Citrus Sinensis ID: 026830

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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-------190-------200-------210-------220-------230--
Protein Sequence
MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccEEEEEccEEEEccccccccHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHcccccccccccEEEEEEEccEEEEEEcccccccccHHHHHHHHHHHHHHHHccccEEEEEcccccccccHHHHHHHHHHHHHcccccccccccEEEEEEcccEEEEEEcccHHHHHHHHHHHHHHHHHHccccEEEEEc
Secondary Structure Prediction (SSPRO)
ccEEEEcccccccccccccccccccccccccccccccEEEcccccccEccccccEEEcccccccccccccccccccccccHHHHHHHHHHHHHHcHHHHHccccEEEEEEcccEEEEEEEccccccccHHHHHHHHHHHHHHHHcHHHHEEEEcccccccccccHHHHHHHHHHccHHHHcccccEEEEEEEcccEEEEEEcccHHHHHHHHHHHHHHHHHHcHHHEEEEEc
Coil and Loop (DISEMBL)
mqgvvlnpsysrphqtldspscsrpaskstksffgervsltrwrnpvchsscRLLLIRKRGAARRNVIKavatpdsaielpltaeNIESVLDEIRPylisdggnvalheidgNVVRLKLqgacgscpssvmTMKMGIERRLMEKIPEIVAVesvadeetglelnEENIEKVLEEIRPYLvgaaggslelvtidepivkvritgpaaGVMTVRVAVTQKLREKIPAIAAVQLL
Flexible Loop (DISEMBL)
mqgvvlnpsysrphqtldspscsrpaskstksffgervsltrwrnpvchsscRLLLIRKRGAARRNVIKavatpdsaielplTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQgacgscpssVMTMKMGIERRLMEKIPEIVAVesvadeetglelnEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVritgpaagvMTVRVAVTQKLREKIPAIAAVQLL
Low Complexity Region (SEG)
MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Disordered region (IsUnstruct)
********************************FFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAA****
Disordered Region (DISOPRED)
****VLN*SY***************ASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKRG**********************AENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENI**************AGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Disordered Region (DISEMBL)
MQGVVLNPS***********************FFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Disordered Region (DISPRO)
*QGVVLNPSYSRPHQTLDSPSCSRPASK*TKSFFGERVSLTRWRNPVCHSSCRLLLIRKR*****************IELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQGVVLNPSYSRPHQTLDSPSCSRPASKSTKSFFGERVSLTRWRNPVCHSSCRLLLIRKRGAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
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	232	2.2.26 [Sep-21-2011]
Q93W20	235	NifU-like protein 2, chlo	yes	no	0.995	0.982	0.686	8e-80
Q84LK7	226	NifU-like protein 1, chlo	no	no	0.715	0.734	0.708	5e-63
Q84RQ7	236	NifU-like protein 3, chlo	no	no	0.659	0.648	0.746	7e-60
Q93W77	231	NifU-like protein 1, chlo	no	no	0.620	0.623	0.401	2e-22
P33179	112	Nitrogen fixation protein	N/A	no	0.293	0.607	0.550	2e-15
Q43885	300	Nitrogen fixation protein	no	no	0.349	0.27	0.488	1e-14
P20628	300	Nitrogen fixation protein	no	no	0.349	0.27	0.488	1e-14
Q8SY96	283	NFU1 iron-sulfur cluster	yes	no	0.387	0.318	0.422	3e-13
O32119	111	Putative nitrogen fixatio	yes	no	0.245	0.513	0.534	4e-13
B4NE93	289	NFU1 iron-sulfur cluster	N/A	no	0.379	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 =  296 bits (758), Expect = 8e-80,   Method: Compositional matrix adjust.
 Identities = 162/236 (68%), Positives = 186/236 (78%), Gaps = 5/236 (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 PYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           PYL+G A GSL+LV I++PIVK+RITGPAAGVMTVRVAVTQKLREKIP+IAAVQL+
Sbjct: 180 PYLIGTADGSLDLVEIEDPIVKIRITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI 235

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 =  240 bits (613), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 119/168 (70%), Positives = 143/168 (85%), Gaps = 2/168 (1%)

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

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

Query: 185 GSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           G L+ + I  PIVKVR+TGPAA V TVR+AV++KLREKIP+I  VQLL
Sbjct: 178 GGLQFLMIKGPIVKVRLTGPAAVVRTVRIAVSKKLREKIPSIQIVQLL 225

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 =  230 bits (586), Expect = 7e-60,   Method: Compositional matrix adjust.
 Identities = 115/154 (74%), Positives = 131/154 (85%), Gaps = 1/154 (0%)

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

Query: 140 RLMEKIPEIVAVESVADEET-GLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVK 198
           RL +KIPEI++VE   + ET GLELN+ENIEKVL E+RPYL G  GG LELV ID  +VK
Sbjct: 142 RLRDKIPEIMSVEQFLESETGGLELNDENIEKVLSELRPYLSGTGGGGLELVEIDGYVVK 201

Query: 199 VRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           VR+TGPAAGVMTVRVA+TQKLRE IP+I AVQLL
Sbjct: 202 VRLTGPAAGVMTVRVALTQKLRETIPSIGAVQLL 235

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 =  105 bits (263), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 59/147 (40%), Positives = 92/147 (62%), Gaps = 3/147 (2%)

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

Query: 136 GIERRLMEKIPEIVA-VESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDE 194
           GIER L EK  + +  +  V DEE   ++  E +   L+ +RP  +   GGS+E+++++ 
Sbjct: 139 GIERVLKEKFGDALKDIRQVFDEEVK-QITVEAVNAHLDILRP-AIKNYGGSVEVLSVEG 196

Query: 195 PIVKVRITGPAAGVMTVRVAVTQKLRE 221
               V+  GP +  M ++ A+ +K ++
Sbjct: 197 EDCVVKYVGPESIGMGIQAAIKEKFKD 223

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 = 2e-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|Q43885|NIFU_TRIAZ Nitrogen fixation protein NifU OS=Trichormus azollae GN=nifU PE=3 SV=1

 Score = 80.1 bits (196), Expect = 1e-14,   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|P20628|NIFU_NOSS1 Nitrogen fixation protein NifU OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=nifU PE=3 SV=1

 Score = 80.1 bits (196), Expect = 1e-14,   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|Q8SY96|NFU1_DROME NFU1 iron-sulfur cluster scaffold homolog, mitochondrial OS=Drosophila melanogaster GN=CG32500 PE=2 SV=1

 Score = 75.1 bits (183), 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|O32119|YUTI_BACSU Putative nitrogen fixation protein YutI OS=Bacillus subtilis (strain 168) GN=yutI PE=3 SV=1

 Score = 74.7 bits (182), Expect = 4e-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|B4NE93|NFU1_DROWI NFU1 iron-sulfur cluster scaffold homolog, mitochondrial OS=Drosophila willistoni GN=GK25604 PE=3 SV=1

 Score = 74.7 bits (182), 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	232
255576215	226	Nitrogen fixation protein nifU, putative	0.974	1.0	0.788	1e-94
449435134	228	PREDICTED: nifU-like protein 2, chloropl	0.965	0.982	0.765	1e-90
224129660	234	predicted protein [Populus trichocarpa]	0.969	0.961	0.742	3e-89
225448154	227	PREDICTED: nifU-like protein 2, chloropl	0.728	0.744	0.952	2e-84
449503323	216	PREDICTED: nifU-like protein 2, chloropl	0.836	0.898	0.82	4e-84
357445313	224	NifU-like protein [Medicago truncatula]	0.965	1.0	0.724	2e-81
18423084	235	NifU-like protein 2 [Arabidopsis thalian	0.995	0.982	0.686	5e-78
358248207	219	uncharacterized protein LOC100803112 [Gl	0.784	0.831	0.821	1e-77
226495405	226	NFU3 [Zea mays] gi|195623070|gb|ACG33365	0.724	0.743	0.851	3e-77
297792273	707	hypothetical protein ARALYDRAFT_331396 [	0.995	0.326	0.685	5e-77

>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 =  351 bits (901), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 183/232 (78%), Positives = 200/232 (86%), Gaps = 6/232 (2%)

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 GAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           GAAGGSLELV I+EPI K+RITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Sbjct: 175 GAAGGSLELVAIEEPIAKIRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 226

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 =  338 bits (866), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 180/235 (76%), Positives = 198/235 (84%), Gaps = 11/235 (4%)

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 YLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           YLVGAAGGSLELV I+EPIVKVRITGPAAGVMTVRVAVTQKLREKIP+IAAVQLL
Sbjct: 173 YLVGAAGGSLELVGIEEPIVKVRITGPAAGVMTVRVAVTQKLREKIPSIAAVQLL 227

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 =  333 bits (854), Expect = 3e-89,   Method: Compositional matrix adjust.
 Identities = 179/241 (74%), Positives = 194/241 (80%), Gaps = 16/241 (6%)

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 LEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQL 231
           LEEIRPYLVGAAGGSLELV I+EPIVK+RITGPAAGVMTVRVAVTQKLREKIPAIAAVQL
Sbjct: 174 LEEIRPYLVGAAGGSLELVAIEEPIVKIRITGPAAGVMTVRVAVTQKLREKIPAIAAVQL 233

Query: 232 L 232
           L
Sbjct: 234 L 234

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  317 bits (812), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 161/169 (95%), Positives = 165/169 (97%)

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 GGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           GGSLELV IDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Sbjct: 179 GGSLELVGIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 227

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  316 bits (810), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 164/200 (82%), Positives = 177/200 (88%), Gaps = 6/200 (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 SVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVR 212
            +ADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELV I+EPIVKVRITGPAAGVMTVR
Sbjct: 136 PIADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVGIEEPIVKVRITGPAAGVMTVR 195

Query: 213 VAVTQKLREKIPAIAAVQLL 232
           VAVTQKLREKIP+IAAVQLL
Sbjct: 196 VAVTQKLREKIPSIAAVQLL 215

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  308 bits (788), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 168/232 (72%), Positives = 181/232 (78%), Gaps = 8/232 (3%)

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 GAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           GAAGG+LELV I+EPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL
Sbjct: 173 GAAGGTLELVAIEEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 224

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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 =  296 bits (758), Expect = 5e-78,   Method: Compositional matrix adjust.
 Identities = 162/236 (68%), Positives = 186/236 (78%), Gaps = 5/236 (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 PYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           PYL+G A GSL+LV I++PIVK+RITGPAAGVMTVRVAVTQKLREKIP+IAAVQL+
Sbjct: 180 PYLIGTADGSLDLVEIEDPIVKIRITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI 235

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358248207|ref|NP_001239839.1| uncharacterized protein LOC100803112 [Glycine max] gi|255637868|gb|ACU19253.1| unknown [Glycine max]

 Score =  295 bits (755), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 152/185 (82%), Positives = 165/185 (89%), Gaps = 3/185 (1%)

Query: 51  SCRLLLIRKR---GAARRNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVAL 107
           S R LL+R       +R   +K V TP+ A+ELPLTAEN+ESVLDEIRPYLI+DGGNVAL
Sbjct: 35  SFRRLLLRPSLGIHLSRSFALKCVVTPNPAVELPLTAENVESVLDEIRPYLIADGGNVAL 94

Query: 108 HEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEEN 167
           H+IDGNVVRLKLQGACGSCPSSV TMKMGIERRLMEKIPEIVAVE +ADEETGLELNE+N
Sbjct: 95  HQIDGNVVRLKLQGACGSCPSSVTTMKMGIERRLMEKIPEIVAVEPIADEETGLELNEDN 154

Query: 168 IEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIA 227
           IEKVLEE+RPYLVGAA G+LELV IDEPIVKVRITGPAA V+TVRVAVTQKLREKIPAIA
Sbjct: 155 IEKVLEEMRPYLVGAADGTLELVAIDEPIVKVRITGPAASVLTVRVAVTQKLREKIPAIA 214

