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PR00397

Identifier
SIROHAEM  [View Relations]  [View Alignment]  
Accession
PR00397
No. of Motifs
2
Creation Date
04-MAY-1995  (UPDATE 28-JUN-1999)
Title
Sirohaem Fe-binding site signature
Database References

PROSITE; PS00365 NIR_SIR
INTERPRO; IPR000660
Literature References
1. CAMPBELL, W.H. AND KINGHORN, K.R.
Functional domains of assimilatory nitrate reductases and nitrite 
reductases.
TRENDS BIOCHEM.SCI. 15 315-319 (1990).
 
2. MOURA, I. AND LINO, A.R.
Low-spin sulfite reductases.
METHODS ENZYMOL. 243 296-301 (1994).
 
3. OSTROWSKI, J., WU, J.-Y., RUEGER, D.C., MILLER, B.E., SIEGEL, L.M. AND
KREDICH, N.M.
Characterization of the cysJIH regions of Salmonella typhimurium and 
Escherichia coli B. DNA sequences of cysI and cysH and a model for the
siroheme-Fe4S4 active center of sulfite reductase hemoprotein based on 
amino acid homology with spinach nitrite reductase. 
J.BIOL.CHEM. 264 15726-15737 (1989).
 
4. HUANG, C.J. AND BARRETT, E.L.
Sequence analysis and expression of the Salmonella typhimurium asr operon
encoding production of hydrogen sulfide from sulfite. 
J.BACTERIOL. 173 1544-1553 (1991).

Documentation
Nitrite reductases and bacterial sulphite reductases catalyse the 
6-electron reduction of nitrite (sulphite) to ammonia (sulphide) [1,2].
On the basis of physiological function, 2 types of nitrite reductase
can be defined: the assimilatory type, which is involved in nitrate
assimilation (denitrification); and the dissimilatory type, which is 
responsible for nitrate respiration function. Assimilatory nitrite
reductases contain a prosthetic group termed sirohaem (an iron tetra- 
hydroporphyrin of the isobacteriochlorin type, with 8 carboxylic acid-
containing peripheral sidechains), and an iron-sulphur cluster.   
 
Similarly, there are 2 types of sulphite reductase: the assimilatory type,
which participate in the synthesis of sulphur-containing compounds; and
the dissimilatory type, which are terminal reductases in the reduction of
sulphate. Assimilatory sulphite reductases can catalyse 6-electron
reduction without the formation of free intermediates, while dissimilatory
reductases can produce trithionate and thiosulphate in addition to sulphide.
Both types of reductase contain sirohaem and iron-sulphur clusters [2]. 
 
A region of sequence similarity, about 80 amino acids long, is shared by 
assimilatory nitrite [1] and sulphite reductases [3,4]. Four conserved Cys
residues are suggested to be involved in binding the sirohaem group and/or
the iron-sulphur center [3].
 
SIROHAEM is a 2-element fingerprint that provides a signature for the
sirohaem-Fe binding site. The fingerprint was derived from an initial
alignment of 7 sequences: the motifs include the first and last pair of
4 conserved Cys residues, respectively - motif 2 includes the region
encoded by PROSITE pattern NIR_SIR (PS00365). Two iterations on OWL25.3
were required to reach convergence, at which point a true set comprising
15 sequences was identified.
 
