 146
           IE V+DEIRP L  DGG++ L ++DG++V+++LQGACG C SS MT+K GIER+L E++ 
Sbjct: 1   IEEVIDEIRPMLQRDGGDIELVDVDGDIVKVRLQGACGGCMSSTMTLKGGIERKLRERLG 60

Query: 147 EIVAVESV 154
           E + V  V
Sbjct: 61  ESLRVIPV 68

This is an alignment of the carboxy-terminal domain. This is the only common region between the NifU protein from nitrogen-fixing bacteria and rhodobacterial species. The biochemical function of NifU is unknown. Length = 68

>gnl|CDD|223766 COG0694, COG0694, Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]

 Score = 93.9 bits (234), Expect = 2e-25
 Identities = 43/79 (54%), Positives = 52/79 (65%), Gaps = 3/79 (3%)

Query: 85  ENIESVLDE-IRPYLISDGGNVALHEIDG--NVVRLKLQGACGSCPSSVMTMKMGIERRL 141
           E +E VLDE IRP L  DGG+V L  ID    VV L+L GAC  CPSS +T+K GIER+L
Sbjct: 12  ERVEEVLDEKIRPQLAMDGGDVELVGIDEEDGVVYLRLGGACSGCPSSTVTLKNGIERQL 71

Query: 142 MEKIPEIVAVESVADEETG 160
            E+IPE+  VE V +   G
Sbjct: 72  KEEIPEVKEVEQVTEHARG 90

Length = 93

>gnl|CDD|233679 TIGR02000, NifU_proper, Fe-S cluster assembly protein NifU

 Score = 78.8 bits (194), Expect = 6e-18
 Identities = 44/117 (37%), Positives = 66/117 (56%), Gaps = 11/117 (9%)

Query: 48  CHSSCRLLL---IRKRGAARRNV---IKAVATPDSAIELPLTA----ENIESVLDEIRPY 97
           CH     +L   +  +GA         K    P+S  + PLT     + I+ VL+E+RP 
Sbjct: 175 CHEKIEDVLKEVLANKGATNPANAGGSKPTNKPNSGQKRPLTNVQRIQLIQKVLEEVRPV 234

Query: 98  LISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV 154
           L +DGG+V L+++DG +V + L GAC  C  S MT+  GI++RL E++ E V VE+V
Sbjct: 235 LQADGGDVELYDVDGKIVYVVLTGACSGCSMSTMTL-KGIQQRLRERLGEFVVVEAV 290

Three different but partially homologous Fe-S cluster assembly systems have been described: Isc, Suf, and Nif. The latter is associated with donation of an Fe-S cluster to nitrogenase in a number of nitrogen-fixing species. NifU, described here, consists of an N-terminal domain (pfam01592) and a C-terminal domain (pfam01106). Homologs with an equivalent domain archictecture from Helicobacter and Campylobacter, however, are excluded from this model by a high trusted cutoff. The model, therefore, is specific for NifU involved in nitrogenase maturation. The related model TIGR01999 homologous to the N-terminus of this model describes IscU from the Isc system as in E. coli, Saccharomyces cerevisiae, and Homo sapiens [Biosynthesis of cofactors, prosthetic groups, and carriers, Other, Central intermediary metabolism, Nitrogen fixation]. Length = 290

>gnl|CDD|132384 TIGR03341, YhgI_GntY, IscR-regulated protein YhgI

 Score = 63.5 bits (155), Expect = 7e-13
 Identities = 34/90 (37%), Positives = 44/90 (48%), Gaps = 7/90 (7%)

Query: 73  TPDSAIELPLTAENIESVL-DEIRPYLISDGGNVALHEI-DGNVVRLKLQGACGSCPSSV 130
             D+ +E     E I  VL  EI P L S GG V L EI D  V  L+  G C  C    
Sbjct: 101 ADDAPLE-----ERINYVLQSEINPQLASHGGKVTLVEITDDGVAVLQFGGGCNGCSMVD 155

Query: 131 MTMKMGIERRLMEKIPEIVAVESVADEETG 160
           +T+K G+E+ L+E+ PE+  V    D   G
Sbjct: 156 VTLKDGVEKTLLERFPELKGVRDATDHTRG 185

IscR (TIGR02010) is an iron-sulfur cluster-binding transcriptional regulator (see Genome Property GenProp0138). Members of this protein family include YhgI, whose expression is under control of IscR, and show sequence similarity to IscA, a known protein of iron-sulfur cluster biosynthesis. These two lines of evidence strongly suggest a role as an iron-sulfur cluster biosynthesis protein. An older study designated this protein GntY and suggested a role for it and for the product of an adjacent gene, based on complementation studies, in gluconate utilization [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 190

>gnl|CDD|183027 PRK11190, PRK11190, Fe/S biogenesis protein NfuA; Provisional

 Score = 51.2 bits (123), Expect = 2e-08
 Identities = 29/83 (34%), Positives = 44/83 (53%), Gaps = 4/83 (4%)

Query: 81  PLTAENIESVLD-EIRPYLISDGGNVALHEI-DGNVVRLKLQGACGSCPSSVMTMKMGIE 138
           PL  E +E VL  +I P L   GG V+L EI +     L+  G C  C    +T+K GIE
Sbjct: 106 PL-MERVEYVLQSQINPQLAGHGGRVSLMEITEDGYAILQFGGGCNGCSMVDVTLKEGIE 164

Query: 139 RRLMEKIP-EIVAVESVADEETG 160
           ++L+ + P E+  V  + + + G
Sbjct: 165 KQLLNEFPGELKGVRDLTEHQRG 187

Length = 192

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	186
PF01106	68	NifU: NifU-like domain; InterPro: IPR001075 Iron-s	99.93
COG0694	93	Thioredoxin-like proteins and domains [Posttransla	99.92
TIGR03341	190	YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR0	99.9
PRK11190	192	Fe/S biogenesis protein NfuA; Provisional	99.89
KOG2358	213	consensus NifU-like domain-containing proteins [Po	99.88
TIGR02000	290	NifU_proper Fe-S cluster assembly protein NifU. Th	99.83
KOG2358	213	consensus NifU-like domain-containing proteins [Po	99.46
PF08712	87	Nfu_N: Scaffold protein Nfu/NifU N terminal; Inter	98.53
PF01883	72	DUF59: Domain of unknown function DUF59; InterPro:	96.28
TIGR02000	290	NifU_proper Fe-S cluster assembly protein NifU. Th	91.22
TIGR02945	99	SUF_assoc FeS assembly SUF system protein. Members	89.25
COG1941	247	FrhG Coenzyme F420-reducing hydrogenase, gamma sub	87.85
COG2151	111	PaaD Predicted metal-sulfur cluster biosynthetic e	87.04
TIGR03406	174	FeS_long_SufT probable FeS assembly SUF system pro	83.64

>PF01106 NifU: NifU-like domain; InterPro: IPR001075 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron

Probab=99.93  E-value=1.4e-25  Score=159.05  Aligned_cols=68  Identities=56%  Similarity=0.949  Sum_probs=65.1

Q ss_pred             HHHHHHHhcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEc
Q 029891           87 IESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (186)
Q Consensus        87 V~~~Ld~IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v  154 (186)
                      |+++|++|||+|++||||++|+++++++|+|||+|+|+|||++.+||+.+||++|++++|++.+|+++
T Consensus         1 V~~~l~~IrP~L~~dGGdv~lv~v~~~~V~V~l~GaC~gC~~s~~Tl~~~Ie~~L~~~~~~v~~V~~v   68 (68)
T PF01106_consen    1 VEEVLEEIRPYLQSDGGDVELVDVDDGVVYVRLTGACSGCPSSDMTLKQGIEQALREAVPEVKRVVPV   68 (68)
T ss_dssp             HHHHHHHCHHHHHHTTEEEEEEEEETTEEEEEEESSCCSSCCHHHHHHHHHHHHHHHHSTT-SEEEEC
T ss_pred             CHHHHHHhChHHHhcCCcEEEEEecCCEEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCCceEEEC
Confidence            68999999999999999999999999999999999999999999999999999999999999999875

These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the C-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal (IPR002871 from INTERPRO) and a C-terminal domain []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 2JNV_A 2Z51_A 1TH5_A 1VEH_A 1XHJ_A.

>COG0694 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]

Probab=99.92  E-value=3e-25  Score=166.58  Aligned_cols=77  Identities=55%  Similarity=0.890  Sum_probs=73.7

Q ss_pred             HHHHHHHHH-HhcchhhhCCCcEEEEEEe--CCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEccCcccc
Q 029891           84 AENIESVLD-EIRPYLISDGGNVALHEID--GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETG  160 (186)
Q Consensus        84 ~e~V~~~Ld-~IRP~L~~dGGdvelv~vd--~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~~~~~g  160 (186)
                      .++|+.+|+ +|||+|++||||++|++|+  +|+|+|||.|+|+|||||.+||+++||++|++.+|++.+|+++.+|..+
T Consensus        11 ~e~v~~~l~~~irP~l~~dGGdve~~~i~~~~g~V~l~l~GaC~gC~sS~~TLk~gIE~~L~~~i~ev~~V~~v~~~~~~   90 (93)
T COG0694          11 LERVEEVLDEKIRPQLAMDGGDVELVGIDEEDGVVYLRLGGACSGCPSSTVTLKNGIERQLKEEIPEVKEVEQVTEHARG   90 (93)
T ss_pred             HHHHHHHHHhccCcceeccCCeEEEEEEecCCCeEEEEeCCcCCCCcccHHHHHHHHHHHHHHhCCccceEEEccCcccc
Confidence            689999999 7999999999999999999  7899999999999999999999999999999999999999999998665

>TIGR03341 YhgI_GntY IscR-regulated protein YhgI

Probab=99.90  E-value=7.6e-24  Score=176.31  Aligned_cols=78  Identities=40%  Similarity=0.685  Sum_probs=75.0

Q ss_pred             HHHHHHHHH-HhcchhhhCCCcEEEEEEe-CCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEccCccccc
Q 029891           84 AENIESVLD-EIRPYLISDGGNVALHEID-GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGL  161 (186)
Q Consensus        84 ~e~V~~~Ld-~IRP~L~~dGGdvelv~vd-~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~~~~~g~  161 (186)
                      .++|+.+|+ +|||+|++||||++|++|+ +++|+|||+|+|+|||++.+||+++||++|++.+|+|++|+.+++|.+|.
T Consensus       107 ~~~i~~~l~~~irP~l~~dGGdielv~v~~~~~v~v~l~GaC~gC~~s~~Tl~~~ie~~l~~~~p~v~~V~~~~~~~~~~  186 (190)
T TIGR03341       107 EERINYVLQSEINPQLASHGGKVTLVEITDDGVAVLQFGGGCNGCSMVDVTLKDGVEKTLLERFPELKGVRDATDHTRGE  186 (190)
T ss_pred             HHHHHHHHHhccCHHHHhcCCceEEEEEcCCCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCCcceEEEecCccccC
Confidence            789999998 7999999999999999998 57999999999999999999999999999999999999999999999983

IscR (TIGR02010) is an iron-sulfur cluster-binding transcriptional regulator (see Genome Property GenProp0138). Members of this protein family include YhgI, whose expression is under control of IscR, and show sequence similarity to IscA, a known protein of iron-sulfur cluster biosynthesis. These two lines of evidence strongly suggest a role as an iron-sulfur cluster biosynthesis protein. An older study designated this protein GntY and suggested a role for it and for the product of an adjacent gene, based on complementation studies, in gluconate utilization.

