#=GF ID Archaeal_AmoA
#=GF AC PF12942.11
#=GF DE Archaeal ammonia monooxygenase subunit A (AmoA)
#=GF AU Mistry J;0000-0003-2479-5322
#=GF AU Finn RD;0000-0001-8626-2148
#=GF SE jackhmmer:A7U5N3
#=GF GA 25.60 25.60;
#=GF TC 26.50 308.30;
#=GF NC 21.60 20.70;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch -E 1000 -Z 75585367 --cpu 4 HMM pfamseq
#=GF TP Family
#=GF RN [1]
#=GF RM 16186488
#=GF RT Ubiquity and diversity of ammonia-oxidizing archaea in water
#=GF RT columns and sediments of the ocean.
#=GF RA Francis CA, Roberts KJ, Beman JM, Santoro AE, Oakley BB;
#=GF RL Proc Natl Acad Sci U S A. 2005;102:14683-14688.
#=GF DR INTERPRO; IPR024656;
#=GF DR SO; 0100021; polypeptide_conserved_region;
#=GF CC This is an archeael family that contains ammonia monooxygenase
#=GF CC subunit A. Ammonia monooxygenase is an enzyme that oxidises
#=GF CC ammonia to nitrite and nitrate, thus playing a significant role
#=GF CC in the nitrogen cycle. Ammonia-oxidising archaea (AOA) are
#=GF CC widespread in marine environments [1].
#=GF SQ 16
#=GS A0A5B2Z0P2_9ARCH/16-198 AC A0A5B2Z0P2.1
#=GS A0A2H4L7C3_9ARCH/16-198 AC A0A2H4L7C3.1
#=GS A0A8K0Y4P6_9ARCH/16-198 AC A0A8K0Y4P6.1
#=GS A0RUM1_CENSY/21-203 AC A0RUM1.1
#=GS A0A484I9U7_9ARCH/16-198 AC A0A484I9U7.1
#=GS V6ATZ6_9ARCH/16-198 AC V6ATZ6.1
#=GS A0A060HNG6_9ARCH/16-198 AC A0A060HNG6.1
#=GS A0A6A7LCD9_9ARCH/16-198 AC A0A6A7LCD9.1
#=GS A0A2H1EG64_9ARCH/39-221 AC A0A2H1EG64.1
#=GS A0A0A7V5B5_9ARCH/1-148 AC A0A0A7V5B5.1
#=GS S2EPZ8_9ARCH/1-157 AC S2EPZ8.1
#=GS A0A2I7UGI1_9ARCH/16-199 AC A0A2I7UGI1.1
#=GS K0ILE5_NITGG/6-188 AC K0ILE5.1
#=GS A9A4U2_NITMS/16-198 AC A9A4U2.1
#=GS A0A447G408_9ARCH/16-198 AC A0A447G408.1
#=GS A0A2H5VCW1_9ARCH/16-199 AC A0A2H5VCW1.1
A0A5B2Z0P2_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSFVVFSISQSTMLVVGAIYYMLFTGVPGTATYYATIMTIYTWVAKGAWF.ALGYPYDFVVVPVWIPSAMLLDLAYWATRRNKHAAILIGGVLVGMSLPLFNMINLLLVADPLEMAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLCVPIAALG
A0A2H4L7C3_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSFVVFSISQSTMLVVGAIYYMLFTGVPGTATYYATIMTIYTWVAKGAWF.ALGYPYDFVVVPVWIPSAMLLDLAYWATRRNKHAAILIGGVLVGMSLPLFNMINLLLIADPLEMAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLCVPIAALG
A0A8K0Y4P6_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSYVIFTLSQSLMLAVGAAYYLTFTGVPGTATYYALIMTVYTWIAKGAWF.SLGYPYSFIVVPIWIPSAILMDLAYWATKRNKHMLILVGGVLCGMSMSMFNMVNLLTIDDPLETAFKYPRTTLPPYMTPIEPQVGKFYDSPVALGAGAGAVLTVTMTALG
A0RUM1_CENSY/21-203 .VAVNSTLLTINAGDYIFYTDWAWTSFTVFSISQTLMLVVGATYYLTFTGVPGTATYYALIMTVYVWIAKGAWF.ALGYPYDFIATPIWLPSAMLLDLAYWATKRNKHSLILFGGVLVGMSLPLFNMVNLITVADPLETAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLSVTFAALG
A0A484I9U7_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSFVVFSISQSTMLVVGAIYYMLFTGVPGTATYYATIMTIYTWVAKGAWF.ALGYPYDFVVVPVWIPSAMLLDLAYWATRRNKHAAILIGGVLVGMSLPLFNMINLLLVADPLEMAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLCVPIAALG
V6ATZ6_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSFVVFSISQTLMLVVGACYYLTFTGVPGTATYYALIMTVYTWVAKGAWF.ALGYPYDFIVTPVWLPSAMLLDLAYWATKKNKHSLILFGGVMAGLSLPLFNMVNLITVADPLETAFKYPRPTLPPYMTPIEPAVGKFYNSPVALGAGAGAVLSVTMAALG
A0A060HNG6_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWMWTSFVVFSVSQSTMLAVGAVYYMLFTGVPGTATYYATIMTIYTWVAKGAWF.ALGYPYDFIVVPVWIPSAMLLDLTYWATRRNKHAVIIIGGTLVGLSFPLFNMVNLLLVRDPLEVAFKYPRPTLPAYMTPIEPQVGKFYNSPVALGSGASAVLTVPMTALG
A0A6A7LCD9_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSFVVFSISQSTMLVVGAIYYMLFTGVPGTATYYATIMTIYTWVAKGAWF.ALGYPYDFVAVPVWIPSAMLLDLTYWATRRNKHAAILIGGTLVGLSLPMFNMINLLTIRDPLEMAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLSVPIAALG
A0A2H1EG64_9ARCH/39-221 .VAVNSTLLTINAGDYIFYTDWMWTSYVVFTLSQSLMLAVGAAYYLTFTGVPGTATYYALIMTVYTWIAKGAWF.SLGYPYSFIVVPMWIPSAILMDLAYWATKRNKHSLILIGGVLCGMSMSMFNMINLITIDDPLETAFKYPRTTLPPYMTPIEPQVGKFYDSPVALGAGAGAVLTVTMTALG
A0A0A7V5B5_9ARCH/1-148 .-----------------------------------MLTVGACYYLTFTGVPGTATYYALIMTVYTWIAKGAWF.ALGYPYDFIVTPVWLPSAMLLDLAYWATKKNKHSLILFGGVLVGMSLPLFNMVNLITVADPLETAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLACTFAALG
S2EPZ8_9ARCH/1-157 m---------------------------VFSISQTLMLAVGATYYLTFTGVPGTATYYALIMTVYTWIAKGAWF.ALGYPYDFIVTPVWLPSAMLLDLAYWATKKNKHSLILFGGVLVGMSLPLFNMVNLITVADPLETAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLSVTFTALG
A0A2I7UGI1_9ARCH/16-199 .VAVNSTLLTINAGDYIFYSDWMWTSFVIFNLSQSTMLVVGAIYYLLFTGVPGTATYYATIMTIYTWVAKWAWIgGLGYPYDFMIVPVWIPSAMLLDLAYWATRRNKHAAILIGGSLLGMSMPLFNMINLLTVHDPLEMAFKYPRPTLPAYLTPIEPQVGKFYNSPVALAAGISAVISVPMAALG
K0ILE5_NITGG/6-188 .VAVNSTLLTINAGDYIFYTDWMWTSFVVFSISQSTMLVVGAIYYMLFTGVPGTATYYATIMTIYTWVAKGAWF.ALGYPYDFIVVPVWIPSAMLLDLTYWATRRNKHAAIIIGGTLVGLSFPLFNMVNLLLVRDPLEVAFKYPRPTLPAYMTPIEPQVGKFYNSPVALGSGAGAVLSVPIAALG
A9A4U2_NITMS/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSYTVFSISQTLMLIVGATYYLTFTGVPGTATYYALIMTVYTWIAKAAWF.SLGYPYDFIVTPVWLPSAMLLDLVYWATKKNKHSLILFGGVLVGMSLPLFNMVNLITVADPLETAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLGCTFAALG
A0A447G408_9ARCH/16-198 .VAVNSTLLTINAGDYIFYTDWAWTSFTVFSISQTLMLVVGATYYLTFTGVPGTATYYALIMTVYTWIAKGAWF.ALGYPYDFIVTPVWLPSAMLLDLVYWATKKNKHSLILFGGVLVGMSLPLFNMVNLITVADPLETAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLSVTMAALG
A0A2H5VCW1_9ARCH/16-199 .VAVNSTLLTINAGDYIFYSDWMWTSFVIFNLSQSTMLVVGAIYYLLFTGVPGTATYYATIMTIYTWVAKWAWIgGLGYPYDFMIVPVWIPSAMLLDLAYWATRRNKHAAILIGGSLLGMSMPLFNMINLLTVHDPLEMAFKYPRPTLPAYLTPIEPQVGKFYNSPVALGAGISAVISVPMAALG
#=GC seq_cons .VAVNSTLLTINAGDYIFYTDWhWTSFVVFSISQShMLVVGAhYYLhFTGVPGTATYYAhIMTlYTWlAKGAWF.ALGYPYDFIVVPVWIPSAMLLDLAYWAT+RNKHuhILlGGVLVGMSLPLFNMlNLlTVsDPLEsAFKYPRPTLPPYMTPIEPQVGKFYNSPVALGAGAGAVLoVshAALG
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