An update on SPTR37_9f identified a true set of 45 sequences.
Summary Information
45 codes involving  2 elements
Composite Feature Index
24545
12
True Positives
ASRC_SALTY    COBG_PSEDE    CYSI_ECOLI    CYSI_SALTY    
CYSI_THIRO NASD_BACSU NIRB_ECOLI NIRB_KLEPN
NIR_BETVE NIR_EMENI NIR_NEUCR NIR_PHOLA
NIR_SPIOL NIR_SYNP7 O04840 O14167
O23650 O23813 O26380 O31037
O32213 O33909 O33910 O53674
O65350 O66583 O69175 O74998
O82802 P71753 P96795 Q00943
Q39161 Q41099 Q42590 Q42997
Q44293 Q55366 Q59656 Q92198
SIR_DESVH SIR_SYNP7 SIR_SYNY3 Y870_METJA
YJ9F_YEAST
Sequence Titles
ASRC_SALTY  ANAEROBIC SULFITE REDUCTASE SUBUNIT C (EC 1.8.1.-) - SALMONELLA TYPHIMURIUM. 
COBG_PSEDE COBG PROTEIN (EC 1.-.-.-) - PSEUDOMONAS DENITRIFICANS.
CYSI_ECOLI SULFITE REDUCTASE [NADPH] HEMOPROTEIN BETA-COMPONENT (EC 1.8.1.2) (SIR-HP) (SIRHP) - ESCHERICHIA COLI.
CYSI_SALTY SULFITE REDUCTASE [NADPH] HEMOPROTEIN BETA-COMPONENT (EC 1.8.1.2) (SIR-HP) (SIRHP) - SALMONELLA TYPHIMURIUM.
CYSI_THIRO SULFITE REDUCTASE [NADPH] HEMOPROTEIN BETA-COMPONENT (EC 1.8.1.2) (SIR-HP) (SIRHP) - THIOCAPSA ROSEOPERSICINA.
NASD_BACSU Nitrite reductase [NAD(P)H] - Bacillus subtilis
NIRB_ECOLI Nitrite reductase [NAD(P)H] large subunit - Escherichia coli (strain K12)
NIRB_KLEPN NITRITE REDUCTASE [NAD(P)H] LARGE SUBUNIT (EC 1.6.6.4) - KLEBSIELLA PNEUMONIAE.
NIR_BETVE FERREDOXIN--NITRITE REDUCTASE PRECURSOR (EC 1.7.7.1) - BETULA VERRUCOSA (WHITE BIRCH) (BETULA PENDULA).
NIR_EMENI Nitrite reductase [NAD(P)H] - Emericella nidulans
NIR_NEUCR Nitrite reductase [NAD(P)H] - Neurospora crassa
NIR_PHOLA FERREDOXIN--NITRITE REDUCTASE (EC 1.7.7.1) - PHORMIDIUM LAMINOSUM.
NIR_SPIOL FERREDOXIN--NITRITE REDUCTASE PRECURSOR (EC 1.7.7.1) - SPINACIA OLERACEA (SPINACH).
NIR_SYNP7 FERREDOXIN--NITRITE REDUCTASE (EC 1.7.7.1) - SYNECHOCOCCUS SP. (STRAIN PCC 7942) (ANACYSTIS NIDULANS R2).
O04840 NITRITE REDUCTASE (EC 1.7.7.1) (FERREDOXIN--NITRITE REDUCTASE) - GLYCINE MAX (SOYBEAN).
O14167 PUTATIVE SULFITE REDUCTASE (FERREDOXIN) (EC 1.8.7.1) - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
O23650 SULFITE REDUCTASE - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O23813 FERREDOXIN-SULFITE REDUCTASE PRECURSOR (EC 1.8.7.1) - ZEA MAYS (MAIZE).
O26380 COENZYME F420-REDUCING HYDROGENASE, BETA SUBUNIT HOMOLOG - METHANOBACTERIUM THERMOAUTOTROPHICUM.
O31037 SULFITE REDUCTASE - PSEUDOMONAS AERUGINOSA.
O32213 YVGQ PROTEIN - BACILLUS SUBTILIS.
O33909 DISSIMILATORY SIROHEME-SULFITE REDUCTASE ALPHA SUBUNIT (EC 1.8.99.1) - PYROBACULUM ISLANDICUM.
O33910 DISSIMILATORY SIROHEME-SULFITE REDUCTASE BETA SUBUNIT (EC 1.8.99.1) - PYROBACULUM ISLANDICUM.
O53674 NITRITE REDUCTASE LARGE SUBUNIT - MYCOBACTERIUM TUBERCULOSIS.
O65350 NITRITE REDUCTASE - CAPSICUM ANNUUM (BELL PEPPER).
O66583 NITRITE REDUCTASE (NAD(P)H) LARGE SUBUNIT (NAD(P)H) - AQUIFEX AEOLICUS.
O69175 NITRITE REDUCTASE - SYNECHOCOCCUS SP. (STRAIN WH8103).
O74998 NITRITE REDUCTASE (EC 1.6.6.4) - PHAEOSPHAERIA NODORUM (SEPTORIA NODORUM).
O82802 SULFITE REDUCTASE - NICOTIANA TABACUM (COMMON TOBACCO).
P71753 HYPOTHETICAL 63.0 KD PROTEIN - MYCOBACTERIUM TUBERCULOSIS.
P96795 HYPOTHETICAL 24.3 KD PROTEIN - METHANOSARCINA BARKERI.
Q00943 NITRITE REDUCTASE - PICHIA ANGUSTA (YEAST) (HANSENULA POLYMORPHA).
Q39161 NITRITE REDUCTASE - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
Q41099 NITRITE REDUCTASE PRECURSOR - PHASEOLUS VULGARIS (KIDNEY BEAN) (FRENCH BEAN).
Q42590 SULFITE REDUCTASE PRECURSOR (EC 1.8.7.1) (SULFITE REDUCTASE (FERREDOXIN)) - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
Q42997 FERREDOXIN-NITRITE REDUCTASE (EC 1.7.7.1) - ORYZA SATIVA (RICE).
Q44293 NITRITE REDUCTASE - ANABAENA SP. (STRAIN PCC 7120).
Q55366 FERREDOXIN-NITRITE REDUCTASE - SYNECHOCYSTIS SP. (STRAIN PCC 6803).
Q59656 NITRITE REDUCTASE (EC 1.7.7.1) - PLECTONEMA BORYANUM.
Q92198 NITRITE REDUCTASE - ASPERGILLUS FUMIGATUS (SARTORYA FUMIGATA).
SIR_DESVH SULFITE REDUCTASE, ASSIMILATORY-TYPE (EC 1.8.-.-) - DESULFOVIBRIO VULGARIS (STRAIN HILDENBOROUGH).
SIR_SYNP7 SULFITE REDUCTASE (FERREDOXIN) (EC 1.8.7.1) - SYNECHOCOCCUS SP. (STRAIN PCC 7942) (ANACYSTIS NIDULANS R2).
SIR_SYNY3 SULFITE REDUCTASE (FERREDOXIN) (EC 1.8.7.1) - SYNECHOCYSTIS SP. (STRAIN PCC 6803).
Y870_METJA HYPOTHETICAL PROTEIN MJ0870 - METHANOCOCCUS JANNASCHII.
YJ9F_YEAST HYPOTHETICAL 161.2 KD PROTEIN IN NMD5-HOM6 INTERGENIC REGION - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
Scan History
OWL25_2    2  250  NSINGLE    
SPTR37_9f 3 100 NSINGLE
Initial Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
RGLVACTGNQFCGQAIIET NIR_MAIZE 442 442 -
ENSMACVSFPTCPLAMAEA CYSI_SALTY 428 428 -
ENSMACVSFPTCPLAMAEA CYSI_ECOLI 428 428 -
RTVKSCVGTTWCRFGVGDS NIR_EMENI 715 715 -
RNIVACQGNRICQKANTDT ASRC_SALTY 110 110 -
RTVKSCVGSTWCRYGVQDS NIRB_KLEPN 634 634 -
RMAKTCVGSTWCRYGVGDS NIRB_ECOLI 636 636 -