>PRK11190 Fe/S biogenesis protein NfuA; Provisional

Probab=99.89  E-value=1.6e-23  Score=174.82  Aligned_cols=79  Identities=34%  Similarity=0.646  Sum_probs=75.3

Q ss_pred             cHHHHHHHHH-HhcchhhhCCCcEEEEEEe-CCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCC-CccEEEEccCccc
Q 029891           83 TAENIESVLD-EIRPYLISDGGNVALHEID-GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIP-EIVAVESVADEET  159 (186)
Q Consensus        83 ~~e~V~~~Ld-~IRP~L~~dGGdvelv~vd-~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iP-eI~~V~~v~~~~~  159 (186)
                      ..++|+.+|+ +|||+||+||||++|++|+ +++|+|||+|+|+|||+|.+||+++||++|++++| +|++|+.+++|.+
T Consensus       107 ~~~~i~~~l~~~irP~l~~dGGdielv~v~~~~~v~v~l~GaC~gC~~s~~Tl~~~Ie~~l~~~~p~~i~~v~~v~~~~~  186 (192)
T PRK11190        107 LMERVEYVLQSQINPQLAGHGGRVSLMEITEDGYAILQFGGGCNGCSMVDVTLKEGIEKQLLNEFPGELKGVRDLTEHQR  186 (192)
T ss_pred             HHHHHHHHHHhccChhHHhcCCcEEEEEEcCCCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCHhhceEEEeccccc
Confidence            3789999998 7999999999999999998 57999999999999999999999999999999999 9999999999999


Q ss_pred             cc
Q 029891          160 GL  161 (186)
Q Consensus       160 g~  161 (186)
                      |.
T Consensus       187 ~~  188 (192)
T PRK11190        187 GE  188 (192)
T ss_pred             CC
Confidence            83

>KOG2358 consensus NifU-like domain-containing proteins [Posttranslational modification, protein turnover, chaperones]

Probab=99.88  E-value=1.4e-23  Score=176.17  Aligned_cols=149  Identities=28%  Similarity=0.430  Sum_probs=123.0

Q ss_pred             CCCCCCCCCCCCCCccCCC---CCCceeeeeCCe-eEee------cCCccccchhHHHHHHhhccchhhhhhhhcCCCCc
Q 029891            8 PSYSRPHQTLDSPSCSRPA---SKSTKSFFGERV-SLTR------WRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSA   77 (186)
Q Consensus         8 ~s~~~~~~a~~spLa~~lf---~~v~~~~f~~~~-t~tr------w~~~l~~~~~~~~~~~~~~~~r~~~~~~~~~p~~~   77 (186)
                      -+|+++-++..+|||+++|   .+|..+||+++| |+++      |.- |++.+++.++++...... .+.+.......+
T Consensus        38 ~~~~~~~s~~~s~La~s~~~~~~gvv~~~~g~dfvtv~k~~ee~~w~~-L~p~i~~~~sd~g~~g~p-li~g~~~~~~~~  115 (213)
T KOG2358|consen   38 GDFATPCSAFFSPLAKSILFRDGGVVKVFFGPDFVTVTKLTEENVWSV-LDPEIPSLMSDGGNVGLP-LIDGNIVVLKLQ  115 (213)
T ss_pred             cccccccchhhcHHHHHHHhhcCCcEEEEecCCeEEEeccchhhhHhh-hchhhHHHHhccccccch-hhccchhhhhhc
Confidence            4677788888999999999   599999999999 9999      998 999999999988433222 222222222221


Q ss_pred             ---CCCCCcHHHHHHHHH-HhcchhhhCCCcEEEEEEeC--CEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEE
Q 029891           78 ---IELPLTAENIESVLD-EIRPYLISDGGNVALHEIDG--NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAV  151 (186)
Q Consensus        78 ---~~~~l~~e~V~~~Ld-~IRP~L~~dGGdvelv~vd~--g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V  151 (186)
                         .+.+.+...++..|+ +|||.|+.||||++++++|+  |.|++||+|+|.+||++.+||++|||..|+.++|+++.|
T Consensus       116 ~~~e~d~e~t~~ikelietRiRp~i~edggdi~y~g~e~g~g~v~lklqgact~cpss~vtlk~Gie~mL~~y~~eVK~v  195 (213)
T KOG2358|consen  116 GACESDPESTMTIKELIETRIRPKIQEDGGDEDYVGFETGLGLVSLKLQGACTECPSSLVTLKNGIENMLEIYVPEVKGV  195 (213)
T ss_pred             ccccCChhHHHHHHHHHHHhhhhhhhccCCceeeccccCccchHHHHHhhhhccCCcccchhhhhHHHHHHhhcceeeEE
Confidence               112344678999998 69999999999999999997  599999999999999999999999999999999999999


Q ss_pred             EEccCcc
Q 029891          152 ESVADEE  158 (186)
Q Consensus       152 ~~v~~~~  158 (186)
                      +++.|.+
T Consensus       196 ~qv~d~e  202 (213)
T KOG2358|consen  196 IQVPDAE  202 (213)
T ss_pred             EeccCcc
Confidence            9988754

>TIGR02000 NifU_proper Fe-S cluster assembly protein NifU

Probab=99.83  E-value=2.2e-20  Score=164.30  Aligned_cols=70  Identities=47%  Similarity=0.816  Sum_probs=67.2

Q ss_pred             HHHHHHHHHHhcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEc
Q 029891           84 AENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (186)
Q Consensus        84 ~e~V~~~Ld~IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v  154 (186)
                      .++|+++|++|||+|++|||||+|++|++++|+|||+|+|+|||++.+||+. ||++|++++|++..|+++
T Consensus       221 ~~~v~~~l~~irP~l~~dGGdv~lv~v~~~~v~v~l~GaC~gC~~s~~Tl~~-Ie~~l~~~~p~~~~V~~v  290 (290)
T TIGR02000       221 IQLIQKVLEEVRPVLQADGGDVELYDVDGKIVYVVLTGACSGCSMSTMTLKG-IQQRLRERLGEFVVVEAV  290 (290)
T ss_pred             HHHHHHHHHHhCchHhhcCCcEEEEEEeCCEEEEEEeeCCCCCcchHHHHHH-HHHHHHHhCCCceEEEeC
Confidence            4789999999999999999999999999999999999999999999999998 999999999999999875

Three different but partially homologous Fe-S cluster assembly systems have been described: Isc, Suf, and Nif. The latter is associated with donation of an Fe-S cluster to nitrogenase in a number of nitrogen-fixing species. NifU, described here, consists of an N-terminal domain (pfam01592) and a C-terminal domain (pfam01106). Homologs with an equivalent domain archictecture from Helicobacter and Campylobacter, however, are excluded from this model by a high trusted cutoff. The model, therefore, is specific for NifU involved in nitrogenase maturation. The related model TIGR01999 homologous to the N-terminus of this model describes IscU from the Isc system as in E. coli, Saccharomyces cerevisiae, and Homo sapiens.

>KOG2358 consensus NifU-like domain-containing proteins [Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=1.9e-14  Score=121.29  Aligned_cols=121  Identities=45%  Similarity=0.496  Sum_probs=113.2

Q ss_pred             hhhhhhcCCCCcCCCCCcHHHHHHHHHHhcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhC
Q 029891           66 NVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKI  145 (186)
Q Consensus        66 ~~~~~~~~p~~~~~~~l~~e~V~~~Ld~IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~i  145 (186)
                      .+.+....||.-...+++++.+..+|+..+|++.+|||.+-+--+++..+.++++|+|..|+.+.++++++||++||.++
T Consensus        61 gvv~~~~g~dfvtv~k~~ee~~w~~L~p~i~~~~sd~g~~g~pli~g~~~~~~~~~~~e~d~e~t~~ikelietRiRp~i  140 (213)
T KOG2358|consen   61 GVVKVFFGPDFVTVTKLTEENVWSVLDPEIPSLMSDGGNVGLPLIDGNIVVLKLQGACESDPESTMTIKELIETRIRPKI  140 (213)
T ss_pred             CcEEEEecCCeEEEeccchhhhHhhhchhhHHHHhccccccchhhccchhhhhhcccccCChhHHHHHHHHHHHhhhhhh
Confidence            45556666777777788899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccEEEEccCcccccccCHHHHHHHHHhhhhhhhcccCCC
Q 029891          146 PEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAANS  186 (186)
Q Consensus       146 PeI~~V~~v~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (186)
                      ||+-.++..-+-++|.+++.+|+|+++.+.+||+.++.+|.
T Consensus       141 ~edggdi~y~g~e~g~g~v~lklqgact~cpss~vtlk~Gi  181 (213)
T KOG2358|consen  141 QEDGGDEDYVGFETGLGLVSLKLQGACTECPSSLVTLKNGI  181 (213)
T ss_pred             hccCCceeeccccCccchHHHHHhhhhccCCcccchhhhhH
Confidence            99999999999999999999999999999999999999884

>PF08712 Nfu_N: Scaffold protein Nfu/NifU N terminal; InterPro: IPR014824 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron

Probab=98.53  E-value=6e-09  Score=77.07  Aligned_cols=52  Identities=13%  Similarity=0.286  Sum_probs=43.2

Q ss_pred             CCCCCCCCCCCCCCccCCC--CCCceeeeeCCe-eEee-----cCCccccchhHHHHHHhh
Q 029891            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLLIRKR   60 (186)
Q Consensus         8 ~s~~~~~~a~~spLa~~lf--~~v~~~~f~~~~-t~tr-----w~~~l~~~~~~~~~~~~~   60 (186)
                      -+|.+.++|.++|||++||  +||++|||++++ |+||     |+. +++.+...|++++.
T Consensus        26 ~~f~~~~~a~~spLA~~Lf~i~gV~~Vf~~~dfItVtK~~~~~W~~-l~~~I~~~I~~~l~   85 (87)
T PF08712_consen   26 FEFKSAEEASDSPLAQALFAIPGVKSVFIGDDFITVTKNPDADWED-LKPEIREVIMEFLE   85 (87)
T ss_dssp             -EEESSS-TTS-HHHHHHHTSTTEEEEEEETTEEEEEE-TTS-HHH-HHHHHHHHTH----
T ss_pred             EEeCChHHcccCHHHHHhcCCCCEeEEEEECCEEEEeeCCCCCHHH-HHHHHHHHHhhhcc
Confidence            4799999999999999999  999999999999 9999     998 99999999988753

These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This domain is found at the N terminus of NifU (from NIF system) and NifU related proteins, and in the human Nfu protein. Both of these proteins are thought to be involved in the assembly of iron-sulphur clusters, functioning as scaffolds [, ]. ; GO: 0005506 iron ion binding; PDB: 2FFM_A 1PQX_A 2K1H_A.

