Citrus Sinensis ID: 034618

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------9
Protein Sequence
MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAASEAEPAPRAADV
Secondary Structure (PSIPRED)
ccEEEccHHHHHHHHHHHHHHHHHcccHHHHHcccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEHHcccccccccccHHHHHHHccccHHHHHHHHcHHHHHHHcccccEEHHHHHHHHHHHHHHHHHHHHHcccccHHHcccHHHHccc
Coil and Loop (DISEMBL)
mnyllrgftnlygvsnvsatewvkgkQIQEVLSIKNTEiakhlslppvklHCSMLAEDAIKAAVKDYEakrtkpsaaseaepapraadv
Flexible Loop (DISEMBL)
MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKrtkpsaaseaepapraadv
Low Complexity Region (SEG)
MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKpsaaseaepapraaDV
Disordered region (IsUnstruct)
**YLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAV*************************
Disordered Region (DISOPRED)
MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDY**********************
Disordered Region (DISEMBL)
MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVK************************
Disordered Region (DISPRO)
MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRT*****************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAASEAEPAPRAADV
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	89	2.2.26 [Sep-21-2011]
O49627	167	Iron-sulfur cluster assem	yes	no	0.808	0.431	0.708	2e-22
O81433	171	Iron-sulfur cluster assem	no	no	0.617	0.321	0.781	5e-20
Q9MAB6	163	Iron-sulfur cluster assem	no	no	0.685	0.374	0.688	3e-19
Q6BGU0	179	Iron sulfur cluster assem	yes	no	0.719	0.357	0.681	1e-17
Q9D7P6	168	Iron-sulfur cluster assem	yes	no	0.640	0.339	0.719	2e-17
Q9H1K1	167	Iron-sulfur cluster assem	no	no	0.640	0.341	0.719	2e-17
Q6CRQ9	180	Iron sulfur cluster assem	yes	no	0.584	0.288	0.75	3e-17
Q9ZD61	131	NifU-like protein OS=Rick	yes	no	0.584	0.396	0.730	7e-17
Q03020	165	Iron sulfur cluster assem	yes	no	0.662	0.357	0.677	8e-17
Q12056	156	Iron sulfur cluster assem	no	no	0.584	0.333	0.75	2e-16

>sp|O49627|ISU1_ARATH Iron-sulfur cluster assembly protein 1 OS=Arabidopsis thaliana GN=ISU1 PE=2 SV=1

 Score =  104 bits (259), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 51/72 (70%), Positives = 60/72 (83%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGK +++VL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDY+ KR K 
Sbjct: 96  SSSVATEWVKGKAMEDVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYKEKRVKT 155

Query: 75  SAASEAEPAPRA 86
           + A+ A    +A
Sbjct: 156 NGAAAAGETTQA 167

Involved in iron homeostasis within the mitochondrion where it is involved in the assembly of iron-sulfur proteins. Essential for de novo biosynthesis of mitochondrial iron sulfur proteins. Involved in the assembly or repair of the [Fe-S] clusters present in iron-sulfur proteins.
Arabidopsis thaliana (taxid: 3702)

>sp|O81433|ISU3_ARATH Iron-sulfur cluster assembly protein 3 OS=Arabidopsis thaliana GN=ISU3 PE=2 SV=1

 Score = 96.3 bits (238), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 43/55 (78%), Positives = 52/55 (94%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK 73
           ATEWVKGK ++EVL+IKN++IAKHLSLPPVKLHCSMLAEDAIKAA+K+Y+ K+ K
Sbjct: 98  ATEWVKGKSVEEVLTIKNSQIAKHLSLPPVKLHCSMLAEDAIKAAIKNYKEKQDK 152

Involved in iron homeostasis within the mitochondrion where it is involved in the assembly of iron-sulfur proteins. Essential for de novo biosynthesis of mitochondrial iron sulfur proteins. Involved in the assembly or repair of the [Fe-S] clusters present in iron-sulfur proteins.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MAB6|ISU2_ARATH Iron-sulfur cluster assembly protein 2 OS=Arabidopsis thaliana GN=ISU2 PE=2 SV=1

 Score = 93.6 bits (231), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/61 (68%), Positives = 52/61 (85%)

Query: 21  EWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAASEA 80
           EW+KGK + EV++IKN EIAKHL LPPVKLHCSMLAEDAIK+AV+DY+ K+ K +AA+  
Sbjct: 99  EWIKGKTLDEVMTIKNAEIAKHLRLPPVKLHCSMLAEDAIKSAVRDYKEKQAKTNAAAAE 158

Query: 81  E 81
           E
Sbjct: 159 E 159

Involved in iron homeostasis within the mitochondrion where it is involved in the assembly of iron-sulfur proteins. Essential for de novo biosynthesis of mitochondrial iron sulfur proteins. Involved in the assembly or repair of the [Fe-S] clusters present in iron-sulfur proteins.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6BGU0|ISU1_DEBHA Iron sulfur cluster assembly protein 1, mitochondrial OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=ISU1 PE=3 SV=1

 Score = 88.6 bits (218), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 45/66 (68%), Positives = 52/66 (78%), Gaps = 2/66 (3%)

Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRT--KPSAA 77
           TE VKGK I+E + IKNT IAK LSLPPVKLHCSMLAEDAIK+AVKDY +KR+  +P+  
Sbjct: 109 TELVKGKTIEEAVKIKNTAIAKELSLPPVKLHCSMLAEDAIKSAVKDYRSKRSVKQPTLG 168

Query: 78  SEAEPA 83
            EA  A
Sbjct: 169 PEAAQA 174

Involved in iron homeostasis within the mitochondrion where it is involved in the assembly of iron-sulfur proteins. Essential for de novo biosynthesis of mitochondrial and cytoplasmic iron sulfur proteins. May also be involved in the repair of iron sulfur clusters.

Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) (taxid: 284592)

>sp|Q9D7P6|ISCU_MOUSE Iron-sulfur cluster assembly enzyme ISCU, mitochondrial OS=Mus musculus GN=Iscu PE=1 SV=1

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct: 102 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 158

Involved in the assembly or repair of [Fe-S] clusters that are present in iron-sulfur proteins. Binds iron.

Mus musculus (taxid: 10090)

>sp|Q9H1K1|ISCU_HUMAN Iron-sulfur cluster assembly enzyme ISCU, mitochondrial OS=Homo sapiens GN=ISCU PE=1 SV=2

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct: 101 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 157

Involved in the assembly or repair of the [Fe-S] clusters present in iron-sulfur proteins. Binds iron.

Homo sapiens (taxid: 9606)

>sp|Q6CRQ9|ISU1_KLULA Iron sulfur cluster assembly protein 1, mitochondrial OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=ISU1 PE=3 SV=1

 Score = 87.0 bits (214), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 39/52 (75%), Positives = 46/52 (88%)

Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           TE V+GK +++   IKNTEIA+ LSLPPVKLHCSMLAEDAIKAA+KDY+AKR
Sbjct: 123 TELVRGKTLEDAAKIKNTEIARELSLPPVKLHCSMLAEDAIKAAIKDYQAKR 174

Involved in iron homeostasis within the mitochondrion where it is involved in the assembly of iron-sulfur proteins. Essential for de novo biosynthesis of mitochondrial and cytoplasmic iron sulfur proteins. May also be involved in the repair of iron sulfur clusters.

Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|Q9ZD61|NIFU_RICPR NifU-like protein OS=Rickettsia prowazekii (strain Madrid E) GN=nifU PE=3 SV=1

 Score = 85.9 bits (211), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 38/52 (73%), Positives = 45/52 (86%)

Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           TEW+KGK +++   IKNTEIAK LSLPPVKLHCS+LAEDAIKAA+ DY+ KR
Sbjct: 74  TEWIKGKSVEDAKEIKNTEIAKELSLPPVKLHCSLLAEDAIKAAIADYKQKR 125

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

Rickettsia prowazekii (strain Madrid E) (taxid: 272947)

>sp|Q03020|ISU1_YEAST Iron sulfur cluster assembly protein 1, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ISU1 PE=1 SV=1

 Score = 85.5 bits (210), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 40/59 (67%), Positives = 47/59 (79%)

Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAAS 78
           TE V+G  + +   IKNTEIAK LSLPPVKLHCSMLAEDAIKAA+KDY++KR  P+  S
Sbjct: 107 TELVQGMTLDDAAKIKNTEIAKELSLPPVKLHCSMLAEDAIKAAIKDYKSKRNTPTMLS 165

Involved in iron homeostasis within the mitochondrion where it is involved in the assembly of iron-sulfur proteins. Essential for de novo biosynthesis of mitochondrial and cytoplasmic iron sulfur proteins. May also be involved in the repair of iron sulfur clusters.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q12056|ISU2_YEAST Iron sulfur cluster assembly protein 2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ISU2 PE=1 SV=1

 Score = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/52 (75%), Positives = 44/52 (84%)

Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           TE V+G  + E + IKNTEIAK LSLPPVKLHCSMLAEDAIKAA+KDY+ KR
Sbjct: 99  TELVRGMSLDEAVKIKNTEIAKELSLPPVKLHCSMLAEDAIKAAIKDYKTKR 150

Involved in iron homeostasis within the mitochondrion where it is involved in the assembly of iron-sulfur proteins. Essential for de novo biosynthesis of mitochondrial and cytoplasmic iron sulfur proteins. May also be involved in the repair of iron sulfur clusters.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	89
224121706	163	predicted protein [Populus trichocarpa]	0.820	0.447	0.780	6e-25
224135819	164	predicted protein [Populus trichocarpa]	0.820	0.445	0.767	1e-24
356513449	165	PREDICTED: iron-sulfur cluster assembly	0.741	0.4	0.833	6e-24
255540651	166	nitrogen fixation protein nifu, putative	0.842	0.451	0.746	7e-24
351726321	165	uncharacterized protein LOC100526856 [Gl	0.741	0.4	0.818	1e-23
356516670	172	PREDICTED: iron-sulfur cluster assembly	0.808	0.418	0.763	2e-23
209484089	173	iron-sulfer cluster scaffold protein ISU	0.831	0.427	0.753	3e-23
305855380	166	iron-sulfur cluster scaffold protein [He	0.820	0.439	0.739	6e-23
226500980	180	uncharacterized protein LOC100273266 [Ze	0.831	0.411	0.743	1e-22
357461951	164	Iron sulfur cluster assembly protein [Me	0.719	0.390	0.828	1e-22

>gi|224121706|ref|XP_002318652.1| predicted protein [Populus trichocarpa] gi|118485453|gb|ABK94583.1| unknown [Populus trichocarpa] gi|222859325|gb|EEE96872.1| predicted protein [Populus trichocarpa]

 Score =  118 bits (295), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 57/73 (78%), Positives = 65/73 (89%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EV++IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDY+ KR K 
Sbjct: 89  SSSVATEWVKGKQMEEVMTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYQTKRAKS 148

Query: 75  SAASEAEPAPRAA 87
           +  SEAEPA +AA
Sbjct: 149 NVDSEAEPAVQAA 161

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224135819|ref|XP_002322168.1| predicted protein [Populus trichocarpa] gi|118485714|gb|ABK94707.1| unknown [Populus trichocarpa] gi|118486936|gb|ABK95301.1| unknown [Populus trichocarpa] gi|222869164|gb|EEF06295.1| predicted protein [Populus trichocarpa]

 Score =  117 bits (292), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 56/73 (76%), Positives = 63/73 (86%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EV++IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDY+ KR K 
Sbjct: 90  SSSVATEWVKGKQMEEVMTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYQTKRAKL 149

Query: 75  SAASEAEPAPRAA 87
           S  SE EP  +AA
Sbjct: 150 SGVSETEPVEQAA 162

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356513449|ref|XP_003525426.1| PREDICTED: iron-sulfur cluster assembly enzyme ISCU, mitochondrial-like [Glycine max]

 Score =  114 bits (286), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 55/66 (83%), Positives = 61/66 (92%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EVL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR K 
Sbjct: 91  SSSVATEWVKGKQMEEVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRAKA 150

Query: 75  SAASEA 80
           +A+ EA
Sbjct: 151 TASGEA 156

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255540651|ref|XP_002511390.1| nitrogen fixation protein nifu, putative [Ricinus communis] gi|223550505|gb|EEF51992.1| nitrogen fixation protein nifu, putative [Ricinus communis]

 Score =  114 bits (285), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 56/75 (74%), Positives = 66/75 (88%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EVL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDY+ KR K 
Sbjct: 92  SSSVATEWVKGKQMEEVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYQTKREKL 151

Query: 75  SAASEAEPAPRAADV 89
           + +S+A  A +AA+V
Sbjct: 152 NGSSDAASAEQAAEV 166

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726321|ref|NP_001235075.1| uncharacterized protein LOC100526856 [Glycine max] gi|255630998|gb|ACU15863.1| unknown [Glycine max]

 Score =  113 bits (283), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 54/66 (81%), Positives = 61/66 (92%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKG+Q++EVL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR K 
Sbjct: 91  SSSVATEWVKGRQMEEVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRAKA 150