Query: 228 AVQLL 232
           AVQLL
Sbjct: 215 AVQLL 219

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226495405|ref|NP_001148901.1| NFU3 [Zea mays] gi|195623070|gb|ACG33365.1| NFU3 [Zea mays]

 Score =  293 bits (750), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 143/168 (85%), Positives = 156/168 (92%)

Query: 65  RNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACG 124
           R V++AVA PD AIELPLTAEN+E VLDE+RPYL++DGGNVALHEIDGNVVRLKLQGACG
Sbjct: 58  RQVVQAVANPDPAIELPLTAENVEMVLDEVRPYLMADGGNVALHEIDGNVVRLKLQGACG 117

Query: 125 SCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAG 184
           SCP+SV TMKMGIERRLMEKIPEIVAVE +ADEETGLELN+ENIEKVL+EIRPYL G  G
Sbjct: 118 SCPASVTTMKMGIERRLMEKIPEIVAVEPIADEETGLELNQENIEKVLDEIRPYLAGTGG 177

Query: 185 GSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           G LE VTI+EPIVKVR+TGPAAGVMTVRVA+TQKLREKIP IAAVQLL
Sbjct: 178 GELEFVTIEEPIVKVRLTGPAAGVMTVRVALTQKLREKIPKIAAVQLL 225

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

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 =  293 bits (749), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 161/235 (68%), Positives = 181/235 (77%), Gaps = 4/235 (1%)

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 YLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           YL+G A GSL+LV I++PIVK+RITGPAAGVMTVRVAVTQKLREKIP   +  L+
Sbjct: 180 YLIGTADGSLDLVEIEDPIVKIRITGPAAGVMTVRVAVTQKLREKIPRSFSFALI 234

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	232
TAIR|locus:2158849	235	NFU2 "NIFU-like protein 2" [Ar	0.995	0.982	0.686	4.5e-75
TAIR|locus:2120745	236	NFU3 "NFU domain protein 3" [A	0.659	0.648	0.746	2.3e-55
UNIPROTKB|P74558	76	ssl2667 "NifU protein" [Synech	0.323	0.986	0.653	2.3e-23
TAIR|locus:2141400	231	NFU1 "NFU domain protein 1" [A	0.620	0.623	0.401	3.8e-23
UNIPROTKB|Q81XP7	78	BAS4821 "NifU domain protein"	0.331	0.987	0.506	7.5e-18
TIGR_CMR|BA_5186	78	BA_5186 "nifU domain protein"	0.331	0.987	0.506	7.5e-18
UNIPROTKB|B4M375	298	GJ19011 "NFU1 iron-sulfur clus	0.387	0.302	0.402	1.7e-15
UNIPROTKB|Q74FX2	74	GSU0480 "Thioredoxin/NifU-like	0.297	0.932	0.569	3.3e-15
TIGR_CMR|GSU_0480	74	GSU_0480 "NifU-like domain pro	0.297	0.932	0.569	3.3e-15
FB|FBgn0052500	283	CG32500 [Drosophila melanogast	0.405	0.332	0.416	6.9e-15

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

 Score = 757 (271.5 bits), Expect = 4.5e-75, P = 4.5e-75
 Identities = 162/236 (68%), Positives = 186/236 (78%)

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 PYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
             PYL+G A GSL+LV I++PIVK+RITGPAAGVMTVRVAVTQKLREKIP+IAAVQL+
Sbjct:   180 PYLIGTADGSLDLVEIEDPIVKIRITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI 235

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 = 571 (206.1 bits), Expect = 2.3e-55, P = 2.3e-55
 Identities = 115/154 (74%), Positives = 131/154 (85%)

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

Query:   140 RLMEKIPEIVAVESVADEETG-LELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVK 198
             RL +KIPEI++VE   + ETG LELN+ENIEKVL E+RPYL G  GG LELV ID  +VK
Sbjct:   142 RLRDKIPEIMSVEQFLESETGGLELNDENIEKVLSELRPYLSGTGGGGLELVEIDGYVVK 201

Query:   199 VRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
             VR+TGPAAGVMTVRVA+TQKLRE IP+I AVQLL
Sbjct:   202 VRLTGPAAGVMTVRVALTQKLRETIPSIGAVQLL 235

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 = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 59/147 (40%), Positives = 92/147 (62%)

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

Query:   136 GIERRLMEKIPEIVA-VESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDE 194
             GIER L EK  + +  +  V DEE   ++  E +   L+ +RP +    GGS+E+++++ 
Sbjct:   139 GIERVLKEKFGDALKDIRQVFDEEVK-QITVEAVNAHLDILRPAIKNY-GGSVEVLSVEG 196

Query:   195 PIVKVRITGPAAGVMTVRVAVTQKLRE 221
                 V+  GP +  M ++ A+ +K ++
Sbjct:   197 EDCVVKYVGPESIGMGIQAAIKEKFKD 223

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	0.6864	0.9956	0.9829	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	232
pfam01106	68	pfam01106, NifU, NifU-like domain	1e-26
COG0694	93	COG0694, COG0694, Thioredoxin-like proteins and do	2e-24
TIGR02000	290	TIGR02000, NifU_proper, Fe-S cluster assembly prot	3e-17
TIGR03341	190	TIGR03341, YhgI_GntY, IscR-regulated protein YhgI	3e-12
pfam01106	68	pfam01106, NifU, NifU-like domain	5e-10
PRK11190	192	PRK11190, PRK11190, Fe/S biogenesis protein NfuA;	5e-08
TIGR02000	290	TIGR02000, NifU_proper, Fe-S cluster assembly prot	1e-05
COG0694	93	COG0694, COG0694, Thioredoxin-like proteins and do	5e-05

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

 Score = 97.3 bits (243), Expect = 1e-26
 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 = 92.4 bits (230), Expect = 2e-24
 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 = 78.4 bits (193), Expect = 3e-17
 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 = 62.7 bits (153), Expect = 3e-12
 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|144628 pfam01106, NifU, NifU-like domain

 Score = 53.4 bits (129), Expect = 5e-10
 Identities = 27/61 (44%), Positives = 39/61 (63%), Gaps = 5/61 (8%)

Query: 168 IEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVM----TVRVAVTQKLREKI 223
           IE+V++EIRP L    GG +ELV +D  IVKVR+ G   G M    T++  + +KLRE++
Sbjct: 1   IEEVIDEIRPMLQ-RDGGDIELVDVDGDIVKVRLQGACGGCMSSTMTLKGGIERKLRERL 59

Query: 224 P 224
            
Sbjct: 60  G 60

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

 Score = 50.8 bits (122), Expect = 5e-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

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

 Score = 44.9 bits (106), Expect = 1e-05
 Identities = 25/59 (42%), Positives = 36/59 (61%), Gaps = 4/59 (6%)

Query: 168 IEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVA---VTQKLREKI 223
           I+KVLEE+RP L  A GG +EL  +D  IV V +TG  +G     +    + Q+LRE++
Sbjct: 224 IQKVLEEVRPVLQ-ADGGDVELYDVDGKIVYVVLTGACSGCSMSTMTLKGIQQRLRERL 281

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

 Score = 40.4 bits (95), Expect = 5e-05
 Identities = 27/71 (38%), Positives = 44/71 (61%), Gaps = 8/71 (11%)

Query: 166 ENIEKVL-EEIRPYLVGAAGGSLELVTIDEP--IVKVRITGPAAG----VMTVRVAVTQK 218
           E +E+VL E+IRP L    GG +ELV IDE   +V +R+ G  +G     +T++  + ++
Sbjct: 12  ERVEEVLDEKIRPQLAMD-GGDVELVGIDEEDGVVYLRLGGACSGCPSSTVTLKNGIERQ 70

Query: 219 LREKIPAIAAV 229
           L+E+IP +  V
Sbjct: 71  LKEEIPEVKEV 81

Length = 93

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	232
PF01106	68	NifU: NifU-like domain; InterPro: IPR001075 Iron-s	99.9
COG0694	93	Thioredoxin-like proteins and domains [Posttransla	99.9
KOG2358	213	consensus NifU-like domain-containing proteins [Po	99.88
TIGR03341	190	YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR0	99.86
PF01106	68	NifU: NifU-like domain; InterPro: IPR001075 Iron-s	99.86
PRK11190	192	Fe/S biogenesis protein NfuA; Provisional	99.85
COG0694	93	Thioredoxin-like proteins and domains [Posttransla	99.84
KOG2358	213	consensus NifU-like domain-containing proteins [Po	99.8
TIGR02000	290	NifU_proper Fe-S cluster assembly protein NifU. Th	99.78
TIGR02000	290	NifU_proper Fe-S cluster assembly protein NifU. Th	99.77
TIGR03341	190	YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR0	99.77
PRK11190	192	Fe/S biogenesis protein NfuA; Provisional	99.76
PF08712	87	Nfu_N: Scaffold protein Nfu/NifU N terminal; Inter	98.69
PF01883	72	DUF59: Domain of unknown function DUF59; InterPro:	95.64
PF01883	72	DUF59: Domain of unknown function DUF59; InterPro:	95.36
TIGR02945	99	SUF_assoc FeS assembly SUF system protein. Members	81.87
TIGR02945	99	SUF_assoc FeS assembly SUF system protein. Members	80.64

>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=99.90  E-value=8.5e-24  Score=153.81  Aligned_cols=68  Identities=56%  Similarity=0.949  Sum_probs=64.5

Q ss_pred             HHHHHHHhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecc
Q 026830           87 IESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (232)
Q Consensus        87 v~~~L~~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v  154 (232)
                      |+++|++|||+|++||||++|+++++++|+|||+|+|+|||++..||+.+|+++|++++|++..|+++
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            68899999999999999999999999999999999999999999999999999999999999998763

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=99.90  E-value=1.2e-23  Score=161.42  Aligned_cols=77  Identities=55%  Similarity=0.890  Sum_probs=72.6

Q ss_pred             HHHHHHHHH-HhcchhhhCCCcEEEEEEe--CcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecccccccc
Q 026830           84 AENIESVLD-EIRPYLISDGGNVALHEID--GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETG  160 (232)
Q Consensus        84 ~~~v~~~L~-~IrP~L~~dGGdvelv~i~--~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v~d~e~g  160 (232)
                      .++|+++|+ +|||+|++||||++|++|+  +|+|++||+|||+|||||++|||++||++|++++|++..|+++.++..+
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            679999998 8999999999999999999  6899999999999999999999999999999999999999998876543

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

Probab=99.88  E-value=1.2e-23  Score=180.58  Aligned_cols=150  Identities=29%  Similarity=0.418  Sum_probs=124.7

Q ss_pred             CCCCCCCCCCCCCCcCCCC---CCcceeeEecCe-eeec------cCCccccchHHHHHHhhhcccchhhhhhhcC-CC-
Q 026830            8 PSYSRPHQTLDSPSCSRPA---SKSTKSFFGERV-SLTR------WRNPVCHSSCRLLLIRKRGAARRNVIKAVAT-PD-   75 (232)
Q Consensus         8 ~s~~~~~~a~~~pla~~lf---~~v~~~~~~~~~-t~t~------w~~~l~~~~~~~i~~~~~~~~~~~~~~~~~~-~~-   75 (232)
                      .+|+++-++..+|||+++|   .+|..+||+++| |+|+      |.- |++.+...+++++....+......++. -+ 
T Consensus        38 ~~~~~~~s~~~s~La~s~~~~~~gvv~~~~g~dfvtv~k~~ee~~w~~-L~p~i~~~~sd~g~~g~pli~g~~~~~~~~~  116 (213)
T KOG2358|consen   38 GDFATPCSAFFSPLAKSILFRDGGVVKVFFGPDFVTVTKLTEENVWSV-LDPEIPSLMSDGGNVGLPLIDGNIVVLKLQG  116 (213)
T ss_pred             cccccccchhhcHHHHHHHhhcCCcEEEEecCCeEEEeccchhhhHhh-hchhhHHHHhccccccchhhccchhhhhhcc
Confidence            5778888889999999999   699999999999 9999      998 999999999998654444321111111 11 