>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function

Probab=96.28  E-value=0.035  Score=38.53  Aligned_cols=68  Identities=24%  Similarity=0.373  Sum_probs=51.5

Q ss_pred             HHHHHHHHHH-hcchhhhC---CCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEE
Q 029891           84 AENIESVLDE-IRPYLISD---GGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (186)
Q Consensus        84 ~e~V~~~Ld~-IRP~L~~d---GGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~  153 (186)
                      +++|.++|.. .-|.+..+   =|-|+=+.++++.|+|.+.-...+|+ ....++..|+++|+ .+|++.+|..
T Consensus         1 k~~V~~aL~~v~dP~~~~~iv~~g~V~~i~i~~~~V~v~l~l~~~~~~-~~~~l~~~i~~~l~-~l~gv~~V~V   72 (72)
T PF01883_consen    1 KQAVRDALKQVKDPELGKDIVELGMVRDISIEGGKVSVSLELPTPACP-AAEPLREEIREALK-ALPGVKSVKV   72 (72)
T ss_dssp             HHHHHHHHTT-BETTTSSBTTTTTSEEEEEECTCEEEEEE--SSTTHT-THHHHHHHHHHHHH-TSTT-SEEEE
T ss_pred             CHHHHHHHhCCCCCCCCCCHHHcCCeeEEEEECCEEEEEEEECCCCch-HHHHHHHHHHHHHH-hCCCCceEeC
Confidence            3567777764 45655432   37788899999999999999999999 66679999999999 8999988863

The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.

>TIGR02000 NifU_proper Fe-S cluster assembly protein NifU

Probab=91.22  E-value=0.4  Score=42.69  Aligned_cols=65  Identities=29%  Similarity=0.370  Sum_probs=40.4

Q ss_pred             cccCCCCcchHHHHHHHHHHHHHhhCCCc---cEEEEccCcc--cc--cccCH----HHHHHHHHhhhhhhhcccCC
Q 029891          120 QGACGSCPSSVMTMKMGIERRLMEKIPEI---VAVESVADEE--TG--LELNE----ENIEKVLEEIRPYLVGAAAN  185 (186)
Q Consensus       120 ~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI---~~V~~v~~~~--~g--~~~~~----~~~~~~~~~~~~~~~~~~~~  185 (186)
                      +++.++|.+..-.++..|+..+.+. +..   .......+|.  ++  +.|+.    +.|+++|+.|||||..-||.
T Consensus       166 t~agt~CG~C~~~~~~il~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~l~~irP~l~~dGGd  241 (290)
T TIGR02000       166 TKAGGGCGSCHEKIEDVLKEVLANK-GATNPANAGGSKPTNKPNSGQKRPLTNVQRIQLIQKVLEEVRPVLQADGGD  241 (290)
T ss_pred             ccCCCCCcchHHHHHHHHHHHHHhc-cccccccccccCcccccccCcchhcChHHHHHHHHHHHHHhCchHhhcCCc
Confidence            4555566666667777777777654 211   1123333332  11  24553    68899999999999988775

Three different but partially homologous Fe-S cluster assembly systems have been described: Isc, Suf, and Nif. The latter is associated with donation of an Fe-S cluster to nitrogenase in a number of nitrogen-fixing species. NifU, described here, consists of an N-terminal domain (pfam01592) and a C-terminal domain (pfam01106). Homologs with an equivalent domain archictecture from Helicobacter and Campylobacter, however, are excluded from this model by a high trusted cutoff. The model, therefore, is specific for NifU involved in nitrogenase maturation. The related model TIGR01999 homologous to the N-terminus of this model describes IscU from the Isc system as in E. coli, Saccharomyces cerevisiae, and Homo sapiens.

>TIGR02945 SUF_assoc FeS assembly SUF system protein

Probab=89.25  E-value=3.2  Score=30.36  Aligned_cols=67  Identities=16%  Similarity=0.280  Sum_probs=47.5

Q ss_pred             HHHHHHHHHH-hcchhhhC---CCcEEEEEEeC-CEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEE
Q 029891           84 AENIESVLDE-IRPYLISD---GGNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVE  152 (186)
Q Consensus        84 ~e~V~~~Ld~-IRP~L~~d---GGdvelv~vd~-g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~  152 (186)
                      .++|.++|.. .-|.+..+   =|-|.=+.+++ +.|+|.+.-+..+|+.... ++..|+.+|.. +|++..|.
T Consensus         3 ~~~I~~~L~~v~dP~l~~~lv~~g~V~~i~v~~~~~v~i~l~l~~p~~~~~~~-l~~~i~~al~~-l~gv~~v~   74 (99)
T TIGR02945         3 KDAVIEALKTVYDPEIPVNIYELGLIYDIDVDDDGHVDIQMTLTAPNCPVAGS-MPGEVENAVRA-VPGVGSVT   74 (99)
T ss_pred             HHHHHHHHcCCCCCCCCCCeecCCCeeEEEECCCCeEEEEEEECCCCCChHHH-HHHHHHHHHHh-CCCCceEE
Confidence            4667777775 45655542   24455567775 8899999887778886655 78899998964 78887775

Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.

>COG1941 FrhG Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]

Probab=87.85  E-value=1.5  Score=38.58  Aligned_cols=57  Identities=30%  Similarity=0.485  Sum_probs=40.5

Q ss_pred             EEEEEEcccCCCCcchHHHHHHHHHHHHHhh-------------CCCccEEEEccCcccccccCHHHHHHHHHhhhh
Q 029891          114 VVRLKLQGACGSCPSSVMTMKMGIERRLMEK-------------IPEIVAVESVADEETGLELNEENIEKVLEEIRP  177 (186)
Q Consensus       114 ~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~-------------iPeI~~V~~v~~~~~g~~~~~~~~~~~~~~~~~  177 (186)
                      +.++.|. +|+||..|-..|.+.+-..|...             +|| ..|..+.+.-.    |++++|. +.|+|-
T Consensus         6 va~~~L~-gC~GC~~slldl~E~L~dll~~~div~~~~l~D~keiPE-vDValVEGsV~----~ee~lE~-v~ElRe   75 (247)
T COG1941           6 VATVWLT-GCSGCHMSLLDLYEKLLDLLEDADIVYCPTLVDEKEIPE-VDVALVEGSVC----DEEELEL-VKELRE   75 (247)
T ss_pred             EEEEEec-cccchHHHHHhHHHHHHHhhhhhcEEEeecccccccCCc-ccEEEEecccC----cHHHHHH-HHHHHH
Confidence            4556666 49999999999998888877732             777 66767766544    7778874 455553

>COG2151 PaaD Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]

Probab=87.04  E-value=3.3  Score=32.19  Aligned_cols=68  Identities=32%  Similarity=0.427  Sum_probs=48.2

Q ss_pred             cHHHHHHHHHH-hcchhhhC---CCcEEEEEEeC--CEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEE
Q 029891           83 TAENIESVLDE-IRPYLISD---GGNVALHEIDG--NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVE  152 (186)
Q Consensus        83 ~~e~V~~~Ld~-IRP~L~~d---GGdvelv~vd~--g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~  152 (186)
                      +.++|..+|.. +-|.|--|   =|=|.=+++++  +.++|+++..-.|||++.. +...++.+|++ +|.+..|+
T Consensus        13 ~~~~i~~aL~~V~DPEi~idIvdLGLVy~v~i~~~~~~v~v~mtlT~~gCP~~~~-i~~~v~~al~~-~~~v~~v~   86 (111)
T COG2151          13 TLEDILEALKTVIDPEIGIDIVDLGLVYEVDIDDVDGLVKVKMTLTSPGCPLAEV-IADQVEAALEE-IPGVEDVE   86 (111)
T ss_pred             hHHHHHHHhhcCCCcccceeeEeeccEEEEEEecCCceEEEEEecCCCCCCccHH-HHHHHHHHHHh-cCCcceEE
Confidence            35677777764 66766433   12233355654  4899999999999999987 66899999886 77676665

>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT

Probab=83.64  E-value=7.9  Score=32.11  Aligned_cols=78  Identities=15%  Similarity=0.213  Sum_probs=56.0

Q ss_pred             CCcHHHHHHHHHH-hcchhhhC---CCcEEEEEEeC---C--EEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEE
Q 029891           81 PLTAENIESVLDE-IRPYLISD---GGNVALHEIDG---N--VVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAV  151 (186)
Q Consensus        81 ~l~~e~V~~~Ld~-IRP~L~~d---GGdvelv~vd~---g--~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V  151 (186)
                      +.++++|.++|.. .-|.+..+   =|-|.=+.+++   +  .|+|+|.-...+|++... ++..|+.+|.. +|.+.+|
T Consensus        72 ~~~ee~V~eaL~tV~DPei~~nIVeLGlV~~I~Id~~~~~~~~V~I~mtLt~p~c~~~~~-L~~dV~~aL~~-l~gV~~V  149 (174)
T TIGR03406        72 EDNEDQVWEQLRTVYDPEIPVNIVDLGLVYGCRVEKLGEGQFRVDIEMTLTAPGCGMGPV-LVEDVEDKVLA-VPNVDEV  149 (174)
T ss_pred             cccHHHHHHHHcCCCCCCCCCChHHcCCeEEEEEecccCCCCEEEEEEEeCCCCCcHHHH-HHHHHHHHHHh-CCCceeE
Confidence            4557889999986 56666542   35565567776   5  899999999999987765 77889998874 7888776