Query: 75  SAASEA 80
           +A+ EA
Sbjct: 151 TASGEA 156

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516670|ref|XP_003527016.1| PREDICTED: iron-sulfur cluster assembly enzyme ISCU, mitochondrial-like [Glycine max]

 Score =  113 bits (282), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 55/72 (76%), Positives = 61/72 (84%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EVL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR   
Sbjct: 98  SSSVATEWVKGKQMEEVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRASA 157

Query: 75  SAASEAEPAPRA 86
           SA  +A    +A
Sbjct: 158 SAGGQATTGEKA 169

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|209484089|gb|ACI47519.1| iron-sulfer cluster scaffold protein ISU1 [Eucalyptus grandis]

 Score =  112 bits (280), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 58/77 (75%), Positives = 65/77 (84%), Gaps = 3/77 (3%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR K 
Sbjct: 96  SSSVATEWVKGKQMEEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRAKL 155

Query: 75  SAASEA---EPAPRAAD 88
             +S++    P  +AAD
Sbjct: 156 DGSSDSAKDAPLEKAAD 172

Source: Eucalyptus grandis

Species: Eucalyptus grandis

Genus: Eucalyptus

Family: Myrtaceae

Order: Myrtales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|305855380|gb|ADM67612.1| iron-sulfur cluster scaffold protein [Hevea brasiliensis]

 Score =  111 bits (277), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 54/73 (73%), Positives = 62/73 (84%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EVL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDY+ KR K 
Sbjct: 92  SSSVATEWVKGKQMEEVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYQTKRAKV 151

Query: 75  SAASEAEPAPRAA 87
           +   +A P  +AA
Sbjct: 152 NGTPDAAPVEQAA 164

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226500980|ref|NP_001141179.1| uncharacterized protein LOC100273266 [Zea mays] gi|194702780|gb|ACF85474.1| unknown [Zea mays] gi|194703112|gb|ACF85640.1| unknown [Zea mays] gi|195617538|gb|ACG30599.1| nifU-like N-terminal domain-containing protein [Zea mays] gi|195639094|gb|ACG39015.1| nifU-like N-terminal domain-containing protein [Zea mays] gi|413950825|gb|AFW83474.1| nifU-like domain-containing protein [Zea mays]

 Score =  110 bits (275), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 55/74 (74%), Positives = 62/74 (83%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGK + EVL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAK+ K 
Sbjct: 106 SSSVATEWVKGKPMDEVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKKAKM 165

Query: 75  SAASEAEPAPRAAD 88
              SE  P+ +AA+
Sbjct: 166 GQKSEDSPSEKAAE 179

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357461951|ref|XP_003601257.1| Iron sulfur cluster assembly protein [Medicago truncatula] gi|217071590|gb|ACJ84155.1| unknown [Medicago truncatula] gi|355490305|gb|AES71508.1| Iron sulfur cluster assembly protein [Medicago truncatula] gi|388507346|gb|AFK41739.1| unknown [Medicago truncatula] gi|388513789|gb|AFK44956.1| unknown [Medicago truncatula]

 Score =  110 bits (275), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 53/64 (82%), Positives = 59/64 (92%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
           S+  ATEWVKGKQ++EVL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR   
Sbjct: 94  SSSVATEWVKGKQMEEVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRASA 153

Query: 75  SAAS 78
           +AA+
Sbjct: 154 TAAT 157

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	89
TAIR|locus:2132090	167	ISU1 [Arabidopsis thaliana (ta	0.662	0.353	0.813	4.9e-21
TAIR|locus:2136612	171	ISU3 "ISCU-like 3" [Arabidopsi	0.741	0.385	0.686	9.2e-20
TAIR|locus:2102122	163	ISU2 "ISCU-like 2" [Arabidopsi	0.662	0.361	0.694	2.2e-18
ZFIN|ZDB-GENE-050417-332	164	zgc:110331 "zgc:110331" [Danio	0.640	0.347	0.754	4.6e-18
UNIPROTKB|Q17QE6	167	ISCU "Uncharacterized protein"	0.640	0.341	0.719	1.6e-17
UNIPROTKB|E2R2U4	167	ISCU "Uncharacterized protein"	0.640	0.341	0.719	1.6e-17
UNIPROTKB|Q9H1K1	167	ISCU "Iron-sulfur cluster asse	0.640	0.341	0.719	1.6e-17
UNIPROTKB|I3LA87	171	LOC100627183 "Uncharacterized	0.640	0.333	0.719	1.6e-17
UNIPROTKB|I3LR64	168	LOC100621691 "Uncharacterized	0.640	0.339	0.719	1.6e-17
MGI|MGI:1913633	168	Iscu "IscU iron-sulfur cluster	0.640	0.339	0.719	1.6e-17

TAIR|locus:2132090 ISU1 [Arabidopsis thaliana (taxid:3702)]

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 48/59 (81%), Positives = 54/59 (91%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK 73
             S+  ATEWVKGK +++VL+IKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDY+ KR K
Sbjct:    96 SSSVATEWVKGKAMEDVLTIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYKEKRVK 154

GO:0005506 "iron ion binding" evidence=IEA

GO:0005739 "mitochondrion" 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=ISS

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2136612 ISU3 "ISCU-like 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 46/67 (68%), Positives = 57/67 (85%)

Query:     7 GFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKD 66
             G  +    S+V ATEWVKGK ++EVL+IKN++IAKHLSLPPVKLHCSMLAEDAIKAA+K+
Sbjct:    87 GCGSAIAASSV-ATEWVKGKSVEEVLTIKNSQIAKHLSLPPVKLHCSMLAEDAIKAAIKN 145

Query:    67 YEAKRTK 73
             Y+ K+ K
Sbjct:   146 YKEKQDK 152

GO:0005506 "iron ion binding" evidence=IEA

GO:0005739 "mitochondrion" 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=ISS

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2102122 ISU2 "ISCU-like 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 41/59 (69%), Positives = 51/59 (86%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK 73
             S+  A+EW+KGK + EV++IKN EIAKHL LPPVKLHCSMLAEDAIK+AV+DY+ K+ K
Sbjct:    93 SSSVASEWIKGKTLDEVMTIKNAEIAKHLRLPPVKLHCSMLAEDAIKSAVRDYKEKQAK 151

GO:0005506 "iron ion binding" evidence=IEA

GO:0005739 "mitochondrion" 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=ISS

GO:0009507 "chloroplast" evidence=IDA

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

ZFIN|ZDB-GENE-050417-332 zgc:110331 "zgc:110331" [Danio rerio (taxid:7955)]

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 43/57 (75%), Positives = 47/57 (82%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
             S+  ATEWVKGK + E L IKNTEIAK LSLPPVKLHCSMLAEDAIKAA+ DY  K+
Sbjct:    95 SSSLATEWVKGKSVDEALKIKNTEIAKELSLPPVKLHCSMLAEDAIKAALADYRLKQ 151

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

GO:0005506 "iron ion binding" evidence=IEA

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

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|Q17QE6 ISCU "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
             S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct:   101 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 157

GO:0032947 "protein complex scaffold" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

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

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

GO:0005506 "iron ion binding" evidence=IEA

UNIPROTKB|E2R2U4 ISCU "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
             S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct:   101 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 157

GO:0032947 "protein complex scaffold" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

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

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

GO:0005506 "iron ion binding" evidence=IEA

UNIPROTKB|Q9H1K1 ISCU "Iron-sulfur cluster assembly enzyme ISCU, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
             S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct:   101 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 157

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

GO:0009399 "nitrogen fixation" evidence=TAS

GO:0005739 "mitochondrion" evidence=IDA

GO:0005506 "iron ion binding" evidence=TAS

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

GO:0005737 "cytoplasm" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=TAS

GO:0032947 "protein complex scaffold" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

UNIPROTKB|I3LA87 LOC100627183 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
             S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct:   105 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 161

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

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

GO:0005506 "iron ion binding" evidence=IEA

UNIPROTKB|I3LR64 LOC100621691 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
             S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct:   102 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 158

GO:0032947 "protein complex scaffold" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

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

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

GO:0005506 "iron ion binding" evidence=IEA

MGI|MGI:1913633 Iscu "IscU iron-sulfur cluster scaffold homolog (E. coli)" [Mus musculus (taxid:10090)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query:    15 SNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
             S+  ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct:   102 SSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 158

GO:0005506 "iron ion binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0005829 "cytosol" evidence=ISO

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

GO:0032947 "protein complex scaffold" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6CFQ0	ISU1_YARLI	No assigned EC number	0.7115	0.5842	0.2872	yes	no
Q9ZD61	NIFU_RICPR	No assigned EC number	0.7307	0.5842	0.3969	yes	no
Q9D7P6	ISCU_MOUSE	No assigned EC number	0.7192	0.6404	0.3392	yes	no
O49627	ISU1_ARATH	No assigned EC number	0.7083	0.8089	0.4311	yes	no
Q6FJY3	ISU1_CANGA	No assigned EC number	0.7169	0.5955	0.2488	yes	no
Q6CRQ9	ISU1_KLULA	No assigned EC number	0.75	0.5842	0.2888	yes	no
Q75C07	ISU1_ASHGO	No assigned EC number	0.7307	0.5842	0.3376	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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	89
PRK11325	127	PRK11325, PRK11325, scaffold protein; Provisional	5e-29
TIGR01999	124	TIGR01999, iscU, FeS cluster assembly scaffold Isc	2e-28
pfam01592	126	pfam01592, NifU_N, NifU-like N terminal domain	3e-22
TIGR03419	121	TIGR03419, NifU_clost, FeS cluster assembly scaffo	3e-16
COG0822	150	COG0822, IscU, NifU homolog involved in Fe-S clust	3e-13
cd06664	123	cd06664, IscU_like, Iron-sulfur cluster scaffold-l	6e-11
TIGR02000	290	TIGR02000, NifU_proper, Fe-S cluster assembly prot	2e-09

>gnl|CDD|183087 PRK11325, PRK11325, scaffold protein; Provisional

 Score =  100 bits (250), Expect = 5e-29
 Identities = 37/55 (67%), Positives = 48/55 (87%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK 73
            TEWVKGK + E L+IKNT+IA+ L+LPPVK+HCS+LAEDAIKAA+ DY++K+ K
Sbjct: 73  VTEWVKGKTLDEALAIKNTDIAEELALPPVKIHCSILAEDAIKAAIADYKSKQAK 127

Length = 127

>gnl|CDD|188192 TIGR01999, iscU, FeS cluster assembly scaffold IscU

 Score = 98.7 bits (246), Expect = 2e-28
 Identities = 40/53 (75%), Positives = 48/53 (90%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           ATE +KGK ++E L IKNTEIAK LSLPPVKLHCS+LAEDAIKAA+KDY++K+
Sbjct: 71  ATELIKGKSLEEALKIKNTEIAKELSLPPVKLHCSLLAEDAIKAAIKDYKSKQ 123

This model represents IscU, a homolog of the N-terminal region of NifU, an Fe-S cluster assembly protein found mostly in nitrogen-fixing bacteria. IscU is considered part of the IscSUA-hscAB-fdx system of Fe-S assembly, whereas NifU is found in nitrogenase-containing (nitrogen-fixing) species. A NifU-type protein is also found in Helicobacter and Campylobacter. IscU and NifU are considered scaffold proteins on which Fe-S clusters are assembled before transfer to apoproteins. This model excludes true NifU proteins as in Klebsiella pneumoniae and Anabaena sp. as well as archaeal homologs. It includes largely proteobacterial and eukaryotic forms [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 124

>gnl|CDD|216592 pfam01592, NifU_N, NifU-like N terminal domain

 Score = 83.2 bits (206), Expect = 3e-22
 Identities = 31/57 (54%), Positives = 40/57 (70%), Gaps = 1/57 (1%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHL-SLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP 74
            TE VKGK + E L I NT+IA+ L  LPPVK+HCS+L +DA+KAA+ DY+ K    
Sbjct: 70  LTELVKGKTLDEALKITNTDIAEELGGLPPVKMHCSVLGDDALKAAIADYKGKNLCA 126

This domain is found in NifU in combination with pfam01106. This domain is found on isolated in several bacterial species. The nif genes are responsible for nitrogen fixation. However this domain is found in bacteria that do not fix nitrogen, so it may have a broader significance in the cell than nitrogen fixation. These proteins appear to be scaffold proteins for iron-sulfur clusters. Length = 126

>gnl|CDD|132460 TIGR03419, NifU_clost, FeS cluster assembly scaffold protein NifU, Clostridium type

 Score = 67.8 bits (166), Expect = 3e-16
 Identities = 27/54 (50%), Positives = 37/54 (68%), Gaps = 1/54 (1%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLS-LPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           ATE +KGK ++E   + N  +A+ L  LPPVK+HCS+LAE+AI  A+ DY  K 
Sbjct: 67  ATEMIKGKTLEEAWELTNKAVAEALDGLPPVKMHCSVLAEEAIHKAINDYREKN 120