Q ss_pred             cccCCCCcHHHHHHHHH-HhcchhhhCCCcEEEEEEeC--cEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEee
Q 026830           76 SAIELPLTAENIESVLD-EIRPYLISDGGNVALHEIDG--NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVE  152 (232)
Q Consensus        76 ~~~~~~l~~~~v~~~L~-~IrP~L~~dGGdvelv~i~~--~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~  152 (232)
                      .-.+.+.+...++..|+ +|||.|+.||||++++++|+  |.|+++|+|+|.+||++..|||+||+..|+.++|+++.|+
T Consensus       117 ~~e~d~e~t~~ikelietRiRp~i~edggdi~y~g~e~g~g~v~lklqgact~cpss~vtlk~Gie~mL~~y~~eVK~v~  196 (213)
T KOG2358|consen  117 ACESDPESTMTIKELIETRIRPKIQEDGGDEDYVGFETGLGLVSLKLQGACTECPSSLVTLKNGIENMLEIYVPEVKGVI  196 (213)
T ss_pred             cccCChhHHHHHHHHHHHhhhhhhhccCCceeeccccCccchHHHHHhhhhccCCcccchhhhhHHHHHHhhcceeeEEE
Confidence            11223445678999998 79999999999999999998  5999999999999999999999999999999999999999


Q ss_pred             cccccc
Q 026830          153 SVADEE  158 (232)
Q Consensus       153 ~v~d~e  158 (232)
                      ++.+.+
T Consensus       197 qv~d~e  202 (213)
T KOG2358|consen  197 QVPDAE  202 (213)
T ss_pred             eccCcc
Confidence            887754

>TIGR03341 YhgI_GntY IscR-regulated protein YhgI

Probab=99.86  E-value=5.3e-22  Score=170.34  Aligned_cols=78  Identities=40%  Similarity=0.685  Sum_probs=74.1

Q ss_pred             HHHHHHHHH-HhcchhhhCCCcEEEEEEe-CcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeeccccccccc
Q 026830           84 AENIESVLD-EIRPYLISDGGNVALHEID-GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETGL  161 (232)
Q Consensus        84 ~~~v~~~L~-~IrP~L~~dGGdvelv~i~-~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v~d~e~g~  161 (232)
                      .++|+++|+ +|||+|++||||+||++|+ +++|+|||+|+|+|||++..||+++||++|++++|+++.|+.+++|++|.
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 47999999999999999999999999999999999999999999988763

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.

>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=99.86  E-value=6.6e-22  Score=143.88  Aligned_cols=64  Identities=45%  Similarity=0.798  Sum_probs=60.3

Q ss_pred             HHHHHhhccccccccCCCcEEEEEeeCCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          168 IEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       168 i~~~L~~iRP~L~~~dGGdielv~v~~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      |+++|++|||+|+ +||||++|+++++++|+|||+|+|++||    |++++||++|++++|++.+|+.|
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 VEEVLEEIRPYLQ-SDGGDVELVDVDDGVVYVRLTGACSGCPSSDMTLKQGIEQALREAVPEVKRVVPV   68 (68)
T ss_dssp             HHHHHHHCHHHHH-HTTEEEEEEEEETTEEEEEEESSCCSSCCHHHHHHHHHHHHHHHHSTT-SEEEEC
T ss_pred             CHHHHHHhChHHH-hcCCcEEEEEecCCEEEEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCCceEEEC
Confidence            5789999999999 8999999999999999999999999996    99999999999999999999875

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.

>PRK11190 Fe/S biogenesis protein NfuA; Provisional

Probab=99.85  E-value=1.2e-21  Score=168.50  Aligned_cols=78  Identities=35%  Similarity=0.660  Sum_probs=73.9

Q ss_pred             HHHHHHHHH-HhcchhhhCCCcEEEEEEe-CcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCC-cceEeecccccccc
Q 026830           84 AENIESVLD-EIRPYLISDGGNVALHEID-GNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIP-EIVAVESVADEETG  160 (232)
Q Consensus        84 ~~~v~~~L~-~IrP~L~~dGGdvelv~i~-~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vp-ei~~V~~v~d~e~g  160 (232)
                      .++|+.+|+ +|||+|++||||+||++|+ +++|+|||+|+|+|||++..||+++||++|++++| +++.|+.+++|.++
T Consensus       108 ~~~i~~~l~~~irP~l~~dGGdielv~v~~~~~v~v~l~GaC~gC~~s~~Tl~~~Ie~~l~~~~p~~i~~v~~v~~~~~~  187 (192)
T PRK11190        108 MERVEYVLQSQINPQLAGHGGRVSLMEITEDGYAILQFGGGCNGCSMVDVTLKEGIEKQLLNEFPGELKGVRDLTEHQRG  187 (192)
T ss_pred             HHHHHHHHHhccChhHHhcCCcEEEEEEcCCCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCHhhceEEEecccccC
Confidence            789999998 8999999999999999998 57999999999999999999999999999999999 99999999998866


Q ss_pred             c
Q 026830          161 L  161 (232)
Q Consensus       161 ~  161 (232)
                      .
T Consensus       188 ~  188 (192)
T PRK11190        188 E  188 (192)
T ss_pred             C
Confidence            3

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

Probab=99.84  E-value=8.7e-21  Score=145.71  Aligned_cols=68  Identities=37%  Similarity=0.676  Sum_probs=63.8

Q ss_pred             hhhhHHHHHh-hccccccccCCCcEEEEEee--CCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          164 NEENIEKVLE-EIRPYLVGAAGGSLELVTID--EPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       164 ~~~~i~~~L~-~iRP~L~~~dGGdielv~v~--~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      ..++++++|+ +|||+|+ +||||++|++|+  +|+|+|||.|||+|||    |||++||++|++++|++++|+.+
T Consensus        10 ~~e~v~~~l~~~irP~l~-~dGGdve~~~i~~~~g~V~l~l~GaC~gC~sS~~TLk~gIE~~L~~~i~ev~~V~~v   84 (93)
T COG0694          10 LLERVEEVLDEKIRPQLA-MDGGDVELVGIDEEDGVVYLRLGGACSGCPSSTVTLKNGIERQLKEEIPEVKEVEQV   84 (93)
T ss_pred             HHHHHHHHHHhccCccee-ccCCeEEEEEEecCCCeEEEEeCCcCCCCcccHHHHHHHHHHHHHHhCCccceEEEc
Confidence            3578999998 8999999 999999999998  7899999999999997    99999999999999999999864

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

Probab=99.80  E-value=1e-20  Score=162.58  Aligned_cols=133  Identities=40%  Similarity=0.570  Sum_probs=120.9

Q ss_pred             hhhhhhhcCCCcccCCCCcHHHHHHHHHHhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhh
Q 026830           65 RNVIKAVATPDSAIELPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEK  144 (232)
Q Consensus        65 ~~~~~~~~~~~~~~~~~l~~~~v~~~L~~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~  144 (232)
                      +........|+-....+++++....+|+..+|++.+|||+.-+-.|++..+.++++|+|..||.+.+++|+.|+.     
T Consensus        60 ~gvv~~~~g~dfvtv~k~~ee~~w~~L~p~i~~~~sd~g~~g~pli~g~~~~~~~~~~~e~d~e~t~~ikeliet-----  134 (213)
T KOG2358|consen   60 GGVVKVFFGPDFVTVTKLTEENVWSVLDPEIPSLMSDGGNVGLPLIDGNIVVLKLQGACESDPESTMTIKELIET-----  134 (213)
T ss_pred             CCcEEEEecCCeEEEeccchhhhHhhhchhhHHHHhccccccchhhccchhhhhhcccccCChhHHHHHHHHHHH-----
Confidence            366677777888877899999999999999999999999999999999999999999999999999888765543     


Q ss_pred             CCcceEeecccccccccchhhhhHHHHHhhccccccccCCCcEEEEEeeC--CEEEEEEccCCCCch----hHHHHHHHH
Q 026830          145 IPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDE--PIVKVRITGPAAGVM----TVRVAVTQK  218 (232)
Q Consensus       145 vpei~~V~~v~d~e~g~e~~~~~i~~~L~~iRP~L~~~dGGdielv~v~~--gvv~Vrl~GaC~~c~----Tl~~~Ie~~  218 (232)
                                                   +|||.++ .||||++++++|+  |+|++||+|+|.+||    |+++|||++
T Consensus       135 -----------------------------RiRp~i~-edggdi~y~g~e~g~g~v~lklqgact~cpss~vtlk~Gie~m  184 (213)
T KOG2358|consen  135 -----------------------------RIRPKIQ-EDGGDEDYVGFETGLGLVSLKLQGACTECPSSLVTLKNGIENM  184 (213)
T ss_pred             -----------------------------hhhhhhh-ccCCceeeccccCccchHHHHHhhhhccCCcccchhhhhHHHH
Confidence                                         6789999 8999999999998  599999999999997    999999999


Q ss_pred             HHhhCCCcceEEeC
Q 026830          219 LREKIPAIAAVQLL  232 (232)
Q Consensus       219 L~~~~P~i~~V~~~  232 (232)
                      |+.++|+||.|+.+
T Consensus       185 L~~y~~eVK~v~qv  198 (213)
T KOG2358|consen  185 LEIYVPEVKGVIQV  198 (213)
T ss_pred             HHhhcceeeEEEec
Confidence            99999999999864

>TIGR02000 NifU_proper Fe-S cluster assembly protein NifU

Probab=99.78  E-value=3.5e-19  Score=161.72  Aligned_cols=66  Identities=41%  Similarity=0.646  Sum_probs=63.1

Q ss_pred             hhhHHHHHhhccccccccCCCcEEEEEeeCCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          165 EENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       165 ~~~i~~~L~~iRP~L~~~dGGdielv~v~~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      .++|+++|++|||||+ +||||+||++|++++|+|||+|+|+|||    ||+. ||++|++++|++.+|+.|
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 IQLIQKVLEEVRPVLQ-ADGGDVELYDVDGKIVYVVLTGACSGCSMSTMTLKG-IQQRLRERLGEFVVVEAV  290 (290)
T ss_pred             HHHHHHHHHHhCchHh-hcCCcEEEEEEeCCEEEEEEeeCCCCCcchHHHHHH-HHHHHHHhCCCceEEEeC
Confidence            5789999999999999 9999999999999999999999999997    9998 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.

>TIGR02000 NifU_proper Fe-S cluster assembly protein NifU

Probab=99.77  E-value=7e-19  Score=159.75  Aligned_cols=70  Identities=47%  Similarity=0.816  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecc
Q 026830           84 AENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (232)
Q Consensus        84 ~~~v~~~L~~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v  154 (232)
                      .++|+++|++|||+|++||||++|++|++++|+|||+|+|+|||++.+||+. ||++|++++|++..|+++
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 999999999999998753

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.