Q ss_pred             E--EccCcccc
Q 029891          152 E--SVADEETG  160 (186)
Q Consensus       152 ~--~v~~~~~g  160 (186)
                      .  ...+..|.
T Consensus       150 ~V~l~~dp~W~  160 (174)
T TIGR03406       150 EVELVFDPPWS  160 (174)
T ss_pred             EEEEEecCCCC
Confidence            4  44554444

The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	186
2z51_A	154	Crystal Structure Of Arabidopsis Cnfu Involved In I		1e-50
2jnv_A	91	Solution Structure Of C-Terminal Domain Of Nifu-Lik		1e-33
1xhj_A	88	Solution Structure Of The Staphylococcus Epidermidi		9e-16
1veh_A	92	Solution Structure Of Rsgi Ruh-018, A Nifu-Like Dom		2e-12
1th5_A	74	Solution Structure Of C-Terminal Domain Of Nifu-Lik		4e-07
1th5_A	74	Solution Structure Of C-Terminal Domain Of Nifu-Lik		3e-04

>pdb|2Z51|A Chain A, Crystal Structure Of Arabidopsis Cnfu Involved In Iron- Sulfur Cluster Biosynthesis Length = 154

Iteration: 1
 Score =  195 bits (495), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 94/107 (87%), Positives = 101/107 (94%)
Query: 80  LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIER 139
           +PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGNVVR+KLQGACGSCPSS MTMKMGIER
Sbjct: 2   VPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNVVRVKLQGACGSCPSSTMTMKMGIER 61
Query: 140 RLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAANS 186
           RLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIRPYL+G A  S
Sbjct: 62  RLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGS 108

>pdb|2JNV|A Chain A, Solution Structure Of C-Terminal Domain Of Nifu-Like Protein From Oryza Sativa Length = 91

Iteration: 1
 Score =  139 bits (350), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 65/83 (78%), Positives = 76/83 (91%)
Query: 80  LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIER 139
           LPLTA N+ESVLD++RPYL +DGG+VALHEI GNVVRLKLQGACGSCPSS++T+K GIER
Sbjct: 3   LPLTAGNVESVLDQVRPYLTADGGDVALHEIAGNVVRLKLQGACGSCPSSLITIKRGIER 62
Query: 140 RLMEKIPEIVAVESVADEETGLE 162
           RLMEKIP++ AVE V D+ETGLE
Sbjct: 63  RLMEKIPDVAAVEPVTDKETGLE 85

>pdb|1XHJ|A Chain A, Solution Structure Of The Staphylococcus Epidermidis Protein Se0630. Northest Structural Genomics Consortium Target Ser8 Length = 88

Iteration: 1
 Score = 79.7 bits (195), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 33/76 (43%), Positives = 54/76 (71%)
Query: 79  ELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIE 138
           E P   + +  V++ +RP+L+ DGG+  L +++  +V+L+L GACG+CPSS +T+K GIE
Sbjct: 4   ENPTMFDQVAEVIERLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIE 63
Query: 139 RRLMEKIPEIVAVESV 154
           R L E++P ++ VE V
Sbjct: 64  RALHEEVPGVIEVEQV 79

>pdb|1VEH|A Chain A, Solution Structure Of Rsgi Ruh-018, A Nifu-Like Domain Of Hirip5 Protein From Mouse Cdna Length = 92

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 35/75 (46%), Positives = 49/75 (65%), Gaps = 1/75 (1%)
Query: 87  IESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKI 145
           I+ +LD  IRP +  DGG+V     +  +VRLKLQG+C SCPSS++T+K GI+  L   I
Sbjct: 18  IKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYI 77
Query: 146 PEIVAVESVADEETG 160
           PE+  VE V+   +G
Sbjct: 78  PEVEGVEQVSGPSSG 92

>pdb|1TH5|A Chain A, Solution Structure Of C-Terminal Domain Of Nifu-Like Protein From Oryza Sativa Length = 74

Iteration: 1
 Score = 50.8 bits (120), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 30/75 (40%), Positives = 48/75 (64%), Gaps = 7/75 (9%)
Query: 80  LPLTAENIESVLDEIRPYLI-SDGGNVALHEIDGNVVRLKLQGACGSCPSSVM-TMKMGI 137
           L L  EN+E VL+EIRPYL  + GG +    I G +V+++L G     P++V+ T+++ +
Sbjct: 2   LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTG-----PAAVVRTVRIAV 56
Query: 138 ERRLMEKIPEIVAVE 152
            ++L EKIP I  V+
Sbjct: 57  SKKLREKIPSIQIVQ 71

>pdb|1TH5|A Chain A, Solution Structure Of C-Terminal Domain Of Nifu-Like Protein From Oryza Sativa Length = 74

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 18/26 (69%), Positives = 19/26 (73%)
Query: 161 LELNEENIEKVLEEIRPYLVGAAANS 186
           LELNEEN+EKVL EIRPYL G     
Sbjct: 2   LELNEENVEKVLNEIRPYLAGTGGGG 27

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	186
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	2e-43
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	7e-21
1xhj_A	88	Nitrogen fixation protein NIFU; alpha-beta, NIFU-l	8e-39
1veh_A	92	NIFU-like protein hirip5; structural genomics, mou	6e-35
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	6e-32
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	1e-05

>2z51_A NIFU-like protein 2, chloroplast; CNFU, iron-sulfur cluster biosynthesis, metal transport; 1.35A {Arabidopsis thaliana} PDB: 2jnv_A Length = 154

 Score =  141 bits (357), Expect = 2e-43
 Identities = 92/102 (90%), Positives = 99/102 (97%)

Query: 80  LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIER 139
           +PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGNVVR+KLQGACGSCPSS MTMKMGIER
Sbjct: 2   VPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNVVRVKLQGACGSCPSSTMTMKMGIER 61

Query: 140 RLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVG 181
           RLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIRPYL+G
Sbjct: 62  RLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIG 103

>2z51_A NIFU-like protein 2, chloroplast; CNFU, iron-sulfur cluster biosynthesis, metal transport; 1.35A {Arabidopsis thaliana} PDB: 2jnv_A Length = 154

 Score = 83.3 bits (206), Expect = 7e-21
 Identities = 35/89 (39%), Positives = 55/89 (61%), Gaps = 5/89 (5%)

Query: 67  VIKAVATPDSAIELPLTAENIESVLDEIRPYLISD-GGNVALHEIDGNVVRLKLQGACGS 125
           ++   A PD    L L  ENIE VL+EIRPYLI    G++ L EI+  +V++++ G    
Sbjct: 70  IVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGSLDLVEIEDPIVKIRITGPA-- 127

Query: 126 CPSSVMTMKMGIERRLMEKIPEIVAVESV 154
             + VMT+++ + ++L EKIP I AV+ +
Sbjct: 128 --AGVMTVRVAVTQKLREKIPSIAAVQLI 154

>1xhj_A Nitrogen fixation protein NIFU; alpha-beta, NIFU-like, structural genomics, protein structur initiative, NESG, PSI; NMR {Staphylococcus epidermidis} SCOP: d.52.8.1 Length = 88

 Score =  127 bits (320), Expect = 8e-39
 Identities = 34/80 (42%), Positives = 55/80 (68%)

Query: 79  ELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIE 138
           E P   + +  V++ +RP+L+ DGG+  L +++  +V+L+L GACG+CPSS +T+K GIE
Sbjct: 4   ENPTMFDQVAEVIERLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIE 63

Query: 139 RRLMEKIPEIVAVESVADEE 158
           R L E++P ++ VE V  E 
Sbjct: 64  RALHEEVPGVIEVEQVFLEH 83

>1veh_A NIFU-like protein hirip5; structural genomics, mouse cDNA, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.52.8.1 Length = 92

 Score =  117 bits (295), Expect = 6e-35
 Identities = 36/83 (43%), Positives = 50/83 (60%), Gaps = 1/83 (1%)

Query: 79  ELPLTAENIESVLDE-IRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGI 137
           E       I+ +LD  IRP +  DGG+V     +  +VRLKLQG+C SCPSS++T+K GI
Sbjct: 10  EDDEVVAMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGI 69

Query: 138 ERRLMEKIPEIVAVESVADEETG 160
           +  L   IPE+  VE V+   +G
Sbjct: 70  QNMLQFYIPEVEGVEQVSGPSSG 92

>1th5_A NIFU1; iron-sulfur cluster binding, structural genomics, program for RICE genome research, unknown function; NMR {Oryza sativa} SCOP: d.52.8.1 Length = 74

 Score =  109 bits (274), Expect = 6e-32
 Identities = 28/77 (36%), Positives = 44/77 (57%), Gaps = 5/77 (6%)

Query: 80  LPLTAENIESVLDEIRPYLISD-GGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIE 138
           L L  EN+E VL+EIRPYL    GG +    I G +V+++L G          T+++ + 
Sbjct: 2   LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVV----RTVRIAVS 57

Query: 139 RRLMEKIPEIVAVESVA 155
           ++L EKIP I  V+ ++
Sbjct: 58  KKLREKIPSIQIVQLLS 74

>1th5_A NIFU1; iron-sulfur cluster binding, structural genomics, program for RICE genome research, unknown function; NMR {Oryza sativa} SCOP: d.52.8.1 Length = 74

 Score = 40.7 bits (96), Expect = 1e-05
 Identities = 18/21 (85%), Positives = 19/21 (90%)