NifU and NifS form a pair of iron-sulfur (FeS) cluster biosynthesis proteins much simpler than the ISC and SUF systems. Members of this protein family are a distinct group of NifU-like proteins, found always to a NifS-like protein and restricted to species that lack a SUF system. Typically, NIF systems service a smaller number of FeS-containing proteins than do ISC or SUF. Members of this particular branch typically are found, almost half the time, near the mnmA gene, involved in the carboxymethylaminomethyl modification of U34 in some tRNAs (see GenProp0704). While other NifU proteins are associated with nitrogen fixation, this family is not [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 121

>gnl|CDD|223892 COG0822, IscU, NifU homolog involved in Fe-S cluster formation [Energy production and conversion]

 Score = 60.5 bits (147), Expect = 3e-13
 Identities = 29/72 (40%), Positives = 39/72 (54%), Gaps = 19/72 (26%)

Query: 19  ATEWVKGKQIQEVLSIK--NTEIAKHL-----------------SLPPVKLHCSMLAEDA 59
            TE VKGK + E L I    T++AK L                 +LPP ++ CS+LA DA
Sbjct: 74  MTELVKGKTLDEALKITEAFTDMAKELGGDPDDRLGDLVALAGVALPPARIKCSLLAWDA 133

Query: 60  IKAAVKDYEAKR 71
           +KAA+KDY+ K 
Sbjct: 134 LKAAIKDYKGKA 145

Length = 150

>gnl|CDD|143480 cd06664, IscU_like, Iron-sulfur cluster scaffold-like proteins

 Score = 53.8 bits (130), Expect = 6e-11
 Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 11/56 (19%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAK-----------HLSLPPVKLHCSMLAEDAIKAA 63
            TE +KGK + E L + N +IA             + LPP ++HC++LA  A+KAA
Sbjct: 68  LTELIKGKTLDEALKLLNKDIAMLDGKEELAALAGVGLPPARIHCALLAWKALKAA 123

IscU_like and NifU_like proteins. IscU and NifU function as a scaffold for the assembly of [2Fe-2S] clusters before they are transferred to apo target proteins. They are highly conserved and play vital roles in the ISC and NIF systems of Fe-S protein maturation. NIF genes participate in nitrogen fixation in several isolated bacterial species. The NifU domain, however, is also found in bacteria that do not fix nitrogen, so it may have wider significance in the cell. Human IscU interacts with frataxin, the Friedreich ataxia gene product, and incorrectly spliced IscU has been shown to disrupt iron homeostasis in skeletal muscle and cause myopathy. Length = 123

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

 Score = 51.8 bits (124), Expect = 2e-09
 Identities = 22/54 (40%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 15  SNVSATEWVKGKQIQEVLSIKNTEIAKHLS-LPPVKLHCSMLAEDAIKAAVKDY 67
           S+ + TE +KG  + E L + N +IA +L  LPP K+HCS++ ++A++AA+ +Y
Sbjct: 68  SSSALTEMIKGLTLDEALKVSNQDIADYLGGLPPEKMHCSVMGQEALEAAIANY 121

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	89
PRK11325	127	scaffold protein; Provisional	99.93
TIGR01999	124	iscU FeS cluster assembly scaffold IscU. This mode	99.92
TIGR03419	121	NifU_clost FeS cluster assembly scaffold protein N	99.92
COG0822	150	IscU NifU homolog involved in Fe-S cluster formati	99.87
TIGR02000	290	NifU_proper Fe-S cluster assembly protein NifU. Th	99.86
PF01592	126	NifU_N: NifU-like N terminal domain; InterPro: IPR	99.85
KOG3361	157	consensus Iron binding protein involved in Fe-S cl	99.85
cd06664	123	IscU_like Iron-sulfur cluster scaffold-like protei	99.81
TIGR01994	137	SUF_scaf_2 SUF system FeS assembly protein, NifU f	99.78
PRK15019	147	CsdA-binding activator; Provisional	92.33
PRK09296	138	cysteine desufuration protein SufE; Provisional	92.04
COG0351	263	ThiD Hydroxymethylpyrimidine/phosphomethylpyrimidi	91.64
TIGR03391	138	FeS_syn_CsdE cysteine desulfurase, sulfur acceptor	90.7
cd00336	105	Ribosomal_L22 Ribosomal protein L22/L17e. L22 (L17	84.85
TIGR01044	103	rplV_bact ribosomal protein L22, bacterial type. T	84.55
COG2166	144	sufE Cysteine desulfurase SufE subunit [Posttransl	84.36
PF08543	246	Phos_pyr_kin: Phosphomethylpyrimidine kinase; Inte	84.18
PRK00565	112	rplV 50S ribosomal protein L22; Reviewed	84.12
PTZ00493	321	phosphomethylpyrimidine kinase; Provisional	82.58

>PRK11325 scaffold protein; Provisional

Probab=99.93  E-value=1.2e-25  Score=152.82  Aligned_cols=71  Identities=54%  Similarity=0.851  Sum_probs=68.2

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRT   72 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~   72 (89)
                      ++|+|+||++| +||+|+|+++++|||++|+..|+.+++.+.||+||+|+|||+|+|+||++||++|..++.
T Consensus        56 ~~f~~~GC~is-~Asas~~~e~~~Gktl~ea~~i~~~~i~~~lg~p~~r~~CA~la~~al~~a~~~y~~~~~  126 (127)
T PRK11325         56 AKFKTYGCGSA-IASSSLVTEWVKGKTLDEALAIKNTDIAEELALPPVKIHCSILAEDAIKAAIADYKSKQA  126 (127)
T ss_pred             EEEEeeCCHHH-HHHHHHHHHHHcCCCHHHHHhcCHHHHHHHcCCCcccchHHHHHHHHHHHHHHHHHhhcC
Confidence            47999999999 999999999999999999999999999999999999999999999999999999988764

>TIGR01999 iscU FeS cluster assembly scaffold IscU

Probab=99.92  E-value=3e-25  Score=150.04  Aligned_cols=70  Identities=60%  Similarity=0.835  Sum_probs=67.3

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhc
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR   71 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~   71 (89)
                      ++|+|+||++| +||+|+|+|+++|||++|+..|+++++.+.||+||+|+|||.|+|+||++||++|+.++
T Consensus        54 ~~f~~~GC~~s-~Asas~~~e~i~Gktl~ea~~i~~~~i~~~lg~p~~r~~CA~l~~~al~~a~~~y~~~~  123 (124)
T TIGR01999        54 AKFKTFGCGSA-IASSSLATELIKGKSLEEALKIKNTEIAKELSLPPVKLHCSLLAEDAIKAAIKDYKSKQ  123 (124)
T ss_pred             EEEEecCcHHH-HHHHHHHHHHHcCCCHHHHHhccHHHHHHHcCCCcccchHHHHHHHHHHHHHHHHHHhc
Confidence            47999999999 99999999999999999999999999999999999999999999999999999998765

This model represents IscU, a homolog of the N-terminal region of NifU, an Fe-S cluster assembly protein found mostly in nitrogen-fixing bacteria. IscU is considered part of the IscSUA-hscAB-fdx system of Fe-S assembly, whereas NifU is found in nitrogenase-containing (nitrogen-fixing) species. A NifU-type protein is also found in Helicobacter and Campylobacter. IscU and NifU are considered scaffold proteins on which Fe-S clusters are assembled before transfer to apoproteins. This model excludes true NifU proteins as in Klebsiella pneumoniae and Anabaena sp. as well as archaeal homologs. It includes largely proteobacterial and eukaryotic forms.

>TIGR03419 NifU_clost FeS cluster assembly scaffold protein NifU, Clostridium type

Probab=99.92  E-value=3.1e-25  Score=149.54  Aligned_cols=71  Identities=41%  Similarity=0.656  Sum_probs=67.8

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc-CCCCcchhhHHHHHHHHHHHHHHHHHhcC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL-SLPPVKLHCSMLAEDAIKAAVKDYEAKRT   72 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L-glpp~Ri~CA~La~~AL~~Al~~y~~k~~   72 (89)
                      ++|+|+||++| +||+|+|+++++|||++|+..|+.+++.+.| ++||+|+|||+|+|+||++|+++|+.+++
T Consensus        50 ~~f~~~GC~is-~Asas~~~e~i~Gk~l~ea~~i~~~~i~~~l~~l~~~r~~CA~la~~al~~a~~~y~~~~~  121 (121)
T TIGR03419        50 VKFKTFGCGAA-IASSSMATEMIKGKTLEEAWELTNKAVAEALDGLPPVKMHCSVLAEEAIHKAINDYREKNG  121 (121)
T ss_pred             EEEEEeccHHH-HHHHHHHHHHHcCCCHHHHHHhhhHHHHHHHcCCCcccCHHHHHHHHHHHHHHHHHHhccC
Confidence            47999999999 9999999999999999999999999999999 59999999999999999999999998864

NifU and NifS form a pair of iron-sulfur (FeS) cluster biosynthesis proteins much simpler than the ISC and SUF systems. Members of this protein family are a distinct group of NifU-like proteins, found always to a NifS-like protein and restricted to species that lack a SUF system. Typically, NIF systems service a smaller number of FeS-containing proteins than do ISC or SUF. Members of this particular branch typically are found, almost half the time, near the mnmA gene, involved in the carboxymethylaminomethyl modification of U34 in some tRNAs (see GenProp0704). While other NifU proteins are associated with nitrogen fixation, this family is not.

>COG0822 IscU NifU homolog involved in Fe-S cluster formation [Energy production and conversion]

Probab=99.87  E-value=1.6e-22  Score=141.41  Aligned_cols=72  Identities=43%  Similarity=0.607  Sum_probs=64.6

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcch--hHHHHhhcC-----------------CCCcchhhHHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIK--NTEIAKHLS-----------------LPPVKLHCSMLAEDAIK   61 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~--~~~i~e~Lg-----------------lpp~Ri~CA~La~~AL~   61 (89)
                      .+|+|.||++| +||+|||+|+++|||++||+.|+  ..++.+.+|                 +||.|+||++|+|+||+
T Consensus        57 ~~F~~~GC~is-~ASss~~te~v~Gkti~EAl~i~~~~~~m~~~~~~~~~~~l~d~~~l~~v~~~p~r~~C~~L~~~al~  135 (150)
T COG0822          57 AKFKGFGCAIS-IASSSMMTELVKGKTLDEALKITEAFTDMAKELGGDPDDRLGDLVALAGVALPPARIKCSLLAWDALK  135 (150)
T ss_pred             EEeeecCcHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCccchhhhhHhhhhhccccccccchhccHHHHH
Confidence            37999999999 99999999999999999999999  556665543                 69999999999999999


Q ss_pred             HHHHHHHHhcCC
Q 034618           62 AAVKDYEAKRTK   73 (89)
Q Consensus        62 ~Al~~y~~k~~~   73 (89)
                      ++|++|+.++..
T Consensus       136 ~ai~~~~~~~~~  147 (150)
T COG0822         136 AAIKDYKGKAEE  147 (150)
T ss_pred             HHHHHhhccccc
Confidence            999999988654

>TIGR02000 NifU_proper Fe-S cluster assembly protein NifU

Probab=99.86  E-value=6.7e-22  Score=150.18  Aligned_cols=72  Identities=32%  Similarity=0.576  Sum_probs=67.9

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc-CCCCcchhhHHHHHHHHHHHHHHHHHhcCC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL-SLPPVKLHCSMLAEDAIKAAVKDYEAKRTK   73 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L-glpp~Ri~CA~La~~AL~~Al~~y~~k~~~   73 (89)
                      .+|+|+||++| +||+|+|+++++|||++|+..|+.+++.++| |+||+|+|||.|+|+||++||++|..+...
T Consensus        55 ~~F~~~GCais-~ASAs~~~eli~Gktv~ea~~i~~~di~~~L~~lpp~r~~CA~La~~Al~~Al~~y~~kp~~  127 (290)
T TIGR02000        55 AGFQTFGCGSA-IASSSALTEMIKGLTLDEALKVSNQDIADYLGGLPPEKMHCSVMGQEALEAAIANYRGEPLE  127 (290)
T ss_pred             EEEEecCcHHH-HHHHHHHHHHHcCCCHHHHHHhhHHHHHHHHcCCChhhchHHHHHHHHHHHHHHHHhcCccc
Confidence            37999999999 9999999999999999999999999999999 699999999999999999999999877554

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.

