WORKLIST ENTRIES (1):
GERMIN View alignment View Structure Germin signature
Type of fingerprint: COMPOUND with 3 elements
Links:
INTERPRO; IPR001929
PROSITE; PS00725 GERMIN
PFAM; PF01072 Germin
Creation date 19-JUL-1994; UPDATE 07-JUN-1999
1. DRATEWKA-KOS, E., RAHMAN, S., GRZELCZAK, Z.F., KENNEDY, T.D., MURRAY,
R.K. AND LANE, B.G.
Polypeptide structure of germin as deduced from cDNA sequencing.
J.BIOL.CHEM. 264 4896-4900 (1989).
2. LANE, B.G., BERNIER, F., DRATEWKA-KOS, E., SHAFAI, R., KENNEDY, T.D.,
PYNE, C., MUNRO, J.R., VAUGHAN, T., WALTERS, D. AND ALTOMARE, F.
Homologies between members of the germin family in hexaploid wheat and
similarities between these wheat germins and certain Physarum spherulins.
J.BIOL.CHEM. 266 10461-10469 (1991).
3. BERNIER, F., LEMIEUX, G. AND PALLOTTA, D.
Gene families encode the major encystment-specific proteins of Physarum
polycephalum plasmodia.
GENE 59 265-277 (1987).
Synthesis of germin, a rare glycoprotein, signals the onset of growth in
germinating wheat embryos [1]. Germins are homopentameric proteins that
may play a role in altering the properties of cell walls during germinative
growth [2]. Spherulins 1a and 1b, which are similar to germins, are
specifically produced in slime molds during encystment (commonly known as
spherulation) [3]. It has been suggested that these proteins may be
involved in cell-wall responses to dessication, hydration and osmotic
stress [2].
GERMIN is a 3-element fingerprint that provides a signature for the
germins. The fingerprint was derived from an initial alignment of 4
sequences: the motifs were drawn from conserved regions spanning virtually
the full alignment length, motif 1 including most of the region encoded by
PROSITE pattern GERMIN (PS00725), which contains a well-conserved deca-
peptide. Two iterations on OWL23.2 were required to reach convergence,
at which point a true set comprising 6 sequences was identified.
An update on SPTR37_9f identified a true set of 43 sequences.
SUMMARY INFORMATION
43 codes involving 3 elements
0 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
3| 43 43 43
2| 0 0 0
--+----------------
| 1 2 3
True positives..
O49002 Q43487 GLP1_MESCR O49181
O23319 O48997 P92997 O48998
O80538 P94097 P94014 P94040
P92996 Q39106 O24004 OXO1_HORVU
P94028 P94072 GLP1_SINAL GLP1_BRANA
O04012 GER2_WHEAT OXO2_HORVU O04011
Q96265 P92995 O49871 GER3_WHEAT
O49001 O65044 P93598 P93600
O65252 O49000 SR1A_PHYPO P93000
SR1B_PHYPO O65358 GLP1_PHANI O64439
O81385 O65010 O49135
PROTEIN TITLES
O49002 GERMIN-LIKE PROTEIN 6 - ORYZA SATIVA (RICE).
Q43487 OXALATE OXIDASE-LIKE PROTEIN OR GERMIN-LIKE PROTEIN - HORDEU
GLP1_MESCR GERMIN-LIKE PROTEIN PRECURSOR - MESEMBRYANTHEMUM CRYSTALLINU
O49181 GERMIN-LIKE PROTEIN 16 - ORYZA SATIVA (RICE).
O23319 GERMIN TYPE 2 - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O48997 GERMIN-LIKE PROTEIN 1 - ORYZA SATIVA (RICE).
P92997 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
O48998 GERMIN-LIKE PROTEIN 2 - ORYZA SATIVA (RICE).
O80538 F14J9.22 PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
P94097 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
P94014 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
P94040 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
P92996 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
Q39106 GERMIN TYPE2 - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O24004 OXALATE OXIDASE PRECURSOR - HORDEUM VULGARE (BARLEY).