Query: 161 LELNEENIEKVLEEIRPYLVG 181
           LELNEEN+EKVL EIRPYL G
Sbjct: 2   LELNEENVEKVLNEIRPYLAG 22

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	186
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	100.0
1xhj_A	88	Nitrogen fixation protein NIFU; alpha-beta, NIFU-l	99.94
1veh_A	92	NIFU-like protein hirip5; structural genomics, mou	99.94
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	99.93
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	99.9
2ltm_A	107	NFU1 iron-sulfur cluster scaffold homolog, mitoch;	98.1
2k1h_A	94	Uncharacterized protein Ser13; structural genomics	98.57
1pqx_A	91	Conserved hypothetical protein; ZR18,structure, au	98.54
2ltl_A	119	NIFU-like protein, mitochondrial; structural genom	97.86
3cq1_A	103	Putative uncharacterized protein TTHB138; DTDP-4-k	97.63
1uwd_A	103	Hypothetical protein TM0487; similar to PAAD prote	97.05
3lno_A	108	Putative uncharacterized protein; alpha-beta fold,	96.72
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	94.71
1xg8_A	111	Hypothetical protein SA0798; structural genomics,	84.68
3ux2_A	130	MIP18 family protein FAM96A; immune system, DUF59,	81.34

>2z51_A NIFU-like protein 2, chloroplast; CNFU, iron-sulfur cluster biosynthesis, metal transport; 1.35A {Arabidopsis thaliana} PDB: 2jnv_A

Probab=100.00  E-value=3.1e-33  Score=225.06  Aligned_cols=106  Identities=88%  Similarity=1.329  Sum_probs=102.3

Q ss_pred             CCCcHHHHHHHHHHhcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEccCccc
Q 029891           80 LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEET  159 (186)
Q Consensus        80 ~~l~~e~V~~~Ld~IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~~~~~  159 (186)
                      ++++.++|+++|++|||+|++||||++|++|++++|+|||+|+|+|||+|.+||+++||++|++++|+++.|+.++++..
T Consensus         2 ~~~~~e~v~~~L~~iRP~l~~dGGdvelv~v~~~~V~v~l~GaC~gC~ss~~Tlk~~Ie~~L~~~vpev~~V~~v~~~~e   81 (154)
T 2z51_A            2 VPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNVVRVKLQGACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEET   81 (154)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHTTEEEEEEEEETTEEEEEEEHHHHTCHHHHHHHHHHHHHHHHHHCTTCCEEEECCSSCC
T ss_pred             CcchHHHHHHHHHHhChHHHhcCCeEEEEEEECCEEEEEEECCCCCCCccHhHHHHHHHHHHHHhCCCceEEEEccCchh
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCHHHHHHHHHhhhhhhhcccCC
Q 029891          160 GLELNEENIEKVLEEIRPYLVGAAAN  185 (186)
Q Consensus       160 g~~~~~~~~~~~~~~~~~~~~~~~~~  185 (186)
                      +.++++++|+++|++|||||...+||
T Consensus        82 ~l~L~~~~v~~~L~~iRP~L~~~dGG  107 (154)
T 2z51_A           82 GLELNEENIEKVLEEIRPYLIGTADG  107 (154)
T ss_dssp             SCCSSHHHHHHHHHHHGGGCCGGGCC
T ss_pred             hhHHHHHHHHHHHHHHHHHhhhcCCC
Confidence            99999999999999999999986666

>1xhj_A Nitrogen fixation protein NIFU; alpha-beta, NIFU-like, structural genomics, protein structur initiative, NESG, PSI; NMR {Staphylococcus epidermidis} SCOP: d.52.8.1

Probab=99.94  E-value=1.1e-27  Score=177.05  Aligned_cols=75  Identities=43%  Similarity=0.905  Sum_probs=72.3

Q ss_pred             cHHHHHHHHHHhcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEccCc
Q 029891           83 TAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADE  157 (186)
Q Consensus        83 ~~e~V~~~Ld~IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~~~  157 (186)
                      ..++|+++|++|||+||+|||||+|++|++|+|+|||+|+|+|||+|.+||+++||++|++++|+|+.|+.+++.
T Consensus         8 ~~~~I~~~L~~IRP~L~~dGGdvelv~v~~g~V~V~L~GaC~gCpss~~TLk~gIE~~L~~~vPev~~V~~v~~~   82 (88)
T 1xhj_A            8 MFDQVAEVIERLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVEQVFLE   82 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCEEEEEECCSSEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEEEEECC
T ss_pred             HHHHHHHHHHHhcHHHHhcCCeEEEEEEECCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCCceEEEecccc
Confidence            378999999999999999999999999999999999999999999999999999999999999999999998863

>1veh_A NIFU-like protein hirip5; structural genomics, mouse cDNA, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: d.52.8.1

Probab=99.94  E-value=4e-27  Score=175.21  Aligned_cols=77  Identities=45%  Similarity=0.783  Sum_probs=74.1

Q ss_pred             HHHHHHHHHH-hcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEccCcccc
Q 029891           84 AENIESVLDE-IRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETG  160 (186)
Q Consensus        84 ~e~V~~~Ld~-IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~~~~~g  160 (186)
                      .++|+.+|++ |||+||+|||||+|++|++|+|+|||+|+|+|||+|.+||+++||++|++++|+|+.|+.+.+|+.|
T Consensus        15 ~~~I~~~L~~~IRP~L~~dGGdvelv~v~~g~V~v~l~GaC~gC~ss~~Tlk~gIE~~L~~~vpev~~V~~v~~~~~~   92 (92)
T 1veh_A           15 VAMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGVEQVSGPSSG   92 (92)
T ss_dssp             HHHHHHHHHHTTHHHHHHHSCCCCEEEEETTEEEECCCCCCCCCHHHHHHTHHHHHHHHHHHCSSCCCEEECSCSCCC
T ss_pred             HHHHHHHHHHHhhHHHHhcCCeEEEEEEeCCEEEEEEeecCCCCCCcHHHHHHHHHHHHHHHCCCCCEEEEcCCCCCC
Confidence            6899999995 9999999999999999999999999999999999999999999999999999999999999988765

>2z51_A NIFU-like protein 2, chloroplast; CNFU, iron-sulfur cluster biosynthesis, metal transport; 1.35A {Arabidopsis thaliana} PDB: 2jnv_A

Probab=99.93  E-value=2.7e-26  Score=184.59  Aligned_cols=118  Identities=35%  Similarity=0.594  Sum_probs=101.7

Q ss_pred             eeeeCCeeEeecCCccccchhHHHHHHhhccchh------hhhhhhcCCCCcCCCCCcHHHHHHHHHHhcchhhh-CCCc
Q 029891           32 SFFGERVSLTRWRNPVCHSSCRLLLIRKRGAARR------NVIKAVATPDSAIELPLTAENIESVLDEIRPYLIS-DGGN  104 (186)
Q Consensus        32 ~~f~~~~t~trw~~~l~~~~~~~~~~~~~~~~r~------~~~~~~~~p~~~~~~~l~~e~V~~~Ld~IRP~L~~-dGGd  104 (186)
                      +-|-++....|+++ .|..|+++.+|.++++++.      .+......++...+++++.++|+++||+|||+|++ ||||
T Consensus        30 v~v~~~~V~v~l~G-aC~gC~ss~~Tlk~~Ie~~L~~~vpev~~V~~v~~~~e~l~L~~~~v~~~L~~iRP~L~~~dGGd  108 (154)
T 2z51_A           30 HEIDGNVVRVKLQG-ACGSCPSSTMTMKMGIERRLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGS  108 (154)
T ss_dssp             EEEETTEEEEEEEH-HHHTCHHHHHHHHHHHHHHHHHHCTTCCEEEECCSSCCSCCSSHHHHHHHHHHHGGGCCGGGCCE
T ss_pred             EEEECCEEEEEEEC-CCCCCCccHhHHHHHHHHHHHHhCCCceEEEEccCchhhhHHHHHHHHHHHHHHHHHhhhcCCCC
Confidence            34444667779999 9999999999999998864      33333344566666789999999999999999997 9999


Q ss_pred             EEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEc
Q 029891          105 VALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (186)
Q Consensus       105 velv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v  154 (186)
                      +||++|++++|+|||+|+|++|    +|++.+||++|++++|+|++|+.+
T Consensus       109 velv~v~~~~v~v~l~Gac~~~----~Tlk~~Ie~~l~e~vP~i~~V~~~  154 (154)
T 2z51_A          109 LDLVEIEDPIVKIRITGPAAGV----MTVRVAVTQKLREKIPSIAAVQLI  154 (154)
T ss_dssp             EEEEEEETTEEEEEEESGGGGC----HHHHHHHHHHHHHHCTTCCEEEEC
T ss_pred             eEEEEEECCEEEEEEecCCccc----HhHHHHHHHHHHHHCCCccEEEeC
Confidence            9999999999999999999998    799999999999999999999864

>1th5_A NIFU1; iron-sulfur cluster binding, structural genomics, program for RICE genome research, unknown function; NMR {Oryza sativa} SCOP: d.52.8.1

Probab=99.90  E-value=1.2e-24  Score=156.07  Aligned_cols=71  Identities=38%  Similarity=0.716  Sum_probs=67.8

Q ss_pred             CCcHHHHHHHHHHhcchhhhCC-CcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEcc
Q 029891           81 PLTAENIESVLDEIRPYLISDG-GNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVA  155 (186)
Q Consensus        81 ~l~~e~V~~~Ld~IRP~L~~dG-Gdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~  155 (186)
                      +++.++|+++|++|||+|++|| ||++|++|++++|+|||+|+|+||    +||+++||++|++++|+|++|+.++
T Consensus         3 ~~~~~~V~~~L~~iRP~L~~dGGGdvelv~v~~g~V~v~l~GaC~gc----~Tlk~gIe~~L~~~vpei~~V~~v~   74 (74)
T 1th5_A            3 ELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVV----RTVRIAVSKKLREKIPSIQIVQLLS   74 (74)
T ss_dssp             CCSHHHHHHHHTTTHHHHTTTTCCCCCCCEEETTEEEECCCSSSSSS----SSHHHHHHHHHHHHCTTCSEEEECC
T ss_pred             hHHHHHHHHHHHHHhHHHHhcCCCcEEEEEEeCCEEEEEEecCCcch----HHHHHHHHHHHHHHCCCCcEEEeCC
Confidence            5679999999999999999999 999999999999999999999999    6999999999999999999999863

>2ltm_A NFU1 iron-sulfur cluster scaffold homolog, mitoch; structural genomics, northeast structural genomics consortiu PSI-biology; NMR {Homo sapiens}

Probab=98.10  E-value=2.8e-09  Score=81.03  Aligned_cols=53  Identities=15%  Similarity=0.270  Sum_probs=49.9