>PF01592 NifU_N: NifU-like N terminal domain; InterPro: IPR002871 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=99.85  E-value=2e-21  Score=131.21  Aligned_cols=70  Identities=39%  Similarity=0.575  Sum_probs=66.4

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc-CCCCcchhhHHHHHHHHHHHHHHHHHhc
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL-SLPPVKLHCSMLAEDAIKAAVKDYEAKR   71 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L-glpp~Ri~CA~La~~AL~~Al~~y~~k~   71 (89)
                      ++|+++||+++ +||+|+|+++++|||++||..|+.+++.+.| ++|+.|.||+.|++.||+++|++|+.|+
T Consensus        54 ~~f~~~GC~~~-~Asas~~~~~i~gk~l~ea~~i~~~~i~~~l~~~~~~~~~~~~l~~~al~~av~~y~~r~  124 (126)
T PF01592_consen   54 AKFQGFGCAIS-IASASMMCELIKGKTLEEALKITAEDIEEALGGLPPERQHCAELADDALKAAVADYPARH  124 (126)
T ss_dssp             EEEEEESSHHH-HHHHHHHHHHHTTSBHHHHHCHHHHHHHHHHTC-CGTCGHHHHHHHHHHHHHHHHHHHHC
T ss_pred             EEEEeecChHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccccCcccHHHHHHHHHHHHHHHHHhhh
Confidence            48999999998 9999999999999999999999999999999 5999999999999999999999999886

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 N-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal and a C-terminal domain (IPR001075 from INTERPRO) []. 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: 3LVL_A 4EB5_C 4EB7_C 1WFZ_A 2Z7E_C 2AZH_A 1XJS_A 1Q48_A 1R9P_A 2KQK_A ....

>KOG3361 consensus Iron binding protein involved in Fe-S cluster formation [Energy production and conversion]

Probab=99.85  E-value=2.4e-21  Score=134.58  Aligned_cols=73  Identities=64%  Similarity=0.926  Sum_probs=70.8

Q ss_pred             ceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCCC
Q 034618            2 NYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPS   75 (89)
Q Consensus         2 ~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~~   75 (89)
                      +|.+.||... +||+|++|||++|||+||+..|.+.+|...|.|||-+.||++|+.+|++.||+||+.||....
T Consensus        83 kFKTFGCGSA-IASSS~aTewvkgkt~dea~kIkNteIAKeL~LPPVKLHCSMLAEDAIKaAikdyk~Kq~~~~  155 (157)
T KOG3361|consen   83 KFKTFGCGSA-IASSSLATEWVKGKTLDEALKIKNTEIAKELSLPPVKLHCSMLAEDAIKAAIKDYKEKQNKPN  155 (157)
T ss_pred             eeeecccchH-hhhhHHHHHHHccccHHHHHhcccHHHHHhccCCchhhhhHHHHHHHHHHHHHHHHHhccCCC
Confidence            7999999998 999999999999999999999999999999999999999999999999999999999998765

>cd06664 IscU_like Iron-sulfur cluster scaffold-like proteins

Probab=99.81  E-value=3e-20  Score=123.98  Aligned_cols=62  Identities=37%  Similarity=0.496  Sum_probs=56.4

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhh----------c-CCCCcchhhHHHHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKH----------L-SLPPVKLHCSMLAEDAIKAA   63 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~----------L-glpp~Ri~CA~La~~AL~~A   63 (89)
                      ++|.|+||++| +||+|+|+++++||+++|+..|+++++...          + ++||+|+||++|+|+||+++
T Consensus        51 ~~f~~~GC~i~-~Asas~~~~~~~Gk~~~ea~~i~~~~~~~~~~~~~l~~~~~~~~~~~R~~Ca~L~~~Al~~a  123 (123)
T cd06664          51 AKFQGFGCAIS-IASASLLTELIKGKTLDEALKLLNKDIAMLDGKEELAALAGVGLPPARIHCALLAWKALKAA  123 (123)
T ss_pred             EEEEecCcHHH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHHhcCchhHHHhcccccCcccchHHHHHHHHHHhC
Confidence            47999999998 999999999999999999999999876554          2 57999999999999999874

IscU_like and NifU_like proteins. IscU and NifU function as a scaffold for the assembly of [2Fe-2S] clusters before they are transferred to apo target proteins. They are highly conserved and play vital roles in the ISC and NIF systems of Fe-S protein maturation. NIF genes participate in nitrogen fixation in several isolated bacterial species. The NifU domain, however, is also found in bacteria that do not fix nitrogen, so it may have wider significance in the cell. Human IscU interacts with frataxin, the Friedreich ataxia gene product, and incorrectly spliced IscU has been shown to disrupt iron homeostasis in skeletal muscle and cause myopathy.

>TIGR01994 SUF_scaf_2 SUF system FeS assembly protein, NifU family

Probab=99.78  E-value=2.6e-19  Score=122.85  Aligned_cols=64  Identities=28%  Similarity=0.419  Sum_probs=54.4

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHH---HH--------------hhc-CC--CCcchhhHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTE---IA--------------KHL-SL--PPVKLHCSMLAEDAI   60 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~---i~--------------e~L-gl--pp~Ri~CA~La~~AL   60 (89)
                      ++|+|+||+|| +||+|+|+++++|||++|+..+.+..   +.              ..| ++  +|+|+||++|+|+||
T Consensus        54 ~~f~~~GCais-~Asas~~~e~i~Gk~~~ea~~l~~~~~~ml~~~~~~~~~~~l~dl~~l~~v~~~p~R~~Ca~L~~~al  132 (137)
T TIGR01994        54 IAFEGEGCSIS-QASASMMTELIKGKTVEEALSLVEAFSEMIQGQETDEDEEKLGDAEALAGVAKFPARIKCATLAWKAL  132 (137)
T ss_pred             EEEEecccHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCCCccccccchHHHhhccccCcchHHHHHHHHHHH
Confidence            47999999998 99999999999999999999998741   10              122 33  799999999999999


Q ss_pred             HHHHH
Q 034618           61 KAAVK   65 (89)
Q Consensus        61 ~~Al~   65 (89)
                      ++||+
T Consensus       133 ~~al~  137 (137)
T TIGR01994       133 ERALA  137 (137)
T ss_pred             HHHhC
Confidence            99974

Three iron-sulfur cluster assembly systems are known so far. ISC is broadly distributed while NIF tends to be associated with nitrogenase in nitrogen-fixing bacteria. The most recently described is SUF, believed to be important to maintain the function during aerobic stress of enzymes with labile Fe-S clusters. It is fairly widely distributed. This family represents one of two different proteins proposed to act as a scaffold on which the Fe-S cluster is built and from which it is transferred.

>PRK15019 CsdA-binding activator; Provisional

Probab=92.33  E-value=0.72  Score=32.30  Aligned_cols=51  Identities=16%  Similarity=0.102  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHHHHH
Q 034618           13 GVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAVKDY   67 (89)
Q Consensus        13 ~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al~~y   67 (89)
                      ..=.+++.+.+.|+|.+|++.++.++..+.||    |.|.|.+    +..++-+.|+.|
T Consensus        89 kGl~alL~~~~~g~tp~eIl~~d~~~~~~~lGL~~~LSpsR~N----Gl~ami~~I~~~  143 (147)
T PRK15019         89 RGLLAVLLTAVEGKTAAELQAQSPLALFDELGLRAQLSASRSQ----GLNALSEAIIAA  143 (147)
T ss_pred             HHHHHHHHHHHcCCCHHHHHhcCHHHHHHHCCchhhcCccHHH----HHHHHHHHHHHH
Confidence            46678999999999999999999988888886    6899987    556666666555

>PRK09296 cysteine desufuration protein SufE; Provisional

Probab=92.04  E-value=0.84  Score=31.56  Aligned_cols=52  Identities=12%  Similarity=0.087  Sum_probs=41.1

Q ss_pred             HHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHHHHHH
Q 034618           13 GVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAVKDYE   68 (89)
Q Consensus        13 ~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al~~y~   68 (89)
                      ..=.+++...+.|+|.+|+.+++..+..+.||    |.|.|.+    ++.++-+-|+++-
T Consensus        79 kGl~alL~~~~~g~tp~eIl~~d~~~~~~~lGL~~~LSpsR~n----Gl~aml~~ik~~a  134 (138)
T PRK09296         79 KGLIAVVFILYQQMTPQDIVNFDVRPWFEKLALTQHLTPSRSQ----GLEAMIRAIRAKA  134 (138)
T ss_pred             HHHHHHHHHHHcCCCHHHHHhCChHHHHHHcCcccccCccHHH----HHHHHHHHHHHHH
Confidence            46678999999999999999999776677775    6899987    5666666665553

>COG0351 ThiD Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase [Coenzyme metabolism]

Probab=91.64  E-value=0.24  Score=37.82  Aligned_cols=36  Identities=17%  Similarity=0.175  Sum_probs=29.3

Q ss_pred             eecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc
Q 034618            4 LLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL   43 (89)
Q Consensus         4 ~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L   43 (89)
                      -|.||+.|    +++.+++++|.++.||..---+.+...+
T Consensus       208 HGTGCTlS----aAIaa~LA~G~~l~~AV~~Ak~fv~~AI  243 (263)
T COG0351         208 HGTGCTLS----AAIAANLAKGLSLEEAVKKAKEFVTRAI  243 (263)
T ss_pred             CCccHHHH----HHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            37799887    7888999999999999887777665554

>TIGR03391 FeS_syn_CsdE cysteine desulfurase, sulfur acceptor subunit CsdE

Probab=90.70  E-value=1.2  Score=30.75  Aligned_cols=48  Identities=19%  Similarity=0.165  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHH
Q 034618           13 GVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAV   64 (89)
Q Consensus        13 ~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al   64 (89)
                      ..=.+++.+.+.|+|.+|+..++.++....||    |.|.|.+    ++.++-+.|
T Consensus        84 kGl~alL~~~~~g~tp~eI~~~d~~~~~~~lGL~~~LSpsR~N----Gl~am~~~I  135 (138)
T TIGR03391        84 RGLLAVLLTAVEGKTPEQLLAQDPLALFDELGLRAQLSASRSN----GLAALAAAI  135 (138)
T ss_pred             HHHHHHHHHHHcCCCHHHHHHCCHHHHHHHcCchhccCccHHH----HHHHHHHHH
Confidence            46678999999999999999999988888885    6899987    444444443

Members of this protein family are CsdE, formerly called YgdK. This protein, found as a paralog to SufE in Escherichia coli, Yersinia pestis, Photorhabdus luminescens, and related species, works together and physically interacts with CsdA (a paralog of SufS). CsdA has cysteine desulfurase activity that is enhanced by this protein (CsdE), in which Cys-61 (numbered as in E. coli) is a sulfur acceptor site. This gene pair, although involved in FeS cluster biosynthesis, is not found next to other such genes as are its paralogs from the Suf or Isc systems.

>cd00336 Ribosomal_L22 Ribosomal protein L22/L17e

Probab=84.85  E-value=3.7  Score=26.48  Aligned_cols=47  Identities=13%  Similarity=0.138  Sum_probs=38.0

Q ss_pred             HHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCC
Q 034618           17 VSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK   73 (89)
Q Consensus        17 S~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~   73 (89)
                      -.++.+++|++++||..+-..-          ..+.+.+-.+.|+.|..+...+.+.
T Consensus        16 ~~v~~~Irg~~v~~A~~~L~~~----------~kk~a~~i~k~l~sa~~nA~~~~~~   62 (105)
T cd00336          16 RLVARLIRGMSVDEALAQLEFV----------PKKAAKIILKLLKSAEANAENNGLD   62 (105)
T ss_pred             HHHHHHHcCCcHHHHHHHHHhC----------CHHHHHHHHHHHHHHHHhHHHcCCC
Confidence            3578899999999998766552          3678889999999999999876654

L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper folding and stabilizing the conformation of 23S rRNA. L22 is the largest protein contributor to the surface of the polypeptide exit channel, the tunnel through which the polypeptide product passes. L22 is also one of six proteins located at the putative translocon binding site on the exterior surface of the ribosome.

>TIGR01044 rplV_bact ribosomal protein L22, bacterial type

Probab=84.55  E-value=3.6  Score=26.85  Aligned_cols=47  Identities=15%  Similarity=0.238  Sum_probs=37.4

Q ss_pred             HHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCC
Q 034618           17 VSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK   73 (89)
Q Consensus        17 S~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~   73 (89)
                      -.++.+|+|++++||..+-.-          ...+.|..-.+.|+.|+.++....+.
T Consensus        14 ~~va~~IrG~~v~~A~~~L~f----------~pkk~a~~i~klL~sA~aNA~~~~~l   60 (103)
T TIGR01044        14 RLVADLIRGKSVSQALDILRF----------TPKKAAPLIKKVLASAIANAEHNYGL   60 (103)
T ss_pred             HHHHHHHcCCcHHHHHHHHhh----------CCHhHHHHHHHHHHHHHHHHHHccCC
Confidence            457889999999999876652          36679999999999999998644443

This model decribes bacterial and chloroplast ribosomal protein L22.