>TIGR03341 YhgI_GntY IscR-regulated protein YhgI

Probab=99.77  E-value=6e-19  Score=151.45  Aligned_cols=68  Identities=32%  Similarity=0.520  Sum_probs=63.6

Q ss_pred             hhhhHHHHHh-hccccccccCCCcEEEEEee-CCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          164 NEENIEKVLE-EIRPYLVGAAGGSLELVTID-EPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       164 ~~~~i~~~L~-~iRP~L~~~dGGdielv~v~-~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      ..++|+++|+ +|||+|+ +||||+||++|+ +++|+|||+|+|+|||    ||+++||++|++++|++++|+.+
T Consensus       106 ~~~~i~~~l~~~irP~l~-~dGGdielv~v~~~~~v~v~l~GaC~gC~~s~~Tl~~~ie~~l~~~~p~v~~V~~~  179 (190)
T TIGR03341       106 LEERINYVLQSEINPQLA-SHGGKVTLVEITDDGVAVLQFGGGCNGCSMVDVTLKDGVEKTLLERFPELKGVRDA  179 (190)
T ss_pred             HHHHHHHHHHhccCHHHH-hcCCceEEEEEcCCCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCCcceEEEe
Confidence            4688999998 8999999 999999999997 5799999999999997    99999999999999999999864

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=99.76  E-value=1e-18  Score=150.33  Aligned_cols=68  Identities=26%  Similarity=0.475  Sum_probs=63.5

Q ss_pred             hhhhHHHHHh-hccccccccCCCcEEEEEee-CCEEEEEEccCCCCch----hHHHHHHHHHHhhCC-CcceEEeC
Q 026830          164 NEENIEKVLE-EIRPYLVGAAGGSLELVTID-EPIVKVRITGPAAGVM----TVRVAVTQKLREKIP-AIAAVQLL  232 (232)
Q Consensus       164 ~~~~i~~~L~-~iRP~L~~~dGGdielv~v~-~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P-~i~~V~~~  232 (232)
                      ..++|+++|+ +|||+|+ +||||+||++|+ +++|+|||+|+|+|||    ||+++||++|++++| +|++|+.+
T Consensus       107 ~~~~i~~~l~~~irP~l~-~dGGdielv~v~~~~~v~v~l~GaC~gC~~s~~Tl~~~Ie~~l~~~~p~~i~~v~~v  181 (192)
T PRK11190        107 LMERVEYVLQSQINPQLA-GHGGRVSLMEITEDGYAILQFGGGCNGCSMVDVTLKEGIEKQLLNEFPGELKGVRDL  181 (192)
T ss_pred             HHHHHHHHHHhccChhHH-hcCCcEEEEEEcCCCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCHhhceEEEe
Confidence            4788999997 8999999 999999999997 5899999999999997    999999999999999 99999864

>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=98.69  E-value=1.2e-09  Score=83.11  Aligned_cols=52  Identities=13%  Similarity=0.286  Sum_probs=43.7

Q ss_pred             CCCCCCCCCCCCCCcCCCC--CCcceeeEecCe-eeec-----cCCccccchHHHHHHhhh
Q 026830            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLLIRKR   60 (232)
Q Consensus         8 ~s~~~~~~a~~~pla~~lf--~~v~~~~~~~~~-t~t~-----w~~~l~~~~~~~i~~~~~   60 (232)
                      .+|.+.++|.+||||++||  +||++|||++|| ||||     |+. |++.|...|+++++
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 99999999998864

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=95.64  E-value=0.1  Score=37.34  Aligned_cols=64  Identities=19%  Similarity=0.360  Sum_probs=49.5

Q ss_pred             hhHHHHHhh-ccccccccC---CCcEEEEEeeCCEEEEEEccCCCCch---hHHHHHHHHHHhhCCCcceEEe
Q 026830          166 ENIEKVLEE-IRPYLVGAA---GGSLELVTIDEPIVKVRITGPAAGVM---TVRVAVTQKLREKIPAIAAVQL  231 (232)
Q Consensus       166 ~~i~~~L~~-iRP~L~~~d---GGdielv~v~~gvv~Vrl~GaC~~c~---Tl~~~Ie~~L~~~~P~i~~V~~  231 (232)
                      ++|.++|.. .-|++. .+   =|-+.=+.+++|.|+|.|.-+..+|+   .++..|+++|+ .+|++++|+.
T Consensus         2 ~~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    2 QAVRDALKQVKDPELG-KDIVELGMVRDISIEGGKVSVSLELPTPACPAAEPLREEIREALK-ALPGVKSVKV   72 (72)
T ss_dssp             HHHHHHHTT-BETTTS-SBTTTTTSEEEEEECTCEEEEEE--SSTTHTTHHHHHHHHHHHHH-TSTT-SEEEE
T ss_pred             HHHHHHHhCCCCCCCC-CCHHHcCCeeEEEEECCEEEEEEEECCCCchHHHHHHHHHHHHHH-hCCCCceEeC
Confidence            567778874 566665 44   37788899999999999999999997   78889999999 9999998864

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.

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

Probab=95.36  E-value=0.1  Score=37.36  Aligned_cols=66  Identities=24%  Similarity=0.391  Sum_probs=51.3

Q ss_pred             HHHHHHHHH-hcchhhhC---CCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEee
Q 026830           85 ENIESVLDE-IRPYLISD---GGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVE  152 (232)
Q Consensus        85 ~~v~~~L~~-IrP~L~~d---GGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~  152 (232)
                      ++|.++|.. .-|.+..+   =|-|.=+.+++|.|++.|.-...+|+ ....++..|+++|+ .+|++..|.
T Consensus         2 ~~V~~aL~~v~dP~~~~~iv~~g~V~~i~i~~~~V~v~l~l~~~~~~-~~~~l~~~i~~~l~-~l~gv~~V~   71 (72)
T PF01883_consen    2 QAVRDALKQVKDPELGKDIVELGMVRDISIEGGKVSVSLELPTPACP-AAEPLREEIREALK-ALPGVKSVK   71 (72)
T ss_dssp             HHHHHHHTT-BETTTSSBTTTTTSEEEEEECTCEEEEEE--SSTTHT-THHHHHHHHHHHHH-TSTT-SEEE
T ss_pred             HHHHHHHhCCCCCCCCCCHHHcCCeeEEEEECCEEEEEEEECCCCch-HHHHHHHHHHHHHH-hCCCCceEe
Confidence            567777874 56666533   37788899999999999999999998 77889999999999 799887764

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.

>TIGR02945 SUF_assoc FeS assembly SUF system protein

Probab=81.87  E-value=11  Score=28.30  Aligned_cols=64  Identities=17%  Similarity=0.308  Sum_probs=43.9

Q ss_pred             hhhHHHHHhh-ccccccccCC---CcEEEEEeeC-CEEEEEEccCCCCch---hHHHHHHHHHHhhCCCcceEE
Q 026830          165 EENIEKVLEE-IRPYLVGAAG---GSLELVTIDE-PIVKVRITGPAAGVM---TVRVAVTQKLREKIPAIAAVQ  230 (232)
Q Consensus       165 ~~~i~~~L~~-iRP~L~~~dG---Gdielv~v~~-gvv~Vrl~GaC~~c~---Tl~~~Ie~~L~~~~P~i~~V~  230 (232)
                      +++|.++|+. .-|.+. .+-   |-+.=+.+++ +.++|.|.-+-.+|+   .++..+++.|. .+|.+..|.
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 KDAVIEALKTVYDPEIP-VNIYELGLIYDIDVDDDGHVDIQMTLTAPNCPVAGSMPGEVENAVR-AVPGVGSVT   74 (99)
T ss_pred             HHHHHHHHcCCCCCCCC-CCeecCCCeeEEEECCCCeEEEEEEECCCCCChHHHHHHHHHHHHH-hCCCCceEE
Confidence            4568888875 456654 433   3344456675 888888887777775   67778888885 478887765

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.

>TIGR02945 SUF_assoc FeS assembly SUF system protein

Probab=80.64  E-value=9  Score=28.86  Aligned_cols=67  Identities=16%  Similarity=0.294  Sum_probs=47.3

Q ss_pred             HHHHHHHHHH-hcchhhhC---CCcEEEEEEeC-cEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEee
Q 026830           84 AENIESVLDE-IRPYLISD---GGNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVE  152 (232)
Q Consensus        84 ~~~v~~~L~~-IrP~L~~d---GGdvelv~i~~-~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~  152 (232)
                      .++|.++|+. .-|.+..+   =|-|.=+.+++ +.++|.+.-...+||.. ..++..++.+|.. +|++..|.
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 KDAVIEALKTVYDPEIPVNIYELGLIYDIDVDDDGHVDIQMTLTAPNCPVA-GSMPGEVENAVRA-VPGVGSVT   74 (99)
T ss_pred             HHHHHHHHcCCCCCCCCCCeecCCCeeEEEECCCCeEEEEEEECCCCCChH-HHHHHHHHHHHHh-CCCCceEE
Confidence            4678888875 45666542   24555567775 88999998877788754 5588899999965 77776664

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	232
2z51_A	154	Crystal Structure Of Arabidopsis Cnfu Involved In I		8e-74
2jnv_A	91	Solution Structure Of C-Terminal Domain Of Nifu-Lik		2e-33
2jnv_A	91	Solution Structure Of C-Terminal Domain Of Nifu-Lik		3e-06
1th5_A	74	Solution Structure Of C-Terminal Domain Of Nifu-Lik		2e-22
1xhj_A	88	Solution Structure Of The Staphylococcus Epidermidi		1e-15
1veh_A	92	Solution Structure Of Rsgi Ruh-018, A Nifu-Like Dom		2e-12

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

Iteration: 1
 Score =  273 bits (697), Expect = 8e-74,   Method: Compositional matrix adjust.
 Identities = 134/153 (87%), Positives = 147/153 (96%)
Query: 80  LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIER 139
           +PLT EN+ESVLDEIRPYL+SDGGNVALHEIDGNVVR+KLQGACGSCPSS MTMKMGIER
Sbjct: 2   VPLTEENVESVLDEIRPYLMSDGGNVALHEIDGNVVRVKLQGACGSCPSSTMTMKMGIER 61
Query: 140 RLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKV 199
           RLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIRPYL+G A GSL+LV I++PIVK+
Sbjct: 62  RLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGSLDLVEIEDPIVKI 121
Query: 200 RITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           RITGPAAGVMTVRVAVTQKLREKIP+IAAVQL+
Sbjct: 122 RITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI 154

>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 (349), Expect = 2e-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|2JNV|A Chain A, Solution Structure Of C-Terminal Domain Of Nifu-Like Protein From Oryza Sativa Length = 91

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 47/75 (62%), Gaps = 5/75 (6%)
Query: 160 GLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPA----AGVMTVRVAV 215
           GL L   N+E VL+++RPYL  A GG + L  I   +V++++ G      + ++T++  +
Sbjct: 2   GLPLTAGNVESVLDQVRPYLT-ADGGDVALHEIAGNVVRLKLQGACGSCPSSLITIKRGI 60
Query: 216 TQKLREKIPAIAAVQ 230
            ++L EKIP +AAV+
Sbjct: 61  ERRLMEKIPDVAAVE 75

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

Iteration: 1
 Score =  102 bits (255), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 51/72 (70%), Positives = 59/72 (81%)
Query: 161 LELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLR 220
           LELNEEN+EKVL EIRPYL G  GG L+ + I  PIVKVR+TGPAA V TVR+AV++KLR
Sbjct: 2   LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVVRTVRIAVSKKLR 61
Query: 221 EKIPAIAAVQLL 232
           EKIP+I  VQLL
Sbjct: 62  EKIPSIQIVQLL 73

>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 = 1e-15,   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

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	232
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	7e-65
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	2e-19
1xhj_A	88	Nitrogen fixation protein NIFU; alpha-beta, NIFU-l	1e-37
1xhj_A	88	Nitrogen fixation protein NIFU; alpha-beta, NIFU-l	3e-11
1veh_A	92	NIFU-like protein hirip5; structural genomics, mou	5e-34
1veh_A	92	NIFU-like protein hirip5; structural genomics, mou	2e-06
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	5e-30
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	1e-26

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

 Score =  197 bits (502), Expect = 7e-65
 Identities = 134/153 (87%), Positives = 147/153 (96%)

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

Query: 140 RLMEKIPEIVAVESVADEETGLELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKV 199
           RLMEKIPEIVAVE++ DEETGLELNEENIEKVLEEIRPYL+G A GSL+LV I++PIVK+
Sbjct: 62  RLMEKIPEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGSLDLVEIEDPIVKI 121

Query: 200 RITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL 232
           RITGPAAGVMTVRVAVTQKLREKIP+IAAVQL+
Sbjct: 122 RITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI 154

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

 Score = 81.0 bits (200), Expect = 2e-19
 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 =  125 bits (316), Expect = 1e-37
 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

>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 = 57.3 bits (139), Expect = 3e-11
 Identities = 18/70 (25%), Positives = 40/70 (57%), Gaps = 5/70 (7%)