Q ss_pred             CCCCCCCCCCCCCCccCCC--CCCceeeeeCCe-eEee------cCCccccchhHHHHHHhhc
Q 029891            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR------WRNPVCHSSCRLLLIRKRG   61 (186)
Q Consensus         8 ~s~~~~~~a~~spLa~~lf--~~v~~~~f~~~~-t~tr------w~~~l~~~~~~~~~~~~~~   61 (186)
                      .+|.++++|..||||++||  +||+.|||+++| ||||      |+. +++.+...|++++++
T Consensus        38 ~eF~~~~~a~~SPLA~~LF~i~gVk~Vf~g~dFITVtK~~~~~dW~~-ikp~V~~~I~~~~~s   99 (107)
T 2ltm_A           38 MDFPTPAAAFRSPLARQLFRIEGVKSVFFGPDSITVTKENEELDWNL-LKPDIYATIMDFFAS   99 (107)
Confidence            6799999999999999999  999999999999 9999      998 999999999999754

>2k1h_A Uncharacterized protein Ser13; structural genomics, unknown function, PSI-2, protein struct initiative; NMR {Staphylococcus epidermidis}

Probab=98.57  E-value=4.1e-09  Score=78.35  Aligned_cols=50  Identities=10%  Similarity=0.159  Sum_probs=46.7

Q ss_pred             CCCCCCCCCCCCCCccCCC--CCCceeeeeCCe-eEee-----cCCccccchhHHHHHHh
Q 029891            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLLIRK   59 (186)
Q Consensus         8 ~s~~~~~~a~~spLa~~lf--~~v~~~~f~~~~-t~tr-----w~~~l~~~~~~~~~~~~   59 (186)
                      .+|.+.+ |..||||++||  +||++|||+++| ||||     |+. +++.+...|++.+
T Consensus        29 ~~f~~~~-a~~SPLA~~LF~i~gVk~Vf~g~dFITVtK~~~~dW~~-ikp~I~~~I~~~~   86 (94)
T 2k1h_A           29 TTYTAAQ-EGQPEFINRLFEIEGVKSIFYVLDFISIDKEDNANWNE-LLPQIENTFAKSN   86 (94)
T ss_dssp             CEECCCC-TTSCHHHHHHHTSTTEEEEEEETTEEEEEECTTCCHHH-HHHHHHHHHHHHC
T ss_pred             eecCCcc-ccCCHHHHHhhCCCCeeEEEEeCCEEEEecCCCCCHHH-HHHHHHHHHHHHH
Confidence            5689998 99999999999  999999999999 9999     998 9999999999875

>1pqx_A Conserved hypothetical protein; ZR18,structure, autostructure,spins,autoassign, northeast structural genomics consortium; NMR {Staphylococcus aureus subsp} SCOP: d.267.1.1 PDB: 2ffm_A

Probab=98.54  E-value=6.9e-09  Score=76.71  Aligned_cols=47  Identities=11%  Similarity=0.150  Sum_probs=43.3

Q ss_pred             CCCCCCCCCCCCCCccCCC--CCCceeeeeCCe-eEee-----cCCccccchhHHHH
Q 029891            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLL   56 (186)
Q Consensus         8 ~s~~~~~~a~~spLa~~lf--~~v~~~~f~~~~-t~tr-----w~~~l~~~~~~~~~   56 (186)
                      .+|.+.+ |..||||++||  +||++|||+++| ||||     |+. +++.+...|+
T Consensus        29 ~~F~~~~-a~~SPLA~~LF~i~gVk~Vf~g~dFITVtK~~~~dW~~-ikp~V~~~I~   83 (91)
T 1pqx_A           29 DTYTKVD-DSQPAFINDILKVEGVKSIFHVMDFISVDKENDANWET-VLPKVEAVFE   83 (91)
T ss_dssp             EEESSSC-SSCCHHHHHHHHSTTEEEEEEETTEEEEEECTTSCSTT-THHHHHHHTC
T ss_pred             eEeCCcc-ccCCHHHHHhhCCCCeeEEEEeCCEEEEecCCCCCHHH-HHHHHHHHHH
Confidence            5788988 99999999999  999999999999 9999     998 8998887765

>2ltl_A NIFU-like protein, mitochondrial; structural genomics, northeast structural consortium, NESG, PSI-biology; NMR {Saccharomyces cerevisiae}

Probab=97.86  E-value=1.7e-08  Score=77.94  Aligned_cols=53  Identities=11%  Similarity=0.168  Sum_probs=49.0

Q ss_pred             CCCCCCCCCC--CCCCccCCC---CCCceeeeeCCe-eEee-----cCCccccchhHHHHHHhhc
Q 029891            8 PSYSRPHQTL--DSPSCSRPA---SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLLIRKRG   61 (186)
Q Consensus         8 ~s~~~~~~a~--~spLa~~lf---~~v~~~~f~~~~-t~tr-----w~~~l~~~~~~~~~~~~~~   61 (186)
                      .+|.++++|.  .||||++||   +||+.|||+++| ||||     |+. +++.+...|++++++
T Consensus        48 ~~f~~~~~a~~~~SPLA~~LF~~i~GV~~Vf~g~DFITVtK~~~~dW~~-ikp~I~~~I~e~~~s  111 (119)
T 2ltl_A           48 IVIKNTDENLINHSKLAQQIFLQCPGVESLMIGDDFLTINKDRMVHWNS-IKPEIIDLLTKQLAY  111 (119)
Confidence            4689999998  899999999   799999999999 9999     998 999999999998654

>3cq1_A Putative uncharacterized protein TTHB138; DTDP-4-keto-L-rhamnose reductase, plasmid, oxidoreductase, structural genomics, NPPSFA; 1.90A {Thermus thermophilus} PDB: 2cu6_A 3cq2_A 3cq3_A*

Probab=97.63  E-value=0.00018  Score=52.75  Aligned_cols=69  Identities=16%  Similarity=0.227  Sum_probs=59.3

Q ss_pred             cHHHHHHHHHH-hcchhhhCC---CcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEE
Q 029891           83 TAENIESVLDE-IRPYLISDG---GNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (186)
Q Consensus        83 ~~e~V~~~Ld~-IRP~L~~dG---Gdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~  153 (186)
                      ++++|.++|.. +.|.+..+-   |-|.=+.++++.|+|.+.-.+.+||.. ..++..|+++|+ .+|.+..|+.
T Consensus         7 ~~~~V~~aL~~V~DPel~~~iv~lG~V~~v~v~~~~V~v~l~lt~~~cp~~-~~l~~~i~~al~-~l~gv~~V~V   79 (103)
T 3cq1_A            7 LEAQAWALLEAVYDPELGLDVVNLGLIYDLVVEPPRAYVRMTLTTPGCPLH-DSLGEAVRQALS-RLPGVEEVEV   79 (103)
T ss_dssp             HHHHHHHHHTTCBCTTTCSBTTTTTCEEEEEEETTEEEEEECCSSSSCCSS-CHHHHHHHHHHH-TSTTCCEEEE
T ss_pred             HHHHHHHHHhCCCCCCCCcCchhcCceEEEEEECCEEEEEEEECCCCCcHH-HHHHHHHHHHHH-hCCCceeEEE
Confidence            57889999987 789998876   888889999999999999999999985 458899999997 5899887753

>1uwd_A Hypothetical protein TM0487; similar to PAAD protein, alpha/beta fold,structural genomics joint center for structural genomics, JCSG; NMR {Thermotoga maritima} SCOP: d.52.8.2 PDB: 1wcj_A

Probab=97.05  E-value=0.0022  Score=46.80  Aligned_cols=70  Identities=26%  Similarity=0.249  Sum_probs=56.7

Q ss_pred             CcHHHHHHHHHHhc-chhhhCC---CcEEEEEEeC-CEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEE
Q 029891           82 LTAENIESVLDEIR-PYLISDG---GNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (186)
Q Consensus        82 l~~e~V~~~Ld~IR-P~L~~dG---Gdvelv~vd~-g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~  153 (186)
                      .+.++|.++|..|. |.+..+-   |-|.=+.+++ |.|+|.+.-.+.+||.. ..++..|+++|+ .+|++..|..
T Consensus         6 ~~~~~V~~aL~~V~DPel~~~iv~lG~V~~v~v~~~~~V~v~l~lt~~~cp~~-~~l~~~i~~al~-~l~gv~~v~V   80 (103)
T 1uwd_A            6 VTKEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQNNVKVLMTMTTPMCPLA-GMILSDAEEAIK-KIEGVNNVEV   80 (103)
T ss_dssp             CCHHHHHHHHTTCBCTTTSSBTTTTTCCCCEEECTTCEEEEEECCSSSCCSSH-HHHHHHHHHHHH-TSSSCCEEEE
T ss_pred             chHHHHHHHHcCCCCCCCCcChhhcCCeeEEEEcCCCEEEEEEEECCCCCcHH-HHHHHHHHHHHH-hCCCcceEEE
Confidence            36789999999754 8887655   6677778885 89999999999999974 568899999997 5898887753

>3lno_A Putative uncharacterized protein; alpha-beta fold, structural genomics, center for structural genomics of infectious diseases, csgid; 2.10A {Bacillus anthracis} SCOP: d.52.8.0

Probab=96.72  E-value=0.0039  Score=46.12  Aligned_cols=70  Identities=21%  Similarity=0.274  Sum_probs=56.4

Q ss_pred             cHHHHHHHHHH-hcchhhhC---CCcEEEEEEeC-CEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEE
Q 029891           83 TAENIESVLDE-IRPYLISD---GGNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (186)
Q Consensus        83 ~~e~V~~~Ld~-IRP~L~~d---GGdvelv~vd~-g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~  153 (186)
                      +.++|..+|.. +-|.+..+   -|-|.=+.+++ |.|+|.|.-...+||... .++..|+++|+..+|++.+|..
T Consensus         9 ~~~~V~~aL~~V~DPe~~~~Iv~lG~V~~I~v~~~~~V~V~ltlt~p~cp~~~-~i~~~i~~al~~~l~Gv~~V~V   83 (108)
T 3lno_A            9 FENKLYANLEAVIDPELGVDIVNLGLVYDVTADENNNAVITMTMTSIGCPMAG-QIVSDVKKVLSTNVPEVNEIEV   83 (108)
T ss_dssp             HHHHHHHHGGGCEETTTTEEHHHHTCEEEEEECTTCCEEEEECCSCTTCTTHH-HHHHHHHHHHHHHCTTCCCEEE
T ss_pred             hHHHHHHHHcCCCCCCCCCCHHHcCCceEEEECCCCeEEEEEEECCCCCcHHH-HHHHHHHHHHHHhCCCCceEEE
Confidence            46778888876 57776533   47788888885 899999999999999875 6889999999777999987753