OXO1_HORVU OXALATE OXIDASE (EC 1.2.3.4) (GERMIN) - HORDEUM VULGARE (BAR
P94028 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
P94072 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
GLP1_SINAL GERMIN-LIKE PROTEIN 1 PRECURSOR - SINAPIS ALBA (WHITE MUSTAR
GLP1_BRANA GERMIN-LIKE PROTEIN PRECURSOR - BRASSICA NAPUS (RAPE).
O04012 AUXIN-BINDING PROTEIN - PRUNUS PERSICA (PEACH).
GER2_WHEAT GERMIN GF-2.8 PRECURSOR - TRITICUM AESTIVUM (WHEAT).
OXO2_HORVU OXALATE OXIDASE PRECURSOR (EC 1.2.3.4) (GERMIN) - HORDEUM VU
O04011 AUXIN-BINDING PROTEIN - PRUNUS PERSICA (PEACH).
Q96265 GERMIN1 - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
P92995 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
O49871 GERMIN-LIKE PROTEIN 1 PRECURSOR - HORDEUM VULGARE (BARLEY).
GER3_WHEAT GERMIN GF-3.8 PRECURSOR - TRITICUM AESTIVUM (WHEAT).
O49001 GERMIN-LIKE PROTEIN 5 - ORYZA SATIVA (RICE).
O65044 GERMIN-LIKE PROTEIN - ORYZA SATIVA (RICE).
P93598 GERMIN-LIKE PROTEIN 1 - TRITICUM AESTIVUM (WHEAT).
P93600 GERMIN-LIKE PROTEIN 3 - TRITICUM AESTIVUM (WHEAT).
O65252 F21E10.2 PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS).
O49000 GERMIN-LIKE PROTEIN 4 - ORYZA SATIVA (RICE).
SR1A_PHYPO SPHERULIN 1A PRECURSOR - PHYSARUM POLYCEPHALUM (SLIME MOLD).
P93000 GERMIN-LIKE PROTEIN - ARABIDOPSIS THALIANA (MOUSE-EAR CRESS)
SR1B_PHYPO SPHERULIN 1B PRECURSOR - PHYSARUM POLYCEPHALUM (SLIME MOLD).
O65358 GERMIN-LIKE PROTEIN - SOLANUM TUBEROSUM (POTATO).
GLP1_PHANI GERMIN-LIKE PROTEIN PRECURSOR - PHARBITIS NIL (VIOLET) (JAPA
O64439 GERMIN-LIKE PROTEIN PRECURSOR - LYCOPERSICON ESCULENTUM (TOM
O81385 GERMIN-LIKE PROTEIN 7 - ORYZA SATIVA (RICE).
O65010 GERMIN-LIKE PROTEIN - PINUS RADIATA (MONTEREY PINE).
O49135 GERMIN-LIKE PROTEIN - PINUS CARIBAEA.