Query: 165 EENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAG----VMTVRVAVTQKLR 220
            + + +V+E +RP+L+   GG   LV +++ IVK+++ G         +T++  + + L 
Sbjct: 9   FDQVAEVIERLRPFLL-RDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALH 67

Query: 221 EKIPAIAAVQ 230
           E++P +  V+
Sbjct: 68  EEVPGVIEVE 77

>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 =  116 bits (293), Expect = 5e-34
 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

>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 = 44.2 bits (105), Expect = 2e-06
 Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 9/84 (10%)

Query: 155 ADEETGLELNEE---NIEKVLEE-IRPYLVGAAGGSLELVTIDEPIVKVRITGPAAG--- 207
           +   +G E ++E    I+++L+  IRP  V   GG +     ++ IV++++ G       
Sbjct: 2   SSGSSGSEEDDEVVAMIKELLDTRIRPT-VQEDGGDVIYRGFEDGIVRLKLQGSCTSCPS 60

Query: 208 -VMTVRVAVTQKLREKIPAIAAVQ 230
            ++T++  +   L+  IP +  V+
Sbjct: 61  SIITLKSGIQNMLQFYIPEVEGVE 84

>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 =  105 bits (265), Expect = 5e-30
 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 = 97.0 bits (242), Expect = 1e-26
 Identities = 51/72 (70%), Positives = 59/72 (81%)

Query: 161 LELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLR 220
           LELNEEN+EKVL EIRPYL G  GG L+ + I  PIVKVR+TGPAA V TVR+AV++KLR
Sbjct: 2   LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVVRTVRIAVSKKLR 61

Query: 221 EKIPAIAAVQLL 232
           EKIP+I  VQLL
Sbjct: 62  EKIPSIQIVQLL 73

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	232
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	100.0
1xhj_A	88	Nitrogen fixation protein NIFU; alpha-beta, NIFU-l	99.92
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	99.91
1veh_A	92	NIFU-like protein hirip5; structural genomics, mou	99.9
1xhj_A	88	Nitrogen fixation protein NIFU; alpha-beta, NIFU-l	99.88
1th5_A	74	NIFU1; iron-sulfur cluster binding, structural gen	99.86
1veh_A	92	NIFU-like protein hirip5; structural genomics, mou	99.86
2z51_A	154	NIFU-like protein 2, chloroplast; CNFU, iron-sulfu	99.84
2ltm_A	107	NFU1 iron-sulfur cluster scaffold homolog, mitoch;	98.32
2k1h_A	94	Uncharacterized protein Ser13; structural genomics	98.71
2ltl_A	119	NIFU-like protein, mitochondrial; structural genom	98.12
1pqx_A	91	Conserved hypothetical protein; ZR18,structure, au	98.66
3cq1_A	103	Putative uncharacterized protein TTHB138; DTDP-4-k	97.33
3cq1_A	103	Putative uncharacterized protein TTHB138; DTDP-4-k	97.26
1uwd_A	103	Hypothetical protein TM0487; similar to PAAD prote	96.75
1uwd_A	103	Hypothetical protein TM0487; similar to PAAD prote	96.46
3lno_A	108	Putative uncharacterized protein; alpha-beta fold,	96.34
3lno_A	108	Putative uncharacterized protein; alpha-beta fold,	95.66

>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=1.2e-50  Score=335.74  Aligned_cols=152  Identities=88%  Similarity=1.297  Sum_probs=147.8

Q ss_pred             CCCcHHHHHHHHHHhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeeccccccc
Q 026830           80 LPLTAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEET  159 (232)
Q Consensus        80 ~~l~~~~v~~~L~~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v~d~e~  159 (232)
                      ++++.++|+++|++|||+|++||||++|++|++++|+|||+|+|+|||+|.+||+++||++|++++|++..|+++.++++
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            37889999999999999999999999999999999999999999999999999999999999999999999999999888


Q ss_pred             ccchhhhhHHHHHhhcccccccc-CCCcEEEEEeeCCEEEEEEccCCCCchhHHHHHHHHHHhhCCCcceEEeC
Q 026830          160 GLELNEENIEKVLEEIRPYLVGA-AGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       160 g~e~~~~~i~~~L~~iRP~L~~~-dGGdielv~v~~gvv~Vrl~GaC~~c~Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      ++++++++|+++|++|||||+ + ||||+||++|++++|+|||+|+|++|+|+|++||++||+++|+|++|+++
T Consensus        82 ~l~L~~~~v~~~L~~iRP~L~-~~dGGdvelv~v~~~~v~v~l~Gac~~~~Tlk~~Ie~~l~e~vP~i~~V~~~  154 (154)
T 2z51_A           82 GLELNEENIEKVLEEIRPYLI-GTADGSLDLVEIEDPIVKIRITGPAAGVMTVRVAVTQKLREKIPSIAAVQLI  154 (154)
T ss_dssp             SCCSSHHHHHHHHHHHGGGCC-GGGCCEEEEEEEETTEEEEEEESGGGGCHHHHHHHHHHHHHHCTTCCEEEEC
T ss_pred             hhHHHHHHHHHHHHHHHHHhh-hcCCCCeEEEEEECCEEEEEEecCCcccHhHHHHHHHHHHHHCCCccEEEeC
Confidence            999999999999999999999 7 99999999999999999999999999999999999999999999999875

>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=99.92  E-value=7.1e-26  Score=171.40  Aligned_cols=74  Identities=43%  Similarity=0.920  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeeccccc
Q 026830           84 AENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADE  157 (232)
Q Consensus        84 ~~~v~~~L~~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v~d~  157 (232)
                      .++|+++|++|||+|++||||++|++|++|+|+|||+|+|+|||+|.+||+++||++|++++|+++.|++++++
T Consensus         9 ~~~I~~~L~~IRP~L~~dGGdvelv~v~~g~V~V~L~GaC~gCpss~~TLk~gIE~~L~~~vPev~~V~~v~~~   82 (88)
T 1xhj_A            9 FDQVAEVIERLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVEQVFLE   82 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCEEEEEECCSSEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEEEEECC
T ss_pred             HHHHHHHHHHhcHHHHhcCCeEEEEEEECCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCCceEEEecccc
Confidence            78999999999999999999999999999999999999999999999999999999999999999999988763

>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=99.91  E-value=5.5e-25  Score=161.61  Aligned_cols=71  Identities=70%  Similarity=1.049  Sum_probs=67.6

Q ss_pred             cchhhhhHHHHHhhccccccccCC-CcEEEEEeeCCEEEEEEccCCCCchhHHHHHHHHHHhhCCCcceEEeC
Q 026830          161 LELNEENIEKVLEEIRPYLVGAAG-GSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       161 ~e~~~~~i~~~L~~iRP~L~~~dG-Gdielv~v~~gvv~Vrl~GaC~~c~Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      ++++.++|+++|++|||||+ +|| ||+||++|++|+|+|||+|+|+||+|++++||++|++++|++++|+++
T Consensus         2 ~~~~~~~V~~~L~~iRP~L~-~dGGGdvelv~v~~g~V~v~l~GaC~gc~Tlk~gIe~~L~~~vpei~~V~~v   73 (74)
T 1th5_A            2 LELNEENVEKVLNEIRPYLA-GTGGGGLQFLMIKGPIVKVRLTGPAAVVRTVRIAVSKKLREKIPSIQIVQLL   73 (74)
T ss_dssp             CCCSHHHHHHHHTTTHHHHT-TTTCCCCCCCEEETTEEEECCCSSSSSSSSHHHHHHHHHHHHCTTCSEEEEC
T ss_pred             hhHHHHHHHHHHHHHhHHHH-hcCCCcEEEEEEeCCEEEEEEecCCcchHHHHHHHHHHHHHHCCCCcEEEeC
Confidence            35678999999999999999 899 999999999999999999999999999999999999999999999875

>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=99.90  E-value=7.2e-25  Score=167.16  Aligned_cols=76  Identities=45%  Similarity=0.767  Sum_probs=72.4

Q ss_pred             HHHHHHHHH-HhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeeccccccc
Q 026830           84 AENIESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEET  159 (232)
Q Consensus        84 ~~~v~~~L~-~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v~d~e~  159 (232)
                      .++|+.+|+ +|||+|++||||++|++|++|+|+|||+|+|+|||+|.+||+++||++|++++|+++.|+++.+++.
T Consensus        15 ~~~I~~~L~~~IRP~L~~dGGdvelv~v~~g~V~v~l~GaC~gC~ss~~Tlk~gIE~~L~~~vpev~~V~~v~~~~~   91 (92)
T 1veh_A           15 VAMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGVEQVSGPSS   91 (92)
T ss_dssp             HHHHHHHHHHTTHHHHHHHSCCCCEEEEETTEEEECCCCCCCCCHHHHHHTHHHHHHHHHHHCSSCCCEEECSCSCC
T ss_pred             HHHHHHHHHHHhhHHHHhcCCeEEEEEEeCCEEEEEEeecCCCCCCcHHHHHHHHHHHHHHHCCCCCEEEEcCCCCC
Confidence            689999999 5999999999999999999999999999999999999999999999999999999999999877654

>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=99.88  E-value=1.2e-23  Score=159.07  Aligned_cols=68  Identities=26%  Similarity=0.608  Sum_probs=64.6

Q ss_pred             hhhhHHHHHhhccccccccCCCcEEEEEeeCCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          164 NEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       164 ~~~~i~~~L~~iRP~L~~~dGGdielv~v~~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      ..++|+++|++|||+|+ +||||+||++|++|+|+|||+|+|+|||    ||+++||++|++++|+|+.|+.+
T Consensus         8 ~~~~I~~~L~~IRP~L~-~dGGdvelv~v~~g~V~V~L~GaC~gCpss~~TLk~gIE~~L~~~vPev~~V~~v   79 (88)
T 1xhj_A            8 MFDQVAEVIERLRPFLL-RDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVEQV   79 (88)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHSCEEEEEECCSSEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEEEE
T ss_pred             HHHHHHHHHHHhcHHHH-hcCCeEEEEEEECCEEEEEEeecCCCCcchHHHHHHHHHHHHHHhCCCceEEEec
Confidence            36789999999999999 9999999999999999999999999997    99999999999999999999864

>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=99.86  E-value=8.6e-23  Score=149.90  Aligned_cols=70  Identities=39%  Similarity=0.721  Sum_probs=66.9

Q ss_pred             CCcHHHHHHHHHHhcchhhhCC-CcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecc
Q 026830           81 PLTAENIESVLDEIRPYLISDG-GNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (232)
Q Consensus        81 ~l~~~~v~~~L~~IrP~L~~dG-Gdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v  154 (232)
                      +++.++|+++|++|||+|++|| ||++|++|++++|+|||+|+|+||    +||+++||++|++++|++..|+++
T Consensus         3 ~~~~~~V~~~L~~iRP~L~~dGGGdvelv~v~~g~V~v~l~GaC~gc----~Tlk~gIe~~L~~~vpei~~V~~v   73 (74)
T 1th5_A            3 ELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVV----RTVRIAVSKKLREKIPSIQIVQLL   73 (74)
T ss_dssp             CCSHHHHHHHHTTTHHHHTTTTCCCCCCCEEETTEEEECCCSSSSSS----SSHHHHHHHHHHHHCTTCSEEEEC
T ss_pred             hHHHHHHHHHHHHHhHHHHhcCCCcEEEEEEeCCEEEEEEecCCcch----HHHHHHHHHHHHHHCCCCcEEEeC
Confidence            5679999999999999999999 999999999999999999999999    799999999999999999999865

>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=99.86  E-value=2e-22  Score=153.65  Aligned_cols=68  Identities=22%  Similarity=0.444  Sum_probs=64.3