>1th5_A NIFU1; iron-sulfur cluster binding, structural genomics, program for RICE genome research, unknown function; NMR {Oryza sativa} SCOP: d.52.8.1

Probab=94.71  E-value=0.013  Score=41.41  Aligned_cols=24  Identities=71%  Similarity=1.124  Sum_probs=21.8

Q ss_pred             ccCHHHHHHHHHhhhhhhhcccCC
Q 029891          162 ELNEENIEKVLEEIRPYLVGAAAN  185 (186)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~  185 (186)
                      +++.++|+++|++|||||..-|||
T Consensus         3 ~~~~~~V~~~L~~iRP~L~~dGGG   26 (74)
T 1th5_A            3 ELNEENVEKVLNEIRPYLAGTGGG   26 (74)
T ss_dssp             CCSHHHHHHHHTTTHHHHTTTTCC
T ss_pred             hHHHHHHHHHHHHHhHHHHhcCCC
Confidence            578899999999999999998866

>1xg8_A Hypothetical protein SA0798; structural genomics, protein structure initative, MCSG, PSI, protein structure initiative; 2.10A {Staphylococcus aureus subsp} SCOP: c.47.1.17

Probab=84.68  E-value=1.8  Score=32.72  Aligned_cols=42  Identities=19%  Similarity=0.232  Sum_probs=26.5

Q ss_pred             CCCCcchHHHHHHHHHHHHHhhCCCc-cEEEEccCcccccccCH
Q 029891          123 CGSCPSSVMTMKMGIERRLMEKIPEI-VAVESVADEETGLELNE  165 (186)
Q Consensus       123 C~gCpss~~Tl~~~Ie~~L~~~iPeI-~~V~~v~~~~~g~~~~~  165 (186)
                      |.+=|+|.-|. +|++++|++++|+. -+++=++-+..-++|++
T Consensus        22 CVnaPSSkeTy-EWLqAal~RKyp~~~f~~~YIDI~~~~~~l~d   64 (111)
T 1xg8_A           22 CVNAPTSKDIY-DWLQPLLKRKYPNISFKYTYIDITKDNDNLTD   64 (111)
T ss_dssp             GSSSCCHHHHH-HHHHHHHHHHCTTSCEEEEEEETTTC---CCH
T ss_pred             ccCCCCchhHH-HHHHHHHhCcCCCCceEEEEEeccCCccchhH
Confidence            44447777777 89999999999975 44444444444445555

>3ux2_A MIP18 family protein FAM96A; immune system, DUF59, 3D domain swapping, protein-protein interaction, alpha and beta protein (A+B); HET: MSE; 1.80A {Homo sapiens} PDB: 3ux3_A

Probab=81.34  E-value=2.4  Score=32.67  Aligned_cols=40  Identities=13%  Similarity=0.277  Sum_probs=33.8

Q ss_pred             CCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEE
Q 029891          112 GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVE  152 (186)
Q Consensus       112 ~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~  152 (186)
                      ++.|.|.|+=.=.+||++.. +...|+.+|.+.+|...+|.
T Consensus        49 ~~~V~V~~TPT~p~Cp~a~~-I~l~Ir~kL~~~lp~~~kV~   88 (130)
T 3ux2_A           49 EYLVIIRFTPTVPHCSLATL-IGLCLRVKLQRCLPFKHKLE   88 (130)
T ss_dssp             EEEEEECCCCCCCSSCHHHH-HHHHHHHHHHHHCSSCCCCC
T ss_pred             CCeEEEEEEeCCCCCCchHH-HHHHHHHHHHHhCCCceEEE
Confidence            35799999999999999976 66899999999898876665

---

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	186
d1xhja_	88	d.52.8.1 (A:) Nitrogen fixation protein NifU homol	7e-30
d1veha_	92	d.52.8.1 (A:) HIRA-interacting protein 5, HIRIP5 {	9e-27
d1th5a1	73	d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {	2e-26
d1th5a1	73	d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {	4e-06

>d1xhja_ d.52.8.1 (A:) Nitrogen fixation protein NifU homolog SE0630 {Staphylococcus epidermidis [TaxId: 1282]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: Nitrogen fixation protein NifU homolog SE0630
species: Staphylococcus epidermidis [TaxId: 1282]

 Score =  103 bits (258), Expect = 7e-30
 Identities = 32/73 (43%), Positives = 53/73 (72%)

Query: 85  ENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEK 144
           + +  V++ +RP+L+ DGG+  L +++  +V+L+L GACG+CPSS +T+K GIER L E+
Sbjct: 10  DQVAEVIERLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALHEE 69

Query: 145 IPEIVAVESVADE 157
           +P ++ VE V  E
Sbjct: 70  VPGVIEVEQVFLE 82

>d1veha_ d.52.8.1 (A:) HIRA-interacting protein 5, HIRIP5 {Mouse (Mus musculus) [TaxId: 10090]} Length = 92

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: HIRA-interacting protein 5, HIRIP5
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 95.3 bits (237), Expect = 9e-27
 Identities = 35/77 (45%), Positives = 49/77 (63%), Gaps = 1/77 (1%)

Query: 85  ENIESVLDE-IRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLME 143
             I+ +LD  IRP +  DGG+V     +  +VRLKLQG+C SCPSS++T+K GI+  L  
Sbjct: 16  AMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQF 75

Query: 144 KIPEIVAVESVADEETG 160
            IPE+  VE V+   +G
Sbjct: 76  YIPEVEGVEQVSGPSSG 92

>d1th5a1 d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [TaxId: 4530]} Length = 73

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: NifU-like protein 1, NIFUL1
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 93.7 bits (233), Expect = 2e-26
 Identities = 28/76 (36%), Positives = 44/76 (57%), Gaps = 5/76 (6%)

Query: 80  LPLTAENIESVLDEIRPYLI-SDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIE 138
           L L  EN+E VL+EIRPYL  + GG +    I G +V+++L G          T+++ + 
Sbjct: 1   LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVV----RTVRIAVS 56

Query: 139 RRLMEKIPEIVAVESV 154
           ++L EKIP I  V+ +
Sbjct: 57  KKLREKIPSIQIVQLL 72

>d1th5a1 d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [TaxId: 4530]} Length = 73

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: NifU-like protein 1, NIFUL1
species: Rice (Oryza sativa) [TaxId: 4530]

 Score = 40.9 bits (96), Expect = 4e-06
 Identities = 18/21 (85%), Positives = 19/21 (90%)

Query: 161 LELNEENIEKVLEEIRPYLVG 181
           LELNEEN+EKVL EIRPYL G
Sbjct: 1   LELNEENVEKVLNEIRPYLAG 21

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	186
d1xhja_	88	Nitrogen fixation protein NifU homolog SE0630 {Sta	99.94
d1veha_	92	HIRA-interacting protein 5, HIRIP5 {Mouse (Mus mus	99.93
d1th5a1	73	NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [	99.9
d2ffma1	83	Hypothetical protein SAV1430 {Staphylococcus aureu	97.43
d1th5a1	73	NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [	96.69
d2cu6a1	91	Hypothetical protein TTHB138 {Thermus thermophilus	95.97
d1uwda_	102	Hypothetical protein TM0487 {Thermotoga maritima [	95.4
d1xhja_	88	Nitrogen fixation protein NifU homolog SE0630 {Sta	85.85
d1xg8a_	111	Hypothetical protein SA0798 {Staphylococcus aureus	80.61

>d1xhja_ d.52.8.1 (A:) Nitrogen fixation protein NifU homolog SE0630 {Staphylococcus epidermidis [TaxId: 1282]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: Nitrogen fixation protein NifU homolog SE0630
species: Staphylococcus epidermidis [TaxId: 1282]

Probab=99.94  E-value=2.2e-27  Score=173.56  Aligned_cols=78  Identities=40%  Similarity=0.884  Sum_probs=74.5

Q ss_pred             cHHHHHHHHHHhcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEc-cCcccc
Q 029891           83 TAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV-ADEETG  160 (186)
Q Consensus        83 ~~e~V~~~Ld~IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v-~~~~~g  160 (186)
                      ..++|+++|++|||+|++|||||+|++|++|+|+|||+|+|+|||+|.+||+++||++|++++|+++.|+.+ ++|..|
T Consensus         8 l~~~I~~vLe~IRP~l~~dGGdvelv~v~~g~V~v~l~GaC~gC~~s~~Tlk~~Ie~~L~~~vpev~~V~~V~~~~~~~   86 (88)
T d1xhja_           8 MFDQVAEVIERLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVEQVFLEHHHH   86 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCEEEEEECCSSEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEEEEECCCCCS
T ss_pred             HHHHHHHHHHHhhHHHHhCCCcEEEEeccCCEEEEEecCCCCCCccHHHHHHHHHHHHHHHHCCCCceEEEecCCCCCC
Confidence            479999999999999999999999999999999999999999999999999999999999999999999986 677766

>d1veha_ d.52.8.1 (A:) HIRA-interacting protein 5, HIRIP5 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: HIRA-interacting protein 5, HIRIP5
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.93  E-value=3.9e-27  Score=173.50  Aligned_cols=78  Identities=45%  Similarity=0.775  Sum_probs=75.0

Q ss_pred             cHHHHHHHHH-HhcchhhhCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEccCcccc
Q 029891           83 TAENIESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETG  160 (186)
Q Consensus        83 ~~e~V~~~Ld-~IRP~L~~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~~~~~g  160 (186)
                      ..++|+.+|+ +|||+|++|||||+|++|++|+|+|||+|+|+|||+|.+||+.+||++|++++|+|+.|+.+++|.+|
T Consensus        14 ~~~~I~~vL~~~IrP~l~~dGGdv~lv~v~~g~V~v~l~GaC~gCp~s~~Tlk~~Ie~~L~~~vpev~~V~~v~~~~~g   92 (92)
T d1veha_          14 VVAMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGVEQVSGPSSG   92 (92)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHSCCCCEEEEETTEEEECCCCCCCCCHHHHHHTHHHHHHHHHHHCSSCCCEEECSCSCCC
T ss_pred             HHHHHHHHHHHhcChHHHHcCCceEEEEeeCCeEEEEEccCCCCChhHHHHHHHHHHHHHHHHCCCcceEEEcCCCCCC
Confidence            3689999998 59999999999999999999999999999999999999999999999999999999999999999876