>COG2166 sufE Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]

Probab=84.36  E-value=4  Score=28.74  Aligned_cols=50  Identities=18%  Similarity=0.203  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHHHH
Q 034618           13 GVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAVKD   66 (89)
Q Consensus        13 ~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al~~   66 (89)
                      -.=.+++.+.+.|+|.+|+..++..+..+.||    |+|.|.+    +.+++-+.|+.
T Consensus        84 rGL~aill~~~~G~t~~eI~~~~~~~~f~~LGL~~~LSpsR~n----Gl~am~~~i~~  137 (144)
T COG2166          84 RGLLAILLAAYSGKTAAEILAFDPLDFFEELGLAQHLSPSRSN----GLEAMLKRIKR  137 (144)
T ss_pred             HHHHHHHHHHHcCCCHHHHHcCCHHHHHHHhhHHHhcChHHhh----HHHHHHHHHHH
Confidence            45578999999999999999999988888886    6899977    44555444443

>PF08543 Phos_pyr_kin: Phosphomethylpyrimidine kinase; InterPro: IPR013749 This enzyme 2

Probab=84.18  E-value=0.91  Score=33.13  Aligned_cols=35  Identities=14%  Similarity=0.078  Sum_probs=28.8

Q ss_pred             ceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHH
Q 034618            2 NYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIA   40 (89)
Q Consensus         2 ~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~   40 (89)
                      +|-|.||..|    +.+++.+++|+++++|.....+.+.
T Consensus       195 ~~~GTGd~fs----s~laa~l~~g~~l~~Av~~A~~~v~  229 (246)
T PF08543_consen  195 SFHGTGDLFS----SALAAFLAKGYSLEEAVEKAKNFVR  229 (246)
T ss_dssp             GCTTHHHHHH----HHHHHHHHTTSSHHHHHHHHHHHHH
T ss_pred             CCCCchhHHH----HHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            5778898887    7788889999999999888776544

7.4.7 from EC is part of the Thiamine pyrophosphate (TPP) synthesis pathway, TPP is an essential cofactor for many enzymes []. ; PDB: 2DDW_B 2DDO_B 2DDM_A 3IBQ_A 3H74_A 3HYO_A 1UB0_A 1VI9_D 1TD2_B 2PHP_D ....

>PRK00565 rplV 50S ribosomal protein L22; Reviewed

Probab=84.12  E-value=3.7  Score=27.14  Aligned_cols=49  Identities=18%  Similarity=0.309  Sum_probs=38.7

Q ss_pred             HHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCC
Q 034618           16 NVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP   74 (89)
Q Consensus        16 aS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~   74 (89)
                      .-.++.+|+|+++++|..+-..          ...+.|..-.+.|+.|+.+.....+.+
T Consensus        17 ~~~v~~~IrG~~v~~A~~~L~~----------~pkk~a~~i~k~L~sA~aNA~~~~g~d   65 (112)
T PRK00565         17 ARLVADLIRGKKVEEALAILKF----------SPKKAARLVKKVLKSAIANAENNHGLD   65 (112)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHH----------CcHhHHHHHHHHHHHHHHHHHhccCCC
Confidence            3467889999999999887665          256778888999999999997655443

>PTZ00493 phosphomethylpyrimidine kinase; Provisional

Probab=82.58  E-value=1.4  Score=34.39  Aligned_cols=36  Identities=17%  Similarity=-0.057  Sum_probs=29.2

Q ss_pred             eeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhh
Q 034618            3 YLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKH   42 (89)
Q Consensus         3 F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~   42 (89)
                      |-|.||+.|    +++++.+++|.++.+|..+..+.+...
T Consensus       247 ~hGTGc~fA----SAIAa~LA~G~~l~~Av~~A~~fv~~a  282 (321)
T PTZ00493        247 IHGTGCTLS----TAIACYLAKKHNILQSCIESKKYIYNC  282 (321)
T ss_pred             CCChHHHHH----HHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence            578899887    778888899999999998887765443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	89
1wfz_A	130	Solution Structure Of Iron-Sulfur Cluster Protein U		6e-19
3lvl_A	129	Crystal Structure Of E.Coli Iscs-Iscu Complex Lengt		4e-17
2kqk_A	128	Solution Structure Of Apo-Iscu(D39a) Length = 128		5e-17
2l4x_A	128	Solution Structure Of Apo-Iscu(Wt) Length = 128		5e-17
1q48_A	134	Solution Nmr Structure Of The Haemophilus Influenza		2e-16
4eb5_C	153	A. Fulgidus Iscs-Iscu Complex Structure Length = 15		5e-07
2z7e_A	157	Crystal Structure Of Aquifex Aeolicus Iscu With Bou		5e-06

>pdb|1WFZ|A Chain A, Solution Structure Of Iron-Sulfur Cluster Protein U (Iscu) Length = 130

Iteration: 1
 Score = 89.0 bits (219), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 40/53 (75%), Positives = 47/53 (88%)
Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+
Sbjct: 69  ATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQ 121

>pdb|3LVL|A Chain A, Crystal Structure Of E.Coli Iscs-Iscu Complex Length = 129

Iteration: 1
 Score = 82.8 bits (203), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 36/52 (69%), Positives = 45/52 (86%)
Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           TEWVKGK + E  +IKNT+IA+ L LPPVK+HCS+LAEDAIKAA+ DY++KR
Sbjct: 75  TEWVKGKSLDEAQAIKNTDIAEELELPPVKIHCSILAEDAIKAAIADYKSKR 126

>pdb|2KQK|A Chain A, Solution Structure Of Apo-Iscu(D39a) Length = 128

Iteration: 1
 Score = 82.8 bits (203), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 36/52 (69%), Positives = 45/52 (86%)
Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           TEWVKGK + E  +IKNT+IA+ L LPPVK+HCS+LAEDAIKAA+ DY++KR
Sbjct: 74  TEWVKGKSLDEAQAIKNTDIAEELELPPVKIHCSILAEDAIKAAIADYKSKR 125

>pdb|2L4X|A Chain A, Solution Structure Of Apo-Iscu(Wt) Length = 128

Iteration: 1
 Score = 82.8 bits (203), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 36/52 (69%), Positives = 45/52 (86%)
Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           TEWVKGK + E  +IKNT+IA+ L LPPVK+HCS+LAEDAIKAA+ DY++KR
Sbjct: 74  TEWVKGKSLDEAQAIKNTDIAEELELPPVKIHCSILAEDAIKAAIADYKSKR 125

>pdb|1Q48|A Chain A, Solution Nmr Structure Of The Haemophilus Influenzae Iron- Sulfur Cluster Assembly Protein U (Iscu) With Zinc Bound At The Active Site. Northeast Structural Genomics Consortium Target Ir24. This Protein Is Not Apo, It Is A Model Without Zinc Binding Constraints. Length = 134

Iteration: 1
 Score = 80.9 bits (198), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 35/52 (67%), Positives = 46/52 (88%)
Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
           TEWVKGK ++E  +IKN++IA+ L LPPVK+HCS+LAEDAIKAA+ DY+AK+
Sbjct: 74  TEWVKGKSLEEAGAIKNSQIAEELELPPVKVHCSILAEDAIKAAIADYKAKQ 125

>pdb|4EB5|C Chain C, A. Fulgidus Iscs-Iscu Complex Structure Length = 153

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 27/56 (48%), Positives = 34/56 (60%), Gaps = 1/56 (1%)
Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLS-LPPVKLHCSMLAEDAIKAAVKDYEAKRTK 73
           ATE  KGK I+E L I    +A+ L  LP  K+HCS LA DA++ A+ DY  K  K
Sbjct: 68  ATEMAKGKTIEEALKITRDAVAEALGGLPKQKMHCSNLAADALRRAIVDYFRKNGK 123

>pdb|2Z7E|A Chain A, Crystal Structure Of Aquifex Aeolicus Iscu With Bound [2fe- 2s] Cluster Length = 157

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 20  TEWVKGKQIQEVLSIKNTEIAKHLS-LPPVKLHCSMLAEDAIKAAVKDYEAKRTK 73
           TE VKGK IQ  L++   +I + L  LPP K+HC+ L  + +  A+KDY  K+ +
Sbjct: 74  TEMVKGKPIQYALNLTYKDIFEELGGLPPQKIHCTNLGLETLHVAIKDYLMKQGR 128

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	89
3lvl_A	129	NIFU-like protein; protein-protein complex, struct	2e-24
2z7e_A	157	ISCU protein, NIFU-like protein; iron-sulfur clust	6e-23
4eb5_C	153	NIFU protein (NIFU-1); scaffold, transferase-metal	1e-22
1su0_B	159	NIFU like protein ISCU; structural genomics, BSGC	5e-14
1xjs_A	147	NIFU-like protein; SR17, structure, autostructure,	1e-12
2qq4_A	138	Iron-sulfur cluster biosynthesis protein ISCU; zin	6e-10

>3lvl_A NIFU-like protein; protein-protein complex, structural genomics, montreal-kings bacterial structural genomics initiative, BSGI; HET: PLP; 3.00A {Escherichia coli} PDB: 2l4x_A 2kqk_A 1q48_A 1r9p_A 1wfz_A Length = 129

 Score = 88.2 bits (219), Expect = 2e-24
 Identities = 36/55 (65%), Positives = 45/55 (81%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK 73
            TEWVKGK + E  +IKNT+IA+ L LPPVK+HCS+LAEDAIKAA+ DY++KR  
Sbjct: 74  VTEWVKGKSLDEAQAIKNTDIAEELELPPVKIHCSILAEDAIKAAIADYKSKREA 128

>2z7e_A ISCU protein, NIFU-like protein; iron-sulfur cluster, iron, biosynthesis, [2Fe-2S], asymmetric trimer, three conserved Cys; 2.30A {Aquifex aeolicus} Length = 157

 Score = 85.2 bits (211), Expect = 6e-23
 Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 1/62 (1%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLS-LPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAA 77
            TE VKGK IQ  L++   +I + L  LPP K+HC+ L  + +  A+KDY  K+ +   A
Sbjct: 73  LTEMVKGKPIQYALNLTYKDIFEELGGLPPQKIHCTNLGLETLHVAIKDYLMKQGRVEEA 132

Query: 78  SE 79
           S+
Sbjct: 133 SK 134

>4eb5_C NIFU protein (NIFU-1); scaffold, transferase-metal binding protein complex; HET: PLP EPE; 2.53A {Archaeoglobus fulgidus} PDB: 4eb7_C* Length = 153

 Score = 84.1 bits (208), Expect = 1e-22
 Identities = 28/64 (43%), Positives = 35/64 (54%), Gaps = 1/64 (1%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHL-SLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAA 77
           ATE  KGK I+E L I    +A+ L  LP  K+HCS LA DA++ A+ DY  K  K    
Sbjct: 68  ATEMAKGKTIEEALKITRDAVAEALGGLPKQKMHCSNLAADALRRAIVDYFRKNGKIDKI 127

Query: 78  SEAE 81
            E  
Sbjct: 128 KELG 131

>1su0_B NIFU like protein ISCU; structural genomics, BSGC structure funded by NI protein structure initiative, PSI; 2.30A {Streptococcus pyogenes} SCOP: d.224.1.2 Length = 159

 Score = 62.0 bits (151), Expect = 5e-14
 Identities = 17/90 (18%), Positives = 33/90 (36%), Gaps = 24/90 (26%)

Query: 19  ATEWVKGKQIQEVLSIKNT-------------------EIAKHLSLPPVKLHCSMLAEDA 59
            T+ V GK  +E L++ +                    E+   ++  P ++ CS LA +A
Sbjct: 75  MTDAVIGKSKEEALALADIFSEMVQGQENPAQKELGEAELLAGVAKFPQRIKCSTLAWNA 134

Query: 60  IKAAVKDYEAKRTKPSAASEAEPAPRAADV 89
           +K A+K     +         +      +V
Sbjct: 135 LKEAIKRSANAQH-----LTDQNVKEGKNV 159

>1xjs_A NIFU-like protein; SR17, structure, autostructure, iron-sulfur, zinc, northeast structural genomics consortium, NESG; NMR {Bacillus subtilis} SCOP: d.224.1.2 PDB: 2azh_A Length = 147

 Score = 58.2 bits (141), Expect = 1e-12
 Identities = 18/80 (22%), Positives = 32/80 (40%), Gaps = 22/80 (27%)

Query: 13  GVSNVSA---TEWVKGKQIQEVLSI-------------------KNTEIAKHLSLPPVKL 50
            +S  SA   T+ +KGK I+  LS+                    + E  + +S  P ++
Sbjct: 67  SISMASASMMTQAIKGKDIETALSMSKIFSDMMQGKEYDDSIDLGDIEALQGVSKFPARI 126

Query: 51  HCSMLAEDAIKAAVKDYEAK 70
            C+ L+  A++  V   E  
Sbjct: 127 KCATLSWKALEKGVAKEEGG 146

>2qq4_A Iron-sulfur cluster biosynthesis protein ISCU; zinc binding, iron-sulfur cluster binding, three conserved Cys, three beta strands; 1.85A {Thermus thermophilus} Length = 138

 Score = 51.2 bits (123), Expect = 6e-10
 Identities = 19/74 (25%), Positives = 33/74 (44%), Gaps = 21/74 (28%)

Query: 13  GVSNVSA---TEWVKGKQIQEVLSI-------------KNTEIAKHLSLP-----PVKLH 51
            +S  SA   TE VKGK++ E L +              +  +   L+L      P ++ 
Sbjct: 65  AISTASASLMTEAVKGKKVAEALELSRKFQAMVVEGAPPDPTLGDLLALQGVAKLPARVK 124