Q ss_pred             hhhhHHHHHh-hccccccccCCCcEEEEEeeCCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          164 NEENIEKVLE-EIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       164 ~~~~i~~~L~-~iRP~L~~~dGGdielv~v~~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      ..++|+++|+ +|||+|+ +||||+||++|++|+|+|||+|+|+|||    ||+++||++|++++|++++|+.+
T Consensus        14 ~~~~I~~~L~~~IRP~L~-~dGGdvelv~v~~g~V~v~l~GaC~gC~ss~~Tlk~gIE~~L~~~vpev~~V~~v   86 (92)
T 1veh_A           14 VVAMIKELLDTRIRPTVQ-EDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGVEQV   86 (92)
T ss_dssp             HHHHHHHHHHHTTHHHHH-HHSCCCCEEEEETTEEEECCCCCCCCCHHHHHHTHHHHHHHHHHHCSSCCCEEEC
T ss_pred             HHHHHHHHHHHHhhHHHH-hcCCeEEEEEEeCCEEEEEEeecCCCCCCcHHHHHHHHHHHHHHHCCCCCEEEEc
Confidence            4678999998 6999999 9999999999999999999999999997    99999999999999999999875

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

Probab=99.84  E-value=7.2e-21  Score=157.32  Aligned_cols=85  Identities=40%  Similarity=0.715  Sum_probs=75.8

Q ss_pred             hhhhhhhcCCCcccCCCCcHHHHHHHHHHhcchhhh-CCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHh
Q 026830           65 RNVIKAVATPDSAIELPLTAENIESVLDEIRPYLIS-DGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLME  143 (232)
Q Consensus        65 ~~~~~~~~~~~~~~~~~l~~~~v~~~L~~IrP~L~~-dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~  143 (232)
                      |........++...+.+++.++|+++|++|||+|++ ||||+||++|++++|+|||+|+|++|    +|++.+||++|++
T Consensus        68 pev~~V~~v~~~~e~l~L~~~~v~~~L~~iRP~L~~~dGGdvelv~v~~~~v~v~l~Gac~~~----~Tlk~~Ie~~l~e  143 (154)
T 2z51_A           68 PEIVAVEALPDEETGLELNEENIEKVLEEIRPYLIGTADGSLDLVEIEDPIVKIRITGPAAGV----MTVRVAVTQKLRE  143 (154)
T ss_dssp             TTCCEEEECCSSCCSCCSSHHHHHHHHHHHGGGCCGGGCCEEEEEEEETTEEEEEEESGGGGC----HHHHHHHHHHHHH
T ss_pred             CCceEEEEccCchhhhHHHHHHHHHHHHHHHHHhhhcCCCCeEEEEEECCEEEEEEecCCccc----HhHHHHHHHHHHH
Confidence            444444445666667899999999999999999997 99999999999999999999999998    8999999999999


Q ss_pred             hCCcceEeec
Q 026830          144 KIPEIVAVES  153 (232)
Q Consensus       144 ~vpei~~V~~  153 (232)
                      ++|+++.|+.
T Consensus       144 ~vP~i~~V~~  153 (154)
T 2z51_A          144 KIPSIAAVQL  153 (154)
T ss_dssp             HCTTCCEEEE
T ss_pred             HCCCccEEEe
Confidence            9999999975

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

Probab=98.32  E-value=4.1e-10  Score=87.72  Aligned_cols=54  Identities=15%  Similarity=0.268  Sum_probs=50.5

Q ss_pred             CCCCCCCCCCCCCCcCCCC--CCcceeeEecCe-eeec------cCCccccchHHHHHHhhhcc
Q 026830            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR------WRNPVCHSSCRLLLIRKRGA   62 (232)
Q Consensus         8 ~s~~~~~~a~~~pla~~lf--~~v~~~~~~~~~-t~t~------w~~~l~~~~~~~i~~~~~~~   62 (232)
                      .+|.++++|..||||++||  +||+.|||++|| ||||      |+. |++.|...||++++++
T Consensus        38 ~eF~~~~~a~~SPLA~~LF~i~gVk~Vf~g~dFITVtK~~~~~dW~~-ikp~V~~~I~~~~~sG  100 (107)
T 2ltm_A           38 MDFPTPAAAFRSPLARQLFRIEGVKSVFFGPDSITVTKENEELDWNL-LKPDIYATIMDFFASG  100 (107)
Confidence            6799999999999999999  999999999999 9999      998 9999999999997543

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

Probab=98.71  E-value=9.2e-10  Score=83.89  Aligned_cols=50  Identities=10%  Similarity=0.159  Sum_probs=47.1

Q ss_pred             CCCCCCCCCCCCCCcCCCC--CCcceeeEecCe-eeec-----cCCccccchHHHHHHhh
Q 026830            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLLIRK   59 (232)
Q Consensus         8 ~s~~~~~~a~~~pla~~lf--~~v~~~~~~~~~-t~t~-----w~~~l~~~~~~~i~~~~   59 (232)
                      .+|.+.+ |..||||++||  +||+.|||++|| ||||     |+. |++.+...|++.+
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            5689988 99999999999  999999999999 9999     998 9999999999874

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

Probab=98.12  E-value=2.4e-09  Score=84.85  Aligned_cols=54  Identities=11%  Similarity=0.168  Sum_probs=49.6

Q ss_pred             CCCCCCCCCC--CCCCcCCCC---CCcceeeEecCe-eeec-----cCCccccchHHHHHHhhhcc
Q 026830            8 PSYSRPHQTL--DSPSCSRPA---SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLLIRKRGA   62 (232)
Q Consensus         8 ~s~~~~~~a~--~~pla~~lf---~~v~~~~~~~~~-t~t~-----w~~~l~~~~~~~i~~~~~~~   62 (232)
                      .+|.++++|.  .||||++||   +||+.|||++|| ||||     |+. |++.|...|+++++++
T Consensus        48 ~~f~~~~~a~~~~SPLA~~LF~~i~GV~~Vf~g~DFITVtK~~~~dW~~-ikp~I~~~I~e~~~sg  112 (119)
T 2ltl_A           48 IVIKNTDENLINHSKLAQQIFLQCPGVESLMIGDDFLTINKDRMVHWNS-IKPEIIDLLTKQLAYG  112 (119)
Confidence            5699999988  899999999   899999999999 9999     998 9999999999997543

>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=98.66  E-value=2e-09  Score=81.62  Aligned_cols=48  Identities=10%  Similarity=0.166  Sum_probs=45.0

Q ss_pred             CCCCCCCCCCCCCCcCCCC--CCcceeeEecCe-eeec-----cCCccccchHHHHHH
Q 026830            8 PSYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCHSSCRLLLI   57 (232)
Q Consensus         8 ~s~~~~~~a~~~pla~~lf--~~v~~~~~~~~~-t~t~-----w~~~l~~~~~~~i~~   57 (232)
                      .+|.+.+ |..||||.+||  +||+.|||++|| ||||     |+. |++.+...|+.
T Consensus        29 ~~F~~~~-a~~SPLA~~LF~i~gVk~Vf~g~dFITVtK~~~~dW~~-ikp~V~~~I~~   84 (91)
T 1pqx_A           29 DTYTKVD-DSQPAFINDILKVEGVKSIFHVMDFISVDKENDANWET-VLPKVEAVFEL   84 (91)
T ss_dssp             EEESSSC-SSCCHHHHHHHHSTTEEEEEEETTEEEEEECTTSCSTT-THHHHHHHTCS
T ss_pred             eEeCCcc-ccCCHHHHHhhCCCCeeEEEEeCCEEEEecCCCCCHHH-HHHHHHHHHHH
Confidence            5788988 99999999999  999999999999 9999     998 99999988874

>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=97.33  E-value=0.0011  Score=50.19  Aligned_cols=66  Identities=26%  Similarity=0.332  Sum_probs=56.9

Q ss_pred             hhhhHHHHHhh-ccccccccCC---CcEEEEEeeCCEEEEEEccCCCCch---hHHHHHHHHHHhhCCCcceEEe
Q 026830          164 NEENIEKVLEE-IRPYLVGAAG---GSLELVTIDEPIVKVRITGPAAGVM---TVRVAVTQKLREKIPAIAAVQL  231 (232)
Q Consensus       164 ~~~~i~~~L~~-iRP~L~~~dG---Gdielv~v~~gvv~Vrl~GaC~~c~---Tl~~~Ie~~L~~~~P~i~~V~~  231 (232)
                      ++++|.++|.. +.|.+. .+-   |-+.=+.++++.|+|.|+-.+.+||   +++..|+++|+ .+|.+..|++
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 LEAQAWALLEAVYDPELG-LDVVNLGLIYDLVVEPPRAYVRMTLTTPGCPLHDSLGEAVRQALS-RLPGVEEVEV   79 (103)
T ss_dssp             HHHHHHHHHTTCBCTTTC-SBTTTTTCEEEEEEETTEEEEEECCSSSSCCSSCHHHHHHHHHHH-TSTTCCEEEE
T ss_pred             HHHHHHHHHhCCCCCCCC-cCchhcCceEEEEEECCEEEEEEEECCCCCcHHHHHHHHHHHHHH-hCCCceeEEE
Confidence            46788899986 789987 676   7888889999999999999999998   89999999997 6899988764

>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=97.26  E-value=0.00097  Score=50.38  Aligned_cols=70  Identities=16%  Similarity=0.205  Sum_probs=59.6

Q ss_pred             CcHHHHHHHHHH-hcchhhhCC---CcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeec
Q 026830           82 LTAENIESVLDE-IRPYLISDG---GNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (232)
Q Consensus        82 l~~~~v~~~L~~-IrP~L~~dG---Gdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~  153 (232)
                      .+.++|.++|.. +.|.+..+-   |-|.=+.++++.|+|.|...+.+||. ...++..|+.+|+ .+|++..|..
T Consensus         6 ~~~~~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            6 PLEAQAWALLEAVYDPELGLDVVNLGLIYDLVVEPPRAYVRMTLTTPGCPL-HDSLGEAVRQALS-RLPGVEEVEV   79 (103)
T ss_dssp             HHHHHHHHHHTTCBCTTTCSBTTTTTCEEEEEEETTEEEEEECCSSSSCCS-SCHHHHHHHHHHH-TSTTCCEEEE
T ss_pred             hHHHHHHHHHhCCCCCCCCcCchhcCceEEEEEECCEEEEEEEECCCCCcH-HHHHHHHHHHHHH-hCCCceeEEE
Confidence            347889999986 789998777   88888899989999999999999998 6788899999997 4788877653

>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=96.75  E-value=0.0039  Score=46.94  Aligned_cols=66  Identities=20%  Similarity=0.214  Sum_probs=53.4

Q ss_pred             hhhhHHHHHhhcc-ccccccCC---CcEEEEEeeC-CEEEEEEccCCCCch---hHHHHHHHHHHhhCCCcceEEe
Q 026830          164 NEENIEKVLEEIR-PYLVGAAG---GSLELVTIDE-PIVKVRITGPAAGVM---TVRVAVTQKLREKIPAIAAVQL  231 (232)
Q Consensus       164 ~~~~i~~~L~~iR-P~L~~~dG---Gdielv~v~~-gvv~Vrl~GaC~~c~---Tl~~~Ie~~L~~~~P~i~~V~~  231 (232)
                      ++++|.++|..+. |.+. .+-   |-+.=+.+++ |.|+|.|+-...+|+   .++..|+++|+ .+|++..|.+
T Consensus         7 ~~~~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            7 TKEDVLNALKNVIDFELG-LDVVSLGLVYDIQIDDQNNVKVLMTMTTPMCPLAGMILSDAEEAIK-KIEGVNNVEV   80 (103)
T ss_dssp             CHHHHHHHHTTCBCTTTS-SBTTTTTCCCCEEECTTCEEEEEECCSSSCCSSHHHHHHHHHHHHH-TSSSCCEEEE
T ss_pred             hHHHHHHHHcCCCCCCCC-cChhhcCCeeEEEEcCCCEEEEEEEECCCCCcHHHHHHHHHHHHHH-hCCCcceEEE
Confidence            4678889998755 8886 565   6666678875 899999999999997   88899999996 6899988764

>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=96.46  E-value=0.008  Score=45.19  Aligned_cols=70  Identities=24%  Similarity=0.245  Sum_probs=56.8