Motif 2 width=19
Element Seqn Id St Int Rpt
SGCTRECSEAQGKDVGIIA NIRB_ECOLI 679 24 -
TGCPNSCGQVQVADIGFMG NIR_MAIZE 486 25 -
TGCPNGCGRAMLAEIGLVG CYSI_SALTY 476 29 -
TGCPNGCGRAMLAEVGLVG CYSI_ECOLI 476 29 -
SGCVRECAEAQNKDFGLIA NIR_EMENI 758 24 -
VGCPNDCAKASMADLGIIG ASRC_SALTY 151 22 -
SGCTRECAEAQGKDIGVIA NIRB_KLEPN 677 24 -
Final Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
RNLVACTGNQFCGQAIIET O65350 462 462 -
RSLVSCTGAQFCNFALIET NIR_PHOLA 391 391 -
RSLVSCTGAQFCNFALIET Q44293 409 409 -
RALVSCTGAQFCNFALIET Q59656 390 390 -
RSVVSCTGAQFCKFALIET Q55366 383 383 -
KGLVACTGSQFCGQAIIET NIR_SPIOL 468 468 -
KTLVACTGNQFCGQAIIET O04840 469 469 -
KTLVACTGNQFCGQAIIET Q41099 455 455 -
KGLVACTGNQFCGQAIIET Q42997 469 469 -
KGLVACTGNQFCGQAIIET NIR_BETVE 456 456 -
KGLVACTGSQFCGQAIIET Q39161 459 459 -
RGTVSCTGSQYCNFALIET NIR_SYNP7 391 391 -
RYSMACPALPTCGLAVTES SIR_SYNY3 446 446 -
LTAMACPAFPLCPLAITEA O82802 497 497 -
QTAMACPAFPLCPLAITEA Q42590 498 498 -
RYAMACPALPTCGLAITES SIR_SYNP7 441 441 -
RSSMACVALPTCGLAMAEA O32213 431 431 -
QTAMACPAFPLCPLAITEA O23650 496 496 -
ENSMACVSFPTCPLAMAEA CYSI_SALTY 428 428 -
LTAMACPALPLCPLAQTEA O23813 489 489 -
RNLMACSGIEFCKLSFAET P71753 420 420 -
ENSMACVSFPTCPLAMAEA CYSI_ECOLI 428 428 -
LSSAACVALPTCGLAMAES O14167 1323 1323 -
RATLACPGKENCGTGIIDT O26380 493 493 -
LNGMSCVALPTCPLAMAEA CYSI_THIRO 418 418 -
LSSSSCVGLPTCGLAFAES YJ9F_YEAST 1295 1295 -
RTVKSCVGTTWCRFGIGDS O74998 737 737 -
AGTVSCTGNTYCSFALTNT O69175 392 392 -
RATLACPGGGNCSSGLVDT Y870_METJA 423 423 -
RTIKSCVGTTWCRFGIGDS Q92198 720 720 -
RTVKSCVGTTWCRFGVGDS NIR_EMENI 715 715 -
RELNTCVGPALCEFALYDT O33909 144 144 -
RNIVACQGNRICQKANTDT ASRC_SALTY 110 110 -
RTVKSCVGSTWCRYGVQDS NIRB_KLEPN 634 634 -
RSVKICPGTTFCKRGKQDS P96795 94 94 -
RTVKSCVGTTWCRYGVGDS NIR_NEUCR 712 712 -
RTVKTCVGEQFCRFGTQDS NASD_BACSU 630 630 -
HYVQACPGTAVCRFGLQDS SIR_DESVH 86 86 -
RNVKSCVGSTWCRYGIGDS Q00943 675 675 -
RTVKSCVGSDWCRYGQQDS O53674 649 649 -
RMAKTCVGSTWCRYGVGDS NIRB_ECOLI 636 636 -
MHLIACAGSDTCSFGVIPN O66583 847 847 -
TDIICCPGGDFCSLANAKS O31037 410 410 -
WGINTCTAFLTCQIAVIDA O33910 121 121 -
NAIATCAGSKGCASAWMET COBG_PSEDE 333 333 -