Query: 52  CSMLAEDAIKAAVK 65
           C+ LA  A++ A++
Sbjct: 125 CATLAWHALEEALR 138

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	89
3lvl_A	129	NIFU-like protein; protein-protein complex, struct	99.94
4eb5_C	153	NIFU protein (NIFU-1); scaffold, transferase-metal	99.94
2z7e_A	157	ISCU protein, NIFU-like protein; iron-sulfur clust	99.92
2qq4_A	138	Iron-sulfur cluster biosynthesis protein ISCU; zin	99.85
1xjs_A	147	NIFU-like protein; SR17, structure, autostructure,	99.85
1su0_B	159	NIFU like protein ISCU; structural genomics, BSGC	99.84
1ni7_A	155	ER75, hypothetical protein YGDK; RD-structural gen	92.99
3g0m_A	141	Cysteine desulfuration protein SUFE; YNHA, csgid,	90.65
1i4j_A	110	50S ribosomal protein L22; mutant, erythromycin re	89.02
2ftc_M	110	Mitochondrial ribosomal protein L22 isoform A; mit	88.06
3r8s_S	110	50S ribosomal protein L22; protein biosynthesis, R	88.03

>3lvl_A NIFU-like protein; protein-protein complex, structural genomics, montreal-kings bacterial structural genomics initiative, BSGI; HET: PLP; 3.00A {Escherichia coli} PDB: 2l4x_A 2kqk_A 1q48_A 1r9p_A 1wfz_A

Probab=99.94  E-value=1.2e-27  Score=162.31  Aligned_cols=72  Identities=53%  Similarity=0.817  Sum_probs=68.5

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTK   73 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~   73 (89)
                      ++|+|+||+|| +||+|||+|+++|||++||..|+++++.+.|||||+|+||++|+|+||++||.+|+.|++.
T Consensus        57 ~~f~~~GCais-~ASaS~~te~i~Gkt~~ea~~i~~~~i~~~L~l~p~r~~Ca~La~~Al~~Al~~y~~k~~~  128 (129)
T 3lvl_A           57 ARFKTYGCGSA-IASSSLVTEWVKGKSLDEAQAIKNTDIAEELELPPVKIHCSILAEDAIKAAIADYKSKREA  128 (129)
T ss_dssp             EEEEEESCHHH-HHHHHHHHHHHTTCCHHHHHTCCHHHHHHHHTCCGGGGHHHHHHHHHHHHHHHHHHHSCC-
T ss_pred             EEEEecCCHHH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHcCCCccchhHHHHHHHHHHHHHHHHHHhccC
Confidence            37999999999 9999999999999999999999999999999999999999999999999999999998753

>4eb5_C NIFU protein (NIFU-1); scaffold, transferase-metal binding protein complex; HET: PLP EPE; 2.53A {Archaeoglobus fulgidus} PDB: 4eb7_C*

Probab=99.94  E-value=4e-27  Score=164.31  Aligned_cols=75  Identities=37%  Similarity=0.525  Sum_probs=70.8

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc-CCCCcchhhHHHHHHHHHHHHHHHHHhcCCCCC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL-SLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSA   76 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L-glpp~Ri~CA~La~~AL~~Al~~y~~k~~~~~~   76 (89)
                      ++|+|+||+|| +||+|||+++++|||++||..|+++++.+.| |+||+|+|||+|+|+||++||.+|+.|++..++
T Consensus        51 ~~F~g~GCais-~ASaS~mtelv~GKtleEA~~i~~~~i~~~L~glpp~Ri~CA~La~~AL~~Al~~y~~k~~~~~~  126 (153)
T 4eb5_C           51 IKFQTFGCAAA-IATSSMATEMAKGKTIEEALKITRDAVAEALGGLPKQKMHCSNLAADALRRAIVDYFRKNGKIDK  126 (153)
T ss_dssp             EEEEEESCHHH-HHHHHHHHHHHTTCBHHHHTTCCHHHHHHHHTCCCTTSHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             EEEEEeCcHHH-HHHHHHHHHHHcCCCHHHHHHhhHHHHHHHhcCCCcchhHHHHHHHHHHHHHHHHHHHhcCCccH
Confidence            37999999999 9999999999999999999999999999999 799999999999999999999999999876543

>2z7e_A ISCU protein, NIFU-like protein; iron-sulfur cluster, iron, biosynthesis, [2Fe-2S], asymmetric trimer, three conserved Cys; 2.30A {Aquifex aeolicus}

Probab=99.92  E-value=6.4e-26  Score=158.57  Aligned_cols=73  Identities=33%  Similarity=0.504  Sum_probs=69.3

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc-CCCCcchhhHHHHHHHHHHHHHHHHHhcCCC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL-SLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP   74 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L-glpp~Ri~CA~La~~AL~~Al~~y~~k~~~~   74 (89)
                      ++|+|+||+|| +||+|||+++++|||++||+.|+++++.+.| ++||.|+||++|+|+||++||.+|+.+++..
T Consensus        56 ~~F~~~GCais-~ASaS~mte~v~Gkt~~EA~~i~~~~i~e~Lg~l~p~R~~Ca~La~~Al~~Al~~y~~k~~~~  129 (157)
T 2z7e_A           56 VRFKTFGCGSA-IAVSSMLTEMVKGKPIQYALNLTYKDIFEELGGLPPQKIHCTNLGLETLHVAIKDYLMKQGRV  129 (157)
T ss_dssp             EEEEEESCTTH-HHHHHHHHHHHTTSBHHHHHHCCHHHHHHHHTCCCCSSCCTTCCHHHHHHHHHHHHHHTTTCH
T ss_pred             EEEEecCCHHH-HHHHHHHHHHHcCCcHHHHHHHHhccHHHHhcccCcchhHhHHHHHHHHHHHHHHHHHhcCCc
Confidence            37999999999 9999999999999999999999999999999 6999999999999999999999999888764

>2qq4_A Iron-sulfur cluster biosynthesis protein ISCU; zinc binding, iron-sulfur cluster binding, three conserved Cys, three beta strands; 1.85A {Thermus thermophilus}

Probab=99.85  E-value=3.9e-22  Score=136.25  Aligned_cols=64  Identities=27%  Similarity=0.372  Sum_probs=55.4

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHH------------H---hhc-CC--CCcchhhHHHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEI------------A---KHL-SL--PPVKLHCSMLAEDAIKA   62 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i------------~---e~L-gl--pp~Ri~CA~La~~AL~~   62 (89)
                      ++|+|+||+|| +||+|+|+|+++|||++||..|.+.++            .   +.| |+  +|+|+||++|+|+||++
T Consensus        57 ~~f~~~GCais-~ASaS~~te~i~Gkt~~ea~~i~~~~~~ml~~~~~~~~~l~~l~~l~~v~~~p~R~~Ca~La~~Al~~  135 (138)
T 2qq4_A           57 IRFQGQGCAIS-TASASLMTEAVKGKKVAEALELSRKFQAMVVEGAPPDPTLGDLLALQGVAKLPARVKCATLAWHALEE  135 (138)
T ss_dssp             EEEEEECCHHH-HHHHHHHHHHHTTSBHHHHHHHHHHHHHHHTTCCCCCGGGGGGGGGGGGGGCGGGHHHHHHHHHHHHH
T ss_pred             EEEEecCCHHH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCCchhhhhHHhhccCcccCcchhhHHHHHHHHHHH
Confidence            37999999999 999999999999999999999998542            1   223 44  69999999999999999


Q ss_pred             HHH
Q 034618           63 AVK   65 (89)
Q Consensus        63 Al~   65 (89)
                      ||+
T Consensus       136 Al~  138 (138)
T 2qq4_A          136 ALR  138 (138)
T ss_dssp             HHC
T ss_pred             HhC
Confidence            973

>1xjs_A NIFU-like protein; SR17, structure, autostructure, iron-sulfur, zinc, northeast structural genomics consortium, NESG; NMR {Bacillus subtilis} SCOP: d.224.1.2 PDB: 2azh_A

Probab=99.85  E-value=3.2e-22  Score=138.01  Aligned_cols=68  Identities=24%  Similarity=0.290  Sum_probs=57.8

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHH--------HH--hhc-------C--CCCcchhhHHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTE--------IA--KHL-------S--LPPVKLHCSMLAEDAIK   61 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~--------i~--e~L-------g--lpp~Ri~CA~La~~AL~   61 (89)
                      ++|+|+||+|| +||+|||+|+++|||++||..|.+..        +.  +.|       |  .+|+|+||++|+|+||+
T Consensus        59 ~~f~~~GCais-~ASaS~mte~v~Gkt~~Ea~~i~~~~~~ml~~~~~~~~~~l~~l~~l~~v~~~p~R~~Ca~La~~Al~  137 (147)
T 1xjs_A           59 AKFEGEGCSIS-MASASMMTQAIKGKDIETALSMSKIFSDMMQGKEYDDSIDLGDIEALQGVSKFPARIKCATLSWKALE  137 (147)
T ss_dssp             EEEEEESSHHH-HHHHHHHHHHHTTSBHHHHHHHHHHHHHHHHHCSCCSSCCCHHHHHHHHHTTSTTTHHHHHHHHHHHH
T ss_pred             EEEEecCCHHH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCCCchhhhchhhhhcCcccCcchhHHHHHHHHHHH
Confidence            37999999999 99999999999999999999998852        11  122       3  36999999999999999


Q ss_pred             HHHHHHHH
Q 034618           62 AAVKDYEA   69 (89)
Q Consensus        62 ~Al~~y~~   69 (89)
                      +||.+|+.
T Consensus       138 ~Al~~~e~  145 (147)
T 1xjs_A          138 KGVAKEEG  145 (147)
T ss_dssp             HHSCSTTC
T ss_pred             HHHHHhhc
Confidence            99987654

>1su0_B NIFU like protein ISCU; structural genomics, BSGC structure funded by NI protein structure initiative, PSI; 2.30A {Streptococcus pyogenes} SCOP: d.224.1.2

Probab=99.84  E-value=7.7e-22  Score=137.78  Aligned_cols=66  Identities=30%  Similarity=0.374  Sum_probs=56.2

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHH--------HH--hhc-------CC--CCcchhhHHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTE--------IA--KHL-------SL--PPVKLHCSMLAEDAIK   61 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~--------i~--e~L-------gl--pp~Ri~CA~La~~AL~   61 (89)
                      ++|+|+||+|| +||+|+|+++++|||++||+.|.+..        +.  +.|       |+  +|+|+||++|+|+||+
T Consensus        58 ~~F~~~GCais-~ASaS~mte~v~Gkt~~Ea~~i~~~f~~ml~~~~~~~~~~L~~l~~l~gv~~~p~R~~Ca~La~~Al~  136 (159)
T 1su0_B           58 IAFAGNGCTIS-TASSSMMTDAVIGKSKEEALALADIFSEMVQGQENPAQKELGEAELLAGVAKFPQRIKCSTLAWNALK  136 (159)
T ss_dssp             EEEEEECCHHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCGGGGGGGGGGGGGGGGGCHHHHHHHHHHHHHHH
T ss_pred             EEEEecCCHHH-HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCCCCchhhhchhhhhcCcccCcchhHHHHHHHHHHH
Confidence            47999999999 99999999999999999999998752        11  223       33  5999999999999999


Q ss_pred             HHHHHH
Q 034618           62 AAVKDY   67 (89)
Q Consensus        62 ~Al~~y   67 (89)
                      +||.++
T Consensus       137 ~Al~~~  142 (159)
T 1su0_B          137 EAIKRS  142 (159)
T ss_dssp             HHHTC-
T ss_pred             HHHHhh
Confidence            999774

>1ni7_A ER75, hypothetical protein YGDK; RD-structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; NMR {Escherichia coli} SCOP: d.224.1.1

Probab=92.99  E-value=0.26  Score=33.72  Aligned_cols=52  Identities=15%  Similarity=0.099  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHHHHHH
Q 034618           13 GVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAVKDYE   68 (89)
Q Consensus        13 ~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al~~y~   68 (89)
                      ..=.+++.+.+.|+|.+|+++++..+..+.||    |.|.|.+    ++.++-+.|+++-
T Consensus        89 kGL~AlL~~~~~G~tp~eIl~~d~~~f~~~lGL~~~LSpsR~N----Gl~am~~~ik~~a  144 (155)
T 1ni7_A           89 RGLLAVLLTAVEGKTAAELQAQSPLALFDELGLRAQLSASRSQ----GLNALSEAIIAAT  144 (155)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHSCTHHHHHHHTSSSSSCHHHHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHhCCHHHHHHHcCchhhcCchHHH----HHHHHHHHHHHHH
Confidence            57788999999999999999999987777775    6899987    6666666666654

>3g0m_A Cysteine desulfuration protein SUFE; YNHA, csgid, national I of allergy and infectious diseases, niaid, hydrolase, struc genomics; 1.76A {Salmonella typhimurium LT2} SCOP: d.224.1.1 PDB: 1mzg_A

Probab=90.65  E-value=0.45  Score=31.94  Aligned_cols=51  Identities=10%  Similarity=0.083  Sum_probs=40.7

Q ss_pred             HHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHHHHH
Q 034618           13 GVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAVKDY   67 (89)
Q Consensus        13 ~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al~~y   67 (89)
                      ..=.+++.+.+.|+|.+|++.++..+..+.||    |+|.|.+    ++.++-+.|+.+
T Consensus        82 kGl~alL~~~~~G~tp~eIl~~d~~~f~~~lGL~~~LSpsR~n----Gl~am~~~ik~~  136 (141)
T 3g0m_A           82 KGLMAVVFILYHQMTAQDIVHFDVRPWFEKMALAQHLTPSRSQ----GLEAMIRAIRAK  136 (141)
T ss_dssp             HHHHHHHHHHHTTCBHHHHHHCCCHHHHHHHTCGGGSCHHHHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHhCCHHHHHHHcCchhhcCchHHH----HHHHHHHHHHHH
Confidence            56778999999999999999999976777775    6899987    566665555554

>1i4j_A 50S ribosomal protein L22; mutant, erythromycin resistance, RNA binding, RNA binding protein; 1.80A {Thermus thermophilus} SCOP: d.55.1.1 PDB: 1bxe_A 1giy_S 1ml5_s* 1vsa_Q 1vsp_Q 1yl3_S 2b66_W 2b9n_W 2b9p_W 2hgj_V 2hgq_V 2hgu_V 2j01_W 2j03_W 2jl6_W 2jl8_W 2v47_W 2v49_W 2wdi_W 2wdj_W ...