Q ss_pred             CcHHHHHHHHHHh-cchhhhCC---CcEEEEEEeC-cEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeec
Q 026830           82 LTAENIESVLDEI-RPYLISDG---GNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (232)
Q Consensus        82 l~~~~v~~~L~~I-rP~L~~dG---Gdvelv~i~~-~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~  153 (232)
                      ++.++|.++|..| -|.+..+-   |-|.=+.+++ |.|+|.+.-.+.+||. ...++..|+.+|++ +|++..|..
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 VTKEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQNNVKVLMTMTTPMCPL-AGMILSDAEEAIKK-IEGVNNVEV   80 (103)
T ss_dssp             CCHHHHHHHHTTCBCTTTSSBTTTTTCCCCEEECTTCEEEEEECCSSSCCSS-HHHHHHHHHHHHHT-SSSCCEEEE
T ss_pred             chHHHHHHHHcCCCCCCCCcChhhcCCeeEEEEcCCCEEEEEEEECCCCCcH-HHHHHHHHHHHHHh-CCCcceEEE
Confidence            4578999999875 48887665   6677778885 8999999999999996 68888999999974 788877653

>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=96.34  E-value=0.011  Score=45.06  Aligned_cols=69  Identities=25%  Similarity=0.286  Sum_probs=55.6

Q ss_pred             chhhhhHHHHHhh-ccccccccC---CCcEEEEEeeC-CEEEEEEccCCCCch---hHHHHHHHHHHhhCCCcceEEe
Q 026830          162 ELNEENIEKVLEE-IRPYLVGAA---GGSLELVTIDE-PIVKVRITGPAAGVM---TVRVAVTQKLREKIPAIAAVQL  231 (232)
Q Consensus       162 e~~~~~i~~~L~~-iRP~L~~~d---GGdielv~v~~-gvv~Vrl~GaC~~c~---Tl~~~Ie~~L~~~~P~i~~V~~  231 (232)
                      +.++++|.++|.. .-|.+. .+   -|-+.=+.+++ |.|+|.|+-...+||   .++..|+++|+..+|++.+|.+
T Consensus         7 ~~~~~~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            7 EAFENKLYANLEAVIDPELG-VDIVNLGLVYDVTADENNNAVITMTMTSIGCPMAGQIVSDVKKVLSTNVPEVNEIEV   83 (108)
T ss_dssp             HHHHHHHHHHGGGCEETTTT-EEHHHHTCEEEEEECTTCCEEEEECCSCTTCTTHHHHHHHHHHHHHHHCTTCCCEEE
T ss_pred             hhhHHHHHHHHcCCCCCCCC-CCHHHcCCceEEEECCCCeEEEEEEECCCCCcHHHHHHHHHHHHHHHhCCCCceEEE
Confidence            3456778888875 578775 44   47777788875 999999999999997   8889999999778999988764

>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=95.66  E-value=0.02  Score=43.51  Aligned_cols=70  Identities=21%  Similarity=0.273  Sum_probs=56.3

Q ss_pred             cHHHHHHHHHH-hcchhhhC---CCcEEEEEEeC-cEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeec
Q 026830           83 TAENIESVLDE-IRPYLISD---GGNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (232)
Q Consensus        83 ~~~~v~~~L~~-IrP~L~~d---GGdvelv~i~~-~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~  153 (232)
                      +.++|.++|.. +-|.+..+   -|-|.=+.+++ |.|+|.|.-...+||.. ..++..|+.+|+..+|++..|..
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 FENKLYANLEAVIDPELGVDIVNLGLVYDVTADENNNAVITMTMTSIGCPMA-GQIVSDVKKVLSTNVPEVNEIEV   83 (108)
T ss_dssp             HHHHHHHHGGGCEETTTTEEHHHHTCEEEEEECTTCCEEEEECCSCTTCTTH-HHHHHHHHHHHHHHCTTCCCEEE
T ss_pred             hHHHHHHHHcCCCCCCCCCCHHHcCCceEEEECCCCeEEEEEEECCCCCcHH-HHHHHHHHHHHHHhCCCCceEEE
Confidence            46788888875 57777533   47788888885 89999999999999975 68889999999667999887753

---

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	232
d1xhja_	88	d.52.8.1 (A:) Nitrogen fixation protein NifU homol	8e-29
d1xhja_	88	d.52.8.1 (A:) Nitrogen fixation protein NifU homol	4e-13
d1veha_	92	d.52.8.1 (A:) HIRA-interacting protein 5, HIRIP5 {	7e-26
d1veha_	92	d.52.8.1 (A:) HIRA-interacting protein 5, HIRIP5 {	6e-07
d1th5a1	73	d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {	6e-25
d1th5a1	73	d.52.8.1 (A:154-226) NifU-like protein 1, NIFUL1 {	6e-24

>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 =  101 bits (254), Expect = 8e-29
 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

>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 = 61.0 bits (148), Expect = 4e-13
 Identities = 18/70 (25%), Positives = 40/70 (57%), Gaps = 5/70 (7%)

Query: 165 EENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAG----VMTVRVAVTQKLR 220
            + + +V+E +RP+L+   GG   LV +++ IVK+++ G         +T++  + + L 
Sbjct: 9   FDQVAEVIERLRPFLL-RDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALH 67

Query: 221 EKIPAIAAVQ 230
           E++P +  V+
Sbjct: 68  EEVPGVIEVE 77

>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 = 94.5 bits (235), Expect = 7e-26
 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

>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 = 44.1 bits (104), Expect = 6e-07
 Identities = 18/84 (21%), Positives = 42/84 (50%), Gaps = 9/84 (10%)

Query: 155 ADEETGLELNEE---NIEKVLEE-IRPYLVGAAGGSLELVTIDEPIVKVRITGPAAG--- 207
           +   +G E ++E    I+++L+  IRP +    GG +     ++ IV++++ G       
Sbjct: 2   SSGSSGSEEDDEVVAMIKELLDTRIRPTVQ-EDGGDVIYRGFEDGIVRLKLQGSCTSCPS 60

Query: 208 -VMTVRVAVTQKLREKIPAIAAVQ 230
            ++T++  +   L+  IP +  V+
Sbjct: 61  SIITLKSGIQNMLQFYIPEVEGVE 84

>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 = 91.3 bits (227), Expect = 6e-25
 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 = 88.6 bits (220), Expect = 6e-24
 Identities = 51/72 (70%), Positives = 59/72 (81%)

Query: 161 LELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLR 220
           LELNEEN+EKVL EIRPYL G  GG L+ + I  PIVKVR+TGPAA V TVR+AV++KLR
Sbjct: 1   LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVVRTVRIAVSKKLR 60

Query: 221 EKIPAIAAVQLL 232
           EKIP+I  VQLL
Sbjct: 61  EKIPSIQIVQLL 72

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	232
d1th5a1	73	NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [	99.91
d1xhja_	88	Nitrogen fixation protein NifU homolog SE0630 {Sta	99.91
d1veha_	92	HIRA-interacting protein 5, HIRIP5 {Mouse (Mus mus	99.9
d1xhja_	88	Nitrogen fixation protein NifU homolog SE0630 {Sta	99.87
d1th5a1	73	NifU-like protein 1, NIFUL1 {Rice (Oryza sativa) [	99.86
d1veha_	92	HIRA-interacting protein 5, HIRIP5 {Mouse (Mus mus	99.84
d2ffma1	83	Hypothetical protein SAV1430 {Staphylococcus aureu	97.61
d2cu6a1	91	Hypothetical protein TTHB138 {Thermus thermophilus	94.31
d1uwda_	102	Hypothetical protein TM0487 {Thermotoga maritima [	92.75
d2cu6a1	91	Hypothetical protein TTHB138 {Thermus thermophilus	92.64
d1uwda_	102	Hypothetical protein TM0487 {Thermotoga maritima [	92.31

>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=99.91  E-value=7.8e-26  Score=163.98  Aligned_cols=72  Identities=71%  Similarity=1.065  Sum_probs=68.3

Q ss_pred             cchhhhhHHHHHhhccccccccCCCcEEEEEeeCCEEEEEEccCCCCchhHHHHHHHHHHhhCCCcceEEeC
Q 026830          161 LELNEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVMTVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       161 ~e~~~~~i~~~L~~iRP~L~~~dGGdielv~v~~gvv~Vrl~GaC~~c~Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      +++++++|+.+|++|||||+.+||||++|+++++|+|+|||+|+|+||+|++++||++|++++|+|+.|+++
T Consensus         1 mel~ee~V~~vL~eirP~l~a~dGGdvelv~i~~~~v~v~l~GaC~gC~Tl~~gIe~~L~~~iPei~~V~~v   72 (73)
T d1th5a1           1 LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVVRTVRIAVSKKLREKIPSIQIVQLL   72 (73)
T ss_dssp             CCCSHHHHHHHHTTTHHHHTTTTCCCCCCCEEETTEEEECCCSSSSSSSSHHHHHHHHHHHHCTTCSEEEEC
T ss_pred             CCCCHHHHHHHHHHhcccccccCCceEEEEEecCCEEEEEecCCCcccchHHHHHHHHHHHHCCCccEEEec
Confidence            578899999999999999973599999999999999999999999999999999999999999999999875

>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=99.91  E-value=3.8e-25  Score=165.58  Aligned_cols=76  Identities=41%  Similarity=0.915  Sum_probs=71.7

Q ss_pred             cHHHHHHHHHHhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecc-cccc
Q 026830           83 TAENIESVLDEIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV-ADEE  158 (232)
Q Consensus        83 ~~~~v~~~L~~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v-~d~e  158 (232)
                      ..++|+++|++|||+|++||||++|+++++|+|+|||+|+|+|||++.+||+.+||++|++++|++..|+.+ +++.
T Consensus         8 l~~~I~~vLe~IRP~l~~dGGdvelv~v~~g~V~v~l~GaC~gC~~s~~Tlk~~Ie~~L~~~vpev~~V~~V~~~~~   84 (88)
T d1xhja_           8 MFDQVAEVIERLRPFLLRDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVEQVFLEHH   84 (88)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSCEEEEEECCSSEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEEEEECCCC
T ss_pred             HHHHHHHHHHHhhHHHHhCCCcEEEEeccCCEEEEEecCCCCCCccHHHHHHHHHHHHHHHHCCCCceEEEecCCCC
Confidence            378999999999999999999999999999999999999999999999999999999999999999999875 4544

>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=99.90  E-value=2.8e-25  Score=167.56  Aligned_cols=77  Identities=45%  Similarity=0.785  Sum_probs=73.5

Q ss_pred             HHHHHHHHH-HhcchhhhCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecccccccc
Q 026830           84 AENIESVLD-EIRPYLISDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESVADEETG  160 (232)
Q Consensus        84 ~~~v~~~L~-~IrP~L~~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v~d~e~g  160 (232)
                      .++|+.+|+ +|||+|++|||||+|++|++|+|+|+|+|+|+|||++.+||+.+||++|++++|+++.|+.++++..|
T Consensus        15 ~~~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_          15 VAMIKELLDTRIRPTVQEDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGVEQVSGPSSG   92 (92)
T ss_dssp             HHHHHHHHHHTTHHHHHHHSCCCCEEEEETTEEEECCCCCCCCCHHHHHHTHHHHHHHHHHHCSSCCCEEECSCSCCC
T ss_pred             HHHHHHHHHHhcChHHHHcCCceEEEEeeCCeEEEEEccCCCCChhHHHHHHHHHHHHHHHHCCCcceEEEcCCCCCC
Confidence            679999998 69999999999999999999999999999999999999999999999999999999999999887653

>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=99.87  E-value=3.9e-23  Score=154.59  Aligned_cols=68  Identities=26%  Similarity=0.608  Sum_probs=64.5