>d1th5a1 d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [TaxId: 4530]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: NifU-like protein 1, NIFUL1
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=99.90  E-value=7.4e-25  Score=155.08  Aligned_cols=72  Identities=39%  Similarity=0.734  Sum_probs=67.8

Q ss_pred             CCCcHHHHHHHHHHhcchhh-hCCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEEcc
Q 029891           80 LPLTAENIESVLDEIRPYLI-SDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVA  155 (186)
Q Consensus        80 ~~l~~e~V~~~Ld~IRP~L~-~dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~v~  155 (186)
                      +++++++|+++|++|||+|+ .|||||+|+++++++|+|||+|+|+||+    |++.+||++|++++|+|+.|+.++
T Consensus         1 mel~ee~V~~vL~eirP~l~a~dGGdvelv~i~~~~v~v~l~GaC~gC~----Tl~~gIe~~L~~~iPei~~V~~v~   73 (73)
T d1th5a1           1 LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVVR----TVRIAVSKKLREKIPSIQIVQLLS   73 (73)
T ss_dssp             CCCSHHHHHHHHTTTHHHHTTTTCCCCCCCEEETTEEEECCCSSSSSSS----SHHHHHHHHHHHHCTTCSEEEECC
T ss_pred             CCCCHHHHHHHHHHhcccccccCCceEEEEEecCCEEEEEecCCCcccc----hHHHHHHHHHHHHCCCccEEEecC
Confidence            36889999999999999998 6999999999999999999999999994    999999999999999999998764

>d2ffma1 d.267.1.1 (A:1-83) Hypothetical protein SAV1430 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a+b)
fold: Hypothetical protein SAV1430
superfamily: Hypothetical protein SAV1430
family: Hypothetical protein SAV1430
domain: Hypothetical protein SAV1430
species: Staphylococcus aureus [TaxId: 1280]

Probab=97.43  E-value=4e-06  Score=58.76  Aligned_cols=39  Identities=13%  Similarity=0.216  Sum_probs=31.7

Q ss_pred             CCCCCCCCCCCCCccCCC--CCCceeeeeCCe-eEee-----cCCcccc
Q 029891            9 SYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCH   49 (186)
Q Consensus         9 s~~~~~~a~~spLa~~lf--~~v~~~~f~~~~-t~tr-----w~~~l~~   49 (186)
                      +|.+.+ +..+|||.+||  +||++|||++++ |+||     |+. +++
T Consensus        30 ~~~~~~-~~~~pla~~Lf~i~gV~~Vf~~~dFITVtK~~~~~W~~-l~~   76 (83)
T d2ffma1          30 TYTKVD-DSQPAFINDILKVEGVKSIFHVMDFISVDKENDANWET-VLP   76 (83)
T ss_dssp             EECSCC-TTSCHHHHHHHTSTTEEEEEEETTEEEEEECTTCCHHH-HHH
T ss_pred             eeCchh-hhcCHHHHHHHcCCCceEEEEeCCEEEEEeCCCCCHHH-HHH
Confidence            455554 55689999999  999999999999 9999     665 444

>d1th5a1 d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [TaxId: 4530]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: NifU-like protein 1, NIFUL1
species: Rice (Oryza sativa) [TaxId: 4530]

Probab=96.69  E-value=0.00028  Score=48.14  Aligned_cols=25  Identities=72%  Similarity=1.132  Sum_probs=21.8

Q ss_pred             cccCHHHHHHHHHhhhhhhhcccCC
Q 029891          161 LELNEENIEKVLEEIRPYLVGAAAN  185 (186)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~  185 (186)
                      .|||+++|+++|+++||||...+||
T Consensus         1 mel~ee~V~~vL~eirP~l~a~dGG   25 (73)
T d1th5a1           1 LELNEENVEKVLNEIRPYLAGTGGG   25 (73)
T ss_dssp             CCCSHHHHHHHHTTTHHHHTTTTCC
T ss_pred             CCCCHHHHHHHHHHhcccccccCCc
Confidence            3799999999999999999876555

>d2cu6a1 d.52.8.2 (A:6-96) Hypothetical protein TTHB138 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: PaaD-like
domain: Hypothetical protein TTHB138
species: Thermus thermophilus [TaxId: 274]

Probab=95.97  E-value=0.016  Score=40.02  Aligned_cols=68  Identities=15%  Similarity=0.206  Sum_probs=55.7

Q ss_pred             HHHHHHHHHH-hcchhhh---CCCcEEEEEEeCCEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEE
Q 029891           84 AENIESVLDE-IRPYLIS---DGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (186)
Q Consensus        84 ~e~V~~~Ld~-IRP~L~~---dGGdvelv~vd~g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~  153 (186)
                      +++|.++|.. +-|.+..   +=|-|.=+.++++.|.|.|.-.+.+||.... +...|+.+|+ .+|++.+|..
T Consensus         3 e~~v~eaL~~V~DPe~~~dIv~LGlV~~i~i~~~~v~v~l~lt~~~cp~~~~-i~~~i~~al~-~l~gv~~V~V   74 (91)
T d2cu6a1           3 EAQAWALLEAVYDPELGLDVVNLGLIYDLVVEPPRAYVRMTLTTPGCPLHDS-LGEAVRQALS-RLPGVEEVEV   74 (91)
T ss_dssp             HHHHHHHHTTCEETTTTEETTTTTCEEEEEEETTEEEEEECCSSSSCCSSCH-HHHHHHHHHH-TSTTCCEEEE
T ss_pred             HHHHHHHHhcCCCCCCCcChhhccceeEEEEeccccEEEEEcCCCCCcHHHH-HHHHHHHHHH-cCCCCceEEE
Confidence            6778888875 5666643   3477888999999999999999999998876 7899999997 5899988854

>d1uwda_ d.52.8.2 (A:) Hypothetical protein TM0487 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: PaaD-like
domain: Hypothetical protein TM0487
species: Thermotoga maritima [TaxId: 2336]

Probab=95.40  E-value=0.03  Score=39.61  Aligned_cols=71  Identities=27%  Similarity=0.256  Sum_probs=56.0

Q ss_pred             CCcHHHHHHHHHH-hcchhhh---CCCcEEEEEEeC-CEEEEEEcccCCCCcchHHHHHHHHHHHHHhhCCCccEEEE
Q 029891           81 PLTAENIESVLDE-IRPYLIS---DGGNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (186)
Q Consensus        81 ~l~~e~V~~~Ld~-IRP~L~~---dGGdvelv~vd~-g~V~Vrl~GaC~gCpss~~Tl~~~Ie~~L~~~iPeI~~V~~  153 (186)
                      .+++++|..+|.. +-|.+..   +=|-|.=+.|++ |.|.|.+.=.+.+||.... +...|+++|+ .+|+|.+|..
T Consensus         4 ~vt~~~V~~aL~~V~DPe~~~dIV~LGlV~~i~I~~~g~V~v~~~lt~~~Cp~~~~-i~~~i~~al~-~~~gV~~v~V   79 (102)
T d1uwda_           4 KVTKEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQNNVKVLMTMTTPMCPLAGM-ILSDAEEAIK-KIEGVNNVEV   79 (102)
T ss_dssp             CCCHHHHHHHHTTCBCTTTSSBTTTTTCCCCEEECTTCEEEEEECCSSSCCSSHHH-HHHHHHHHHH-TSSSCCEEEE
T ss_pred             ccCHHHHHHHHhCCCCCCCCcceeeccceeeEEeccccceEEEEecCCCCCchHHH-HHHHHHHHHH-cCCCCceEEE
Confidence            4678899999985 6777642   235566677876 7999999999999998765 7799999999 5999988764

>d1xhja_ d.52.8.1 (A:) Nitrogen fixation protein NifU homolog SE0630 {Staphylococcus epidermidis [TaxId: 1282]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Fe-S cluster assembly (FSCA) domain-like
family: NifU C-terminal domain-like
domain: Nitrogen fixation protein NifU homolog SE0630
species: Staphylococcus epidermidis [TaxId: 1282]

Probab=85.85  E-value=0.15  Score=35.11  Aligned_cols=21  Identities=24%  Similarity=0.665  Sum_probs=18.1

Q ss_pred             HHHHHHHHHhhhhhhhcccCC
Q 029891          165 EENIEKVLEEIRPYLVGAAAN  185 (186)
Q Consensus       165 ~~~~~~~~~~~~~~~~~~~~~  185 (186)
                      .++|+++|++|||||..-||.
T Consensus         9 ~~~I~~vLe~IRP~l~~dGGd   29 (88)
T d1xhja_           9 FDQVAEVIERLRPFLLRDGGD   29 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCE
T ss_pred             HHHHHHHHHHhhHHHHhCCCc
Confidence            458999999999999987774

>d1xg8a_ c.47.1.17 (A:) Hypothetical protein SA0798 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: Thioredoxin fold
superfamily: Thioredoxin-like
family: YuzD-like
domain: Hypothetical protein SA0798
species: Staphylococcus aureus [TaxId: 1280]

Probab=80.61  E-value=1.5  Score=31.34  Aligned_cols=33  Identities=27%  Similarity=0.347  Sum_probs=24.0

Q ss_pred             EEEEEccc------CCCCcchHHHHHHHHHHHHHhhCCCc
Q 029891          115 VRLKLQGA------CGSCPSSVMTMKMGIERRLMEKIPEI  148 (186)
Q Consensus       115 V~Vrl~Ga------C~gCpss~~Tl~~~Ie~~L~~~iPeI  148 (186)
                      |.|..-|+      |.+=|+|.-|. +|++++|++++|+.
T Consensus         8 v~i~VYGA~~iCASCV~aPSSkeTy-EWLqaal~RKyp~~   46 (111)
T d1xg8a_           8 NAVVVYGADVICASCVNAPTSKDIY-DWLQPLLKRKYPNI   46 (111)
T ss_dssp             EEEEEEECSSCCGGGSSSCCHHHHH-HHHHHHHHHHCTTS
T ss_pred             eEEEEEcccccchhhcCCCCchhHH-HHHHHHHhCcCCCC
Confidence            44555554      44446777776 89999999999984