Probab=89.02  E-value=0.91  Score=29.14  Aligned_cols=49  Identities=10%  Similarity=0.161  Sum_probs=39.8

Q ss_pred             HHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCC
Q 034618           16 NVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP   74 (89)
Q Consensus        16 aS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~   74 (89)
                      +-.++++|+|++++||..+-..          ...+.|..-.+.|+.|+.+...+.+.+
T Consensus        17 ~r~va~~IrG~~v~~Al~~L~~----------~pkkaa~~v~klL~sA~aNAe~n~gld   65 (110)
T 1i4j_A           17 VRLVVDLIRGKSLEEARNILRY----------TNKRGAYFVAKVLESAAANAVNNHDAL   65 (110)
T ss_dssp             HHHHHHHHTTCBHHHHHHHHHH----------CCCTTHHHHHHHHHHHHHHHHHTSCCC
T ss_pred             HHHHHHHHcCCcHHHHHHHHHH----------CCHHHHHHHHHHHHHHHHhHHHhcCCC
Confidence            3467899999999999987765          256778999999999999988765543

>2ftc_M Mitochondrial ribosomal protein L22 isoform A; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_M

Probab=88.06  E-value=1.1  Score=28.68  Aligned_cols=48  Identities=8%  Similarity=0.054  Sum_probs=39.2

Q ss_pred             HHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCC
Q 034618           17 VSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP   74 (89)
Q Consensus        17 S~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~   74 (89)
                      -.++++|+|++++||..+-..          ...+.|..-.+.|+.|+.+...+.+.+
T Consensus        14 r~va~~IrG~~v~eAl~~L~f----------~pkkaa~~v~klL~sA~aNA~~~~gld   61 (110)
T 2ftc_M           14 WYLAKLIRGMSIDQALAQLEF----------NDKKGAKIIKEVLLEAQDMAVRDHNVE   61 (110)
T ss_pred             HHHHHHHcCCcHHHHHHHHHH----------CCHHHHHHHHHHHHHHHHhHHHhcCCC
Confidence            467899999999999987764          256788999999999999987765554

>3r8s_S 50S ribosomal protein L22; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_Q 1p86_Q 1vs8_S 1vs6_S 2aw4_S 2awb_S 1vt2_S 2i2v_S 2j28_S 2i2t_S* 2qao_S* 2qba_S* 2qbc_S* 2qbe_S 2qbg_S 2qbi_S* 2qbk_S* 2qov_S 2qox_S 2qoz_S* ...

Probab=88.03  E-value=1.3  Score=28.39  Aligned_cols=48  Identities=15%  Similarity=0.317  Sum_probs=39.2

Q ss_pred             HHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCC
Q 034618           17 VSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP   74 (89)
Q Consensus        17 S~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~   74 (89)
                      -.++++|+|++++||..+-.-          ...+.+..-.+.|+.|+.+.+.+.+.+
T Consensus        18 r~va~~IrG~~v~~Al~~L~f----------~pkkaa~~v~k~L~sA~aNAe~~~gld   65 (110)
T 3r8s_S           18 RLVADLIRGKKVSQALDILTY----------TNKKAAVLVKKVLESAIANAEHNDGAD   65 (110)
T ss_dssp             HHHHHHHTTCBHHHHHHHHHH----------CCCHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             HHHHHHHcCCcHHHHHHHHhh----------CCHHHHHHHHHHHHHHHHhHHHhcCCC
Confidence            467899999999999987653          246778888999999999998876654

---

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	89
d1wfza_	130	d.224.1.2 (A:) Iron-sulfur cluster protein U (IscU	2e-21
d1r9pa_	134	d.224.1.2 (A:) NifU-like protein HI0377 {Haemophil	5e-17
d1xjsa_	147	d.224.1.2 (A:) NifU {Bacillus subtilis [TaxId: 142	2e-10
d1su0b_	136	d.224.1.2 (B:) IscU homolog SPy0289 {Streptococcus	1e-07

>d1wfza_ d.224.1.2 (A:) Iron-sulfur cluster protein U (IscU) {Mouse (Mus musculus), mitochondrial [TaxId: 10090]} Length = 130

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: Iron-sulfur cluster protein U (IscU)
species: Mouse (Mus musculus), mitochondrial [TaxId: 10090]

 Score = 79.2 bits (195), Expect = 2e-21
 Identities = 42/60 (70%), Positives = 49/60 (81%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAAS 78
           ATEWVKGK ++E L+IKNT+IAK L LPPVKLHCSMLAEDAIKAA+ DY+ K+   S  S
Sbjct: 69  ATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQESKSGPS 128

>d1r9pa_ d.224.1.2 (A:) NifU-like protein HI0377 {Haemophilus influenzae [TaxId: 727]} Length = 134

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: NifU-like protein HI0377
species: Haemophilus influenzae [TaxId: 727]

 Score = 68.1 bits (166), Expect = 5e-17
 Identities = 35/53 (66%), Positives = 46/53 (86%)

Query: 19  ATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKR 71
            TEWVKGK ++E  +IKN++IA+ L LPPVK+HCS+LAEDAIKAA+ DY+AK+
Sbjct: 73  ITEWVKGKSLEEAGAIKNSQIAEELELPPVKVHCSILAEDAIKAAIADYKAKQ 125

>d1xjsa_ d.224.1.2 (A:) NifU {Bacillus subtilis [TaxId: 1423]} Length = 147

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: NifU
species: Bacillus subtilis [TaxId: 1423]

 Score = 51.5 bits (123), Expect = 2e-10
 Identities = 10/49 (20%), Positives = 25/49 (51%)

Query: 22  WVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAK 70
            ++GK+  + + + + E  + +S  P ++ C+ L+  A++  V   E  
Sbjct: 98  MMQGKEYDDSIDLGDIEALQGVSKFPARIKCATLSWKALEKGVAKEEGG 146

>d1su0b_ d.224.1.2 (B:) IscU homolog SPy0289 {Streptococcus pyogenes [TaxId: 1314]} Length = 136

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: IscU homolog SPy0289
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 43.8 bits (103), Expect = 1e-07
 Identities = 13/45 (28%), Positives = 25/45 (55%)

Query: 21  EWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVK 65
           E V+G++      +   E+   ++  P ++ CS LA +A+K A+K
Sbjct: 91  EMVQGQENPAQKELGEAELLAGVAKFPQRIKCSTLAWNALKEAIK 135

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	89
d1wfza_	130	Iron-sulfur cluster protein U (IscU) {Mouse (Mus m	99.95
d1r9pa_	134	NifU-like protein HI0377 {Haemophilus influenzae [	99.93
d1xjsa_	147	NifU {Bacillus subtilis [TaxId: 1423]}	99.8
d1su0b_	136	IscU homolog SPy0289 {Streptococcus pyogenes [TaxI	99.77
d1ni7a_	149	Hypothetical protein YgdK {Escherichia coli [TaxId	93.83
d1mzga_	144	SufE (YhnA) {Escherichia coli [TaxId: 562]}	92.42
d1fs1b1	55	Cyclin A/CDK2-associated p45, Skp1 {Human (Homo sa	89.97
d1jxha_	266	4-amino-5-hydroxymethyl-2-methylpyrimidine phospha	89.29
d1ub0a_	258	4-amino-5-hydroxymethyl-2-methylpyrimidine phospha	88.47
d1vi9a_	288	Pyridoxamine kinase {Escherichia coli [TaxId: 562]	88.25
d1nexa1	70	Centromere DNA-binding protein complex Cbf3 subuni	84.47
d1i4ja_	110	Ribosomal protein L22 {Thermus aquaticus, subsp. T	81.31

>d1wfza_ d.224.1.2 (A:) Iron-sulfur cluster protein U (IscU) {Mouse (Mus musculus), mitochondrial [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: Iron-sulfur cluster protein U (IscU)
species: Mouse (Mus musculus), mitochondrial [TaxId: 10090]

Probab=99.95  E-value=1.4e-28  Score=166.10  Aligned_cols=76  Identities=57%  Similarity=0.813  Sum_probs=71.7

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCCCCC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSAA   77 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~~~~   77 (89)
                      ++|+|+||+|| +||+|||+|+++|||++|++.|++++|.+.|++||.|+|||+|+|+||++||++|+.|+..+...
T Consensus        52 i~F~~~GC~is-~AsaS~~tel~~Gkt~~ea~~i~~~~i~~~l~l~p~R~~CA~La~~aL~~Al~~y~~k~~~~~~p  127 (130)
T d1wfza_          52 ARFKTFGCGSA-IASSSLATEWVKGKTVEEALTIKNTDIAKELCLPPVKLHCSMLAEDAIKAALADYKLKQESKSGP  127 (130)
T ss_dssp             EEEECCSCHHH-HHHHHHHHHHHTTSBHHHHHHCCHHHHHHHHTCCGGGHHHHHHHHHHHHHHHHHHHHHHHCSSCS
T ss_pred             EEEEeeCCchh-HHHHHHHHHHHhccCHHHHHhcCcHHHHHHcCCCcchhhHHHHHHHHHHHHHHHHHHhccCccCC
Confidence            47999999999 99999999999999999999999999999999999999999999999999999999888766543

>d1r9pa_ d.224.1.2 (A:) NifU-like protein HI0377 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: NifU-like protein HI0377
species: Haemophilus influenzae [TaxId: 727]

Probab=99.93  E-value=4.6e-27  Score=158.20  Aligned_cols=75  Identities=49%  Similarity=0.734  Sum_probs=72.1

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCCCC
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKPSA   76 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~~~   76 (89)
                      ++|+|+||+|| +||+|+|+++++|||++||..|++++|.+.|+++|.|+|||+|+|+||++||++|+.|++.++.
T Consensus        56 i~f~~~GCais-~Asas~~~e~i~Gkt~~ea~~i~~~~i~e~l~~~p~r~~Ca~L~~~al~~al~~y~~k~g~~~~  130 (134)
T d1r9pa_          56 AKFKTYGCGSA-IASSSLITEWVKGKSLEEAGAIKNSQIAEELELPPVKVHCSILAEDAIKAAIADYKAKQGLEHH  130 (134)
T ss_dssp             EEEEEESSSSH-HHHHHHHHHHSSSSBHHHHTTSHHHHHHHHHTCCSTTHHHHHHHHHHHHHHHHHHHHTTTCCCS
T ss_pred             EEEEeccCccc-HhHHHHHHHHHHhCCHHHHHHhcchHHHHhhcCCCchhHHHHHHHHHHHHHHHHHHHhcCCchh
Confidence            48999999998 9999999999999999999999999999999999999999999999999999999999998764

>d1xjsa_ d.224.1.2 (A:) NifU {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: NifU
species: Bacillus subtilis [TaxId: 1423]

Probab=99.80  E-value=9e-21  Score=128.42  Aligned_cols=70  Identities=23%  Similarity=0.283  Sum_probs=59.3