Q ss_pred             hhhhHHHHHhhccccccccCCCcEEEEEeeCCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          164 NEENIEKVLEEIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       164 ~~~~i~~~L~~iRP~L~~~dGGdielv~v~~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      ..++|+++|++|||||+ +||||++|+++++|+|+|||+|+|+|||    |++++||++|++++|+++.|+.|
T Consensus         8 l~~~I~~vLe~IRP~l~-~dGGdvelv~v~~g~V~v~l~GaC~gC~~s~~Tlk~~Ie~~L~~~vpev~~V~~V   79 (88)
T d1xhja_           8 MFDQVAEVIERLRPFLL-RDGGDCTLVDVEDGIVKLQLHGACGTCPSSTITLKAGIERALHEEVPGVIEVEQV   79 (88)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHSCEEEEEECCSSEEEEEEESSCCSSCHHHHHHHHHHHHHHHHHSTTCCEEEEE
T ss_pred             HHHHHHHHHHHhhHHHH-hCCCcEEEEeccCCEEEEEecCCCCCCccHHHHHHHHHHHHHHHHCCCCceEEEe
Confidence            36789999999999999 8999999999999999999999999997    99999999999999999999864

>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=99.86  E-value=6.2e-23  Score=148.53  Aligned_cols=71  Identities=39%  Similarity=0.735  Sum_probs=66.6

Q ss_pred             CCCcHHHHHHHHHHhcchhh-hCCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecc
Q 026830           80 LPLTAENIESVLDEIRPYLI-SDGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (232)
Q Consensus        80 ~~l~~~~v~~~L~~IrP~L~-~dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v  154 (232)
                      +++++++|+.+|++|||+|+ +||||++|+++++++|+|||+|+|+||    +||+.+||+.|++++|++..|+.+
T Consensus         1 mel~ee~V~~vL~eirP~l~a~dGGdvelv~i~~~~v~v~l~GaC~gC----~Tl~~gIe~~L~~~iPei~~V~~v   72 (73)
T d1th5a1           1 LELNEENVEKVLNEIRPYLAGTGGGGLQFLMIKGPIVKVRLTGPAAVV----RTVRIAVSKKLREKIPSIQIVQLL   72 (73)
T ss_dssp             CCCSHHHHHHHHTTTHHHHTTTTCCCCCCCEEETTEEEECCCSSSSSS----SSHHHHHHHHHHHHCTTCSEEEEC
T ss_pred             CCCCHHHHHHHHHHhcccccccCCceEEEEEecCCEEEEEecCCCccc----chHHHHHHHHHHHHCCCccEEEec
Confidence            36889999999999999998 699999999999999999999999999    499999999999999999988754

>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=99.84  E-value=3.8e-22  Score=150.25  Aligned_cols=71  Identities=21%  Similarity=0.406  Sum_probs=65.7

Q ss_pred             cchhhhhHHHHHh-hccccccccCCCcEEEEEeeCCEEEEEEccCCCCch----hHHHHHHHHHHhhCCCcceEEeC
Q 026830          161 LELNEENIEKVLE-EIRPYLVGAAGGSLELVTIDEPIVKVRITGPAAGVM----TVRVAVTQKLREKIPAIAAVQLL  232 (232)
Q Consensus       161 ~e~~~~~i~~~L~-~iRP~L~~~dGGdielv~v~~gvv~Vrl~GaC~~c~----Tl~~~Ie~~L~~~~P~i~~V~~~  232 (232)
                      .+...++|+++|+ +|||||+ +||||++|++|++|+|+|+|+|+|++||    ||+++||++|++++|+|+.|+.+
T Consensus        11 d~e~~~~I~~vL~~~IrP~l~-~dGGdv~lv~v~~g~V~v~l~GaC~gCp~s~~Tlk~~Ie~~L~~~vpev~~V~~v   86 (92)
T d1veha_          11 DDEVVAMIKELLDTRIRPTVQ-EDGGDVIYRGFEDGIVRLKLQGSCTSCPSSIITLKSGIQNMLQFYIPEVEGVEQV   86 (92)
T ss_dssp             CCHHHHHHHHHHHHTTHHHHH-HHSCCCCEEEEETTEEEECCCCCCCCCHHHHHHTHHHHHHHHHHHCSSCCCEEEC
T ss_pred             cHHHHHHHHHHHHHhcChHHH-HcCCceEEEEeeCCeEEEEEccCCCCChhHHHHHHHHHHHHHHHHCCCcceEEEc
Confidence            3445678999998 7999999 9999999999999999999999999997    99999999999999999999865

>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=97.61  E-value=1.4e-06  Score=62.87  Aligned_cols=42  Identities=12%  Similarity=0.169  Sum_probs=34.1

Q ss_pred             CCCCCCCCCCCCCcCCCC--CCcceeeEecCe-eeec-----cCCccccchH
Q 026830            9 SYSRPHQTLDSPSCSRPA--SKSTKSFFGERV-SLTR-----WRNPVCHSSC   52 (232)
Q Consensus         9 s~~~~~~a~~~pla~~lf--~~v~~~~~~~~~-t~t~-----w~~~l~~~~~   52 (232)
                      +|.+.+ +..+|||.+||  +||++|||+++| ||||     |+. |++.|-
T Consensus        30 ~~~~~~-~~~~pla~~Lf~i~gV~~Vf~~~dFITVtK~~~~~W~~-l~~~I~   79 (83)
T d2ffma1          30 TYTKVD-DSQPAFINDILKVEGVKSIFHVMDFISVDKENDANWET-VLPKVE   79 (83)
T ss_dssp             EECSCC-TTSCHHHHHHHTSTTEEEEEEETTEEEEEECTTCCHHH-HHHHHH
T ss_pred             eeCchh-hhcCHHHHHHHcCCCceEEEEeCCEEEEEeCCCCCHHH-HHHHHH
Confidence            455554 55689999999  999999999999 9999     887 666543

>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=94.31  E-value=0.092  Score=37.01  Aligned_cols=69  Identities=14%  Similarity=0.197  Sum_probs=54.6

Q ss_pred             HHHHHHHHHH-hcchhhh---CCCcEEEEEEeCcEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeecc
Q 026830           84 AENIESVLDE-IRPYLIS---DGGNVALHEIDGNVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVESV  154 (232)
Q Consensus        84 ~~~v~~~L~~-IrP~L~~---dGGdvelv~i~~~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~v  154 (232)
                      +++|.++|.. +-|.+..   +=|-|.=+.+++|.+.|.|.-...+||... .+...|+.+|+. +|++.+|...
T Consensus         3 e~~v~eaL~~V~DPe~~~dIv~LGlV~~i~i~~~~v~v~l~lt~~~cp~~~-~i~~~i~~al~~-l~gv~~V~V~   75 (91)
T d2cu6a1           3 EAQAWALLEAVYDPELGLDVVNLGLIYDLVVEPPRAYVRMTLTTPGCPLHD-SLGEAVRQALSR-LPGVEEVEVE   75 (91)
T ss_dssp             HHHHHHHHTTCEETTTTEETTTTTCEEEEEEETTEEEEEECCSSSSCCSSC-HHHHHHHHHHHT-STTCCEEEEE
T ss_pred             HHHHHHHHhcCCCCCCCcChhhccceeEEEEeccccEEEEEcCCCCCcHHH-HHHHHHHHHHHc-CCCCceEEEE
Confidence            6788888874 5676642   346788889999999999999999999764 477899999975 8888887543

>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=92.75  E-value=0.16  Score=36.63  Aligned_cols=71  Identities=24%  Similarity=0.222  Sum_probs=54.8

Q ss_pred             CCcHHHHHHHHHH-hcchhhh---CCCcEEEEEEeC-cEEEEEEcccCCCCCCchHhHHHHHHHHHHhhCCcceEeec
Q 026830           81 PLTAENIESVLDE-IRPYLIS---DGGNVALHEIDG-NVVRLKLQGACGSCPSSVMTMKMGIERRLMEKIPEIVAVES  153 (232)
Q Consensus        81 ~l~~~~v~~~L~~-IrP~L~~---dGGdvelv~i~~-~~v~Vrl~GaC~gCp~s~~Tlk~~Ie~~L~~~vpei~~V~~  153 (232)
                      .+++++|.++|.. +-|.+..   +=|-|.=+.|++ |.|.|.+.-.+.+||.. ..+...|+++|++ +|++..|..
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 KVTKEDVLNALKNVIDFELGLDVVSLGLVYDIQIDDQNNVKVLMTMTTPMCPLA-GMILSDAEEAIKK-IEGVNNVEV   79 (102)
T ss_dssp             CCCHHHHHHHHTTCBCTTTSSBTTTTTCCCCEEECTTCEEEEEECCSSSCCSSH-HHHHHHHHHHHHT-SSSCCEEEE
T ss_pred             ccCHHHHHHHHhCCCCCCCCcceeeccceeeEEeccccceEEEEecCCCCCchH-HHHHHHHHHHHHc-CCCCceEEE
Confidence            5678999999975 6777642   234466667876 79999999999999975 5667899999985 888887753

>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=92.64  E-value=0.18  Score=35.35  Aligned_cols=65  Identities=26%  Similarity=0.347  Sum_probs=51.1

Q ss_pred             hhhHHHHHhh-cccccccc---CCCcEEEEEeeCCEEEEEEccCCCCch---hHHHHHHHHHHhhCCCcceEEe
Q 026830          165 EENIEKVLEE-IRPYLVGA---AGGSLELVTIDEPIVKVRITGPAAGVM---TVRVAVTQKLREKIPAIAAVQL  231 (232)
Q Consensus       165 ~~~i~~~L~~-iRP~L~~~---dGGdielv~v~~gvv~Vrl~GaC~~c~---Tl~~~Ie~~L~~~~P~i~~V~~  231 (232)
                      +++|.++|.. +-|.+. .   +=|=+.=+.+++|.++|.|.=...+||   .+++.|+++|+ .+|++.+|.+
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 EAQAWALLEAVYDPELG-LDVVNLGLIYDLVVEPPRAYVRMTLTTPGCPLHDSLGEAVRQALS-RLPGVEEVEV   74 (91)
T ss_dssp             HHHHHHHHTTCEETTTT-EETTTTTCEEEEEEETTEEEEEECCSSSSCCSSCHHHHHHHHHHH-TSTTCCEEEE
T ss_pred             HHHHHHHHhcCCCCCCC-cChhhccceeEEEEeccccEEEEEcCCCCCcHHHHHHHHHHHHHH-cCCCCceEEE
Confidence            4566677764 556554 3   356678888999999999999999998   88899999997 6899988754

>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=92.31  E-value=0.19  Score=36.17  Aligned_cols=68  Identities=21%  Similarity=0.232  Sum_probs=51.7

Q ss_pred             chhhhhHHHHHhh-ccccccccC---CCcEEEEEeeC-CEEEEEEccCCCCch---hHHHHHHHHHHhhCCCcceEEe
Q 026830          162 ELNEENIEKVLEE-IRPYLVGAA---GGSLELVTIDE-PIVKVRITGPAAGVM---TVRVAVTQKLREKIPAIAAVQL  231 (232)
Q Consensus       162 e~~~~~i~~~L~~-iRP~L~~~d---GGdielv~v~~-gvv~Vrl~GaC~~c~---Tl~~~Ie~~L~~~~P~i~~V~~  231 (232)
                      +.++++|.++|.. +-|.+. .+   =|-+.=+.|++ |.|+|.|+=.+.+||   .+...|+++|+ ++|.+.+|..
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 KVTKEDVLNALKNVIDFELG-LDVVSLGLVYDIQIDDQNNVKVLMTMTTPMCPLAGMILSDAEEAIK-KIEGVNNVEV   79 (102)
T ss_dssp             CCCHHHHHHHHTTCBCTTTS-SBTTTTTCCCCEEECTTCEEEEEECCSSSCCSSHHHHHHHHHHHHH-TSSSCCEEEE
T ss_pred             ccCHHHHHHHHhCCCCCCCC-cceeeccceeeEEeccccceEEEEecCCCCCchHHHHHHHHHHHHH-cCCCCceEEE
Confidence            3567788888874 677764 43   34455566776 799999999999997   78889999998 6899988764