Motif 2 width=19
Element Seqn Id St Int Rpt
TGCPNSCGQVQVADIGFMG O65350 506 25 -
TGCPNSCGQPQVADIGLMG NIR_PHOLA 435 25 -
TGCPNSCGQPQVADIGLMG Q44293 453 25 -
TGCPNSCGQPQVADIGLMG Q59656 434 25 -
TGCPNSCGQPQVADIGLMG Q55366 427 25 -
TGCPNSCGQVQVADIGFMG NIR_SPIOL 512 25 -
TGCPNTCGQVQVADIGFMG O04840 513 25 -
TGCPNTCGQVQVADIGFMG Q41099 499 25 -
TGCPNSCGQVQVADIGFMG Q42997 513 25 -
TGCPNSCGQVQVADIGFMG NIR_BETVE 500 25 -
TGCPNTCGQVQVADIGFMG Q39161 503 25 -
TGCPNSCGQPQVADIGLMG NIR_SYNP7 435 25 -
TGCPNGCARPYMAEIGFVG SIR_SYNY3 494 29 -
TGCPNGCARPYMAELGLVG O82802 546 30 -
TGCPNGCARPYMAELGLVG Q42590 547 30 -
TGCPNGCARPYMAELAFVG SIR_SYNP7 489 29 -
TGCPNGCARHALGEIGFIG O32213 479 29 -
TGCPNGCRRPYMAELGLVG O23650 545 30 -
TGCPNGCGRAMLAEIGLVG CYSI_SALTY 476 29 -
TGCPNGCARPYMAELGFVG O23813 538 30 -
NGCPNSCARIQIADIGFKG P71753 469 30 -
TGCPNGCGRAMLAEVGLVG CYSI_ECOLI 476 29 -
TGCPNGCSRPWVAEIACVG O14167 1371 29 -
SGCPNKCMRPQIHDIGVVG O26380 536 24 -
TGCPNGCARPYLAELALVG CYSI_THIRO 466 29 -
TGCPNGCSRPWLGELALVG YJ9F_YEAST 1343 29 -
SGCVRECAEAQNKDFGLIA O74998 780 24 -
TGCPNTCGQAYMGAIGLTG O69175 436 25 -
SGCPNGCVRPQVHDIGIAG Y870_METJA 466 24 -
SGCVRECAEAQNKDFGLIA Q92198 763 24 -
SGCVRECAEAQNKDFGLIA NIR_EMENI 758 24 -
SGCPMDCGRANRADLGFIG O33909 193 30 -
VGCPNDCAKASMADLGIIG ASRC_SALTY 151 22 -
SGCTRECAEAQGKDIGVIA NIRB_KLEPN 677 24 -
SGCQNSCSEPMIKDIGLMG P96795 137 24 -
SGCTRECAEAGNKDFGLIA NIR_NEUCR 755 24 -
SACPRNCAESGIKDLGVVG NASD_BACSU 673 24 -
SGCPFCCGETYLRDVGLVG SIR_DESVH 129 24 -
SGCVRDCAEFHSKDFGLCA Q00943 718 24 -
SGCARECAEARGKDVGVIA O53674 692 24 -
SGCTRECSEAQGKDVGIIA NIRB_ECOLI 679 24 -
SACAKGCGQHGSGDIGFVG O66583 891 25 -
SGCMNACGHHHVGHIGILG O31037 456 27 -
SGCPSGCAGGTAIDIAIVG O33910 169 29 -
SGCAKGCARPKPSELTLVG COBG_PSEDE 375 23 -