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHH----------------hhc-C--CCCcchhhHHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIA----------------KHL-S--LPPVKLHCSMLAEDAIK   61 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~----------------e~L-g--lpp~Ri~CA~La~~AL~   61 (89)
                      ++|+|.||++| +||+|+|+++++|||++|+..+.+....                +.| +  -+|+|+||++|+|+||+
T Consensus        59 ~~f~~~GCai~-~ASasil~e~~~gk~~~~a~~l~~~~~~~l~~~~~~~~~~~~~l~~l~~v~~~p~R~~Ca~L~~~Al~  137 (147)
T d1xjsa_          59 AKFEGEGCSIS-MASASMMTQAIKGKDIETALSMSKIFSDMMQGKEYDDSIDLGDIEALQGVSKFPARIKCATLSWKALE  137 (147)
T ss_dssp             EEEEEESSHHH-HHHHHHHHHHHTTSBHHHHHHHHHHHHHHHHHCSCCSSCCCHHHHHHHHHTTSTTTHHHHHHHHHHHH
T ss_pred             EEeeecccHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCCCchhhhhHHHHhhCcCcCcchhHHHHHHHHHHH
Confidence            47999999997 9999999999999999999999874211                111 2  37899999999999999


Q ss_pred             HHHHHHHHhc
Q 034618           62 AAVKDYEAKR   71 (89)
Q Consensus        62 ~Al~~y~~k~   71 (89)
                      +||.+|++++
T Consensus       138 ~al~~~~~~~  147 (147)
T d1xjsa_         138 KGVAKEEGGN  147 (147)
T ss_dssp             HHSCSTTCCC
T ss_pred             HHHHHhhCCC
Confidence            9999998753

>d1su0b_ d.224.1.2 (B:) IscU homolog SPy0289 {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: NifU/IscU domain
domain: IscU homolog SPy0289
species: Streptococcus pyogenes [TaxId: 1314]

Probab=99.77  E-value=6e-20  Score=122.82  Aligned_cols=64  Identities=30%  Similarity=0.372  Sum_probs=54.2

Q ss_pred             CceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHH-------------H---hhc-CC--CCcchhhHHHHHHHHH
Q 034618            1 MNYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEI-------------A---KHL-SL--PPVKLHCSMLAEDAIK   61 (89)
Q Consensus         1 ~~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i-------------~---e~L-gl--pp~Ri~CA~La~~AL~   61 (89)
                      ++|+|+||++| +||+|+|+++++||+++|+..+.+...             .   ..| ++  +|+|+||++|+|+||+
T Consensus        53 i~f~~~GCai~-~ASasil~e~i~gk~~~e~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~v~~~p~R~~Ca~L~~~Al~  131 (136)
T d1su0b_          53 IAFAGNGCTIS-TASSSMMTDAVIGKSKEEALALADIFSEMVQGQENPAQKELGEAELLAGVAKFPQRIKCSTLAWNALK  131 (136)
T ss_dssp             EEEEEECCHHH-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTTCCCGGGGGGGGGGGGGGGGGCHHHHHHHHHHHHHHH
T ss_pred             EEEEeccCHHH-HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhcccCCchhhhhHHHHhhCCCcCcchhHHHHHHHHHHH
Confidence            47999999998 999999999999999999999976421             1   112 33  6899999999999999


Q ss_pred             HHHH
Q 034618           62 AAVK   65 (89)
Q Consensus        62 ~Al~   65 (89)
                      +||+
T Consensus       132 ~al~  135 (136)
T d1su0b_         132 EAIK  135 (136)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            9985

>d1ni7a_ d.224.1.1 (A:) Hypothetical protein YgdK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: SufE-like
domain: Hypothetical protein YgdK
species: Escherichia coli [TaxId: 562]

Probab=93.83  E-value=0.063  Score=34.89  Aligned_cols=57  Identities=19%  Similarity=0.087  Sum_probs=42.9

Q ss_pred             hhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHHHHH
Q 034618           10 NLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAVKDY   67 (89)
Q Consensus        10 is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al~~y   67 (89)
                      |. ..=.+++.+.+.|+|.+|+..++..+..+.||    |.|.|.+=-.--++.+|...+++
T Consensus        87 Iv-kGl~~iL~~~~sg~t~~eI~~~~~~~~~~~lGL~~~Ls~sR~NGl~~mi~~Ik~~a~~~  147 (149)
T d1ni7a_          87 IV-RGLLAVLLTAVEGKTAAELQAQSPLALFDELGLRAQLSASRSQGLNALSEAIIAATKQV  147 (149)
T ss_dssp             HH-HHHHHHHHHHTTTCCHHHHHHSCTHHHHHHHTSSSSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HH-HHHHHHHHHHHCCCCHHHHHhcCHHHHHHHCCChhhCChhHHHHHHHHHHHHHHHHHHH
Confidence            44 67788999999999999999999887777775    68999885444444444444443

>d1mzga_ d.224.1.1 (A:) SufE (YhnA) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: SufE/NifU
superfamily: SufE/NifU
family: SufE-like
domain: SufE (YhnA)
species: Escherichia coli [TaxId: 562]

Probab=92.42  E-value=0.13  Score=33.15  Aligned_cols=58  Identities=10%  Similarity=0.010  Sum_probs=44.2

Q ss_pred             hhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhcC----CCCcchhhHHHHHHHHHHHHHHHH
Q 034618           10 NLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHLS----LPPVKLHCSMLAEDAIKAAVKDYE   68 (89)
Q Consensus        10 is~~ASaS~~telikGktl~Ea~~i~~~~i~e~Lg----lpp~Ri~CA~La~~AL~~Al~~y~   68 (89)
                      |. ..-.+++.+.+.|+|.+|+..++..+..+.||    |.|.|.+=-.--+..+|+-...|.
T Consensus        75 Iv-kGl~ail~~~~~g~t~~eI~~~d~~~~~~~lgL~~~Ls~sR~NGl~~mi~~ik~~A~~~~  136 (144)
T d1mzga_          75 IV-KGLIAVVFILYDQMTPQDIVNFDVRPWFEKMALTQHLTPSRSQGLEAMIRAIRAKAAALS  136 (144)
T ss_dssp             HH-HHHHHHHHHHTTTCCHHHHHHCCCHHHHHHHTHHHHSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HH-HHHHHHHHHHHCCCCHHHHHhcChHHHHHHcCCccccCccHHHHHHHHHHHHHHHHHHHH
Confidence            44 67788999999999999999998876667775    689999865555555555555554

>d1fs1b1 a.157.1.1 (B:86-140) Cyclin A/CDK2-associated p45, Skp1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Skp1 dimerisation domain-like
superfamily: Skp1 dimerisation domain-like
family: Skp1 dimerisation domain-like
domain: Cyclin A/CDK2-associated p45, Skp1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.97  E-value=0.1  Score=28.60  Aligned_cols=21  Identities=19%  Similarity=0.256  Sum_probs=17.1

Q ss_pred             HHHHHHHHHcCCCHHHHHcch
Q 034618           15 SNVSATEWVKGKQIQEVLSIK   35 (89)
Q Consensus        15 SaS~~telikGktl~Ea~~i~   35 (89)
                      ++-.++++++|||++|++.+-
T Consensus        34 ~c~~vA~~ikgKt~eeiR~~f   54 (55)
T d1fs1b1          34 TCKTVANMIKGKTPEEIRKTF   54 (55)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHT
T ss_pred             HHHHHHHHHcCCCHHHHHHHh
Confidence            455678899999999998764

>d1jxha_ c.72.1.2 (A:) 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate kinase (HMP-phosphate kinase, ThiD) {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: Ribokinase-like
family: Thiamin biosynthesis kinases
domain: 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate kinase (HMP-phosphate kinase, ThiD)
species: Salmonella typhimurium [TaxId: 90371]

Probab=89.29  E-value=0.091  Score=36.04  Aligned_cols=38  Identities=16%  Similarity=0.016  Sum_probs=31.1

Q ss_pred             ceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc
Q 034618            2 NYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL   43 (89)
Q Consensus         2 ~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L   43 (89)
                      +|-|.||..|    +++.+.+++|++++||.....+.+.+.|
T Consensus       207 ~~hGTGc~la----saiaa~La~G~~l~~Av~~A~~~v~~~i  244 (266)
T d1jxha_         207 NTHGTGCTLS----AALAALRPRHRSWGETVNEAKAWLSAAL  244 (266)
T ss_dssp             CCBTHHHHHH----HHHHHHGGGSSSHHHHHHHHHHHHHHHH
T ss_pred             CCCCchHHHH----HHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            4678999887    7888899999999999998887665443

>d1ub0a_ c.72.1.2 (A:) 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate kinase (HMP-phosphate kinase, ThiD) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: Ribokinase-like
family: Thiamin biosynthesis kinases
domain: 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate kinase (HMP-phosphate kinase, ThiD)
species: Thermus thermophilus [TaxId: 274]

Probab=88.47  E-value=0.13  Score=34.92  Aligned_cols=38  Identities=21%  Similarity=0.200  Sum_probs=31.1

Q ss_pred             ceeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHHhhc
Q 034618            2 NYLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIAKHL   43 (89)
Q Consensus         2 ~F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~e~L   43 (89)
                      +|-|.||..+    +++.+.+++|++++||.......+.+.+
T Consensus       204 ~~~GtGd~~a----saia~~La~G~~l~~Av~~A~~~v~~~i  241 (258)
T d1ub0a_         204 NTHGTGCTLS----AAIAALLAKGRPLAEAVAEAKAYLTRAL  241 (258)
T ss_dssp             CCTTHHHHHH----HHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHH----HHHHHHHHcCCCHHHHHHHHHHHHHHHH
Confidence            3678899887    7888889999999999998887666554

>d1vi9a_ c.72.1.5 (A:) Pyridoxamine kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: Ribokinase-like
family: PfkB-like kinase
domain: Pyridoxamine kinase
species: Escherichia coli [TaxId: 562]

Probab=88.25  E-value=0.15  Score=35.25  Aligned_cols=34  Identities=15%  Similarity=0.132  Sum_probs=27.4

Q ss_pred             eeecchhhhHHHHHHHHHHHHcCCCHHHHHcchhHHHH
Q 034618            3 YLLRGFTNLYGVSNVSATEWVKGKQIQEVLSIKNTEIA   40 (89)
Q Consensus         3 F~g~GC~is~~ASaS~~telikGktl~Ea~~i~~~~i~   40 (89)
                      |-|-||+.+    +.+++.+++|++++||.+.....+.
T Consensus       219 ~~GtGD~fs----a~l~a~l~~G~~l~~A~~~A~~~v~  252 (288)
T d1vi9a_         219 PVGVGDVTS----GLLLVKLLQGATLQEALEHVTAAVY  252 (288)
T ss_dssp             CSCHHHHHH----HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             CCChhHHHH----HHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            558888887    7888999999999999887665443

>d1nexa1 a.157.1.1 (A:116-185) Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Skp1 dimerisation domain-like
superfamily: Skp1 dimerisation domain-like
family: Skp1 dimerisation domain-like
domain: Centromere DNA-binding protein complex Cbf3 subunit D, CBF3D
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.47  E-value=0.33  Score=27.57  Aligned_cols=23  Identities=17%  Similarity=0.261  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHcCCCHHHHHcchh
Q 034618           14 VSNVSATEWVKGKQIQEVLSIKN   36 (89)
Q Consensus        14 ASaS~~telikGktl~Ea~~i~~   36 (89)
                      .++-.++.+++|||++|.+.+.+
T Consensus        34 l~c~~vA~~ikgkt~eeiR~~f~   56 (70)
T d1nexa1          34 AGCKVVAEMIRGRSPEEIRRTFN   56 (70)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHT
T ss_pred             HHHHHHHHHHccCCHHHHHHHhC
Confidence            35567789999999999987765

>d1i4ja_ d.55.1.1 (A:) Ribosomal protein L22 {Thermus aquaticus, subsp. Thermus thermophilus [TaxId: 271]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L22
superfamily: Ribosomal protein L22
family: Ribosomal protein L22
domain: Ribosomal protein L22
species: Thermus aquaticus, subsp. Thermus thermophilus [TaxId: 271]

Probab=81.31  E-value=1.5  Score=26.55  Aligned_cols=48  Identities=10%  Similarity=0.180  Sum_probs=37.1

Q ss_pred             HHHHHHHcCCCHHHHHcchhHHHHhhcCCCCcchhhHHHHHHHHHHHHHHHHHhcCCC
Q 034618           17 VSATEWVKGKQIQEVLSIKNTEIAKHLSLPPVKLHCSMLAEDAIKAAVKDYEAKRTKP   74 (89)
Q Consensus        17 S~~telikGktl~Ea~~i~~~~i~e~Lglpp~Ri~CA~La~~AL~~Al~~y~~k~~~~   74 (89)
                      -.++++++|++++||..+-.-          ...+-|..-.+.|+.|+.+.....+.+
T Consensus        18 r~va~~IrG~~v~~Al~~L~f----------~~~kaa~~i~k~l~SA~aNA~~~~~~d   65 (110)
T d1i4ja_          18 RLVVDLIRGKSLEEARNILRY----------TNKRGAYFVAKVLESAAANAVNNHDAL   65 (110)
T ss_dssp             HHHHHHHTTCBHHHHHHHHHH----------CCCTTHHHHHHHHHHHHHHHHHTSCCC
T ss_pred             HHHHHHHcCCcHHHHHHHHhc----------CcchhHHHHHHHHHHHHHHHHhccCCC
Confidence            357899999999999876643          245667778899999999987665544