SCAN HISTORY
OWL23_2 2 100 NSINGLE
OWL28_1 1 100 NSINGLE
SPTR37_9f 2 60 NSINGLE
INITIAL MOTIF SETS
GERMIN1 Length of motif = 21 Motif number = 1
Germin motif I - 1
PCODE ST INT
HTHPRATEILTVLEGTLYVGF HVOXLP 110 110
HIHPRATEIGIVMKGELLVGI GER2_WHEAT 111 111
HIHPRATEIGIVMKGELLVGI GER3_WHEAT 111 111
HIHPRATEIGMVMKGELLVGI OXO1_HORVU 88 88
HTHPRATEVFVVLEGTFYVGF GLP1_MESCR 111 111
GERMIN2 Length of motif = 21 Motif number = 2
Germin motif II - 1
PCODE ST INT
KVLNKGDVFVFPVGLIHFQFN HVOXLP 146 15
RVVRAGETFLIPRGLMHFQFN GER2_WHEAT 144 12
RVVRAGETFLIPRGLMHFQFN GER3_WHEAT 144 12
RVVRAGETFVIPRGLMHFQFN OXO1_HORVU 121 12
KVLNKGDVFVFPQGLIHFQLN GLP1_MESCR 146 14
GERMIN3 Length of motif = 16 Motif number = 3
Germin motif III - 1
PCODE ST INT
SSQNPGAITIANAVFG HVOXLP 180 13
NSQNPGIVFVPLTLFG GER2_WHEAT 177 12
NSQSPSVVFVPLTLFG GER3_WHEAT 177 12
NSQNPGIVFVPLTLFG OXO1_HORVU 154 12
SSQNPGVITIANAVFG GLP1_MESCR 179 12
FINAL MOTIF SETS
GERMIN1 Length of motif = 21 Motif number = 1
Germin motif I - 2
PCODE ST INT
HTHPRATEILTVLEGTLYVGF O49002 110 110
HTHPRATEILTVLEGTLYVGF Q43487 110 110
HTHPRATEVFVVLEGTFYVGF GLP1_MESCR 111 111
HTHPRATEIFTVLEGTLYVGF O49181 112 112
HTHPRATEILVVQQGTLLVGF O23319 113 113
HIHPRATELLTVLEGTLYVGF O48997 111 111
HTHPRATEILVLIEGTLYVGF P92997 111 111
HVHPRATELLTVLEGTLYVGF O48998 111 111
HTHPRATEVVFVLEGTLDVGF O80538 109 109
HTHPRATEVVFVLEGTLDVGF P94097 109 109
HTHPRATEVVFVLEGTLDVGF P94014 109 109
HTHPGASEVLFVLTGSITAGF P94040 100 100
HTHPRGSEILVLVEGTLYVGF P92996 110 110
HTHPRGSEILVLVEGTLYVGF Q39106 110 110
HIHPRATEIGMVMKGELLVGI O24004 111 111
HIHPRATEIGMVMKGELLVGI OXO1_HORVU 88 88
HTHPGASEVLVVIQGTICAGF P94028 103 103
HTHPGASEVLVVIQGTICAGF P94072 103 103
HTHPGASEVLVVIQGTICAGF GLP1_SINAL 103 103
HTHPGASEVLFVLDGSITAGF GLP1_BRANA 99 99
HTHPGASEVLLVVQGTIIAGF O04012 101 101
HIHPRATEIGIVMKGELLVGI GER2_WHEAT 111 111
HVHPRATEIGIVMKGELLVGI OXO2_HORVU 111 111
HTHPGASEVLIVAQGTICAGF O04011 106 106
HTHPGASEVLFVLTGSITAGF Q96265 100 100
HLHPRATEVGTVIEGSVFVGF P92995 96 96
HTHPAASELLFVTEGTILAGF O49871 103 103
HIHPRATEIGIVMKGELLVGI GER3_WHEAT 111 111
HTHPAASELLFVTQGTVAAGF O49001 104 104
HTHPAASELLFVTQGTVAAGF O65044 104 104
HVHPRGTEIGMVMKGELLVGI P93598 111 111
HIHPRATDIGIVLKGELLVGI P93600 111 111
HVHPRASEIIFVLEGQLYVGF O65252 159 159
HTHPRATEIIFVLEGVLEVGF O49000 109 109
HTHPRATEINFIASGKFEAGF SR1A_PHYPO 123 123
HLHPRASEAIFVLEGRLFVGF P93000 109 109
HTHPRATEINFIAKGRFQAGF SR1B_PHYPO 110 110
HTHPRATEMIFVLEGELDVGF O65358 110 110
HTHPGASEILNVVEGTILAAF GLP1_PHANI 106 106
HLHPRATEMIYVLQGELDVGF O64439 112 112
HSHPRAAELVHVITGRMLVGF O81385 113 113
HIHPRGSETIFVVRGALNVGF O65010 119 119
HIHPRGSETIFVVRGALNVGF O49135 111 111
GERMIN2 Length of motif = 21 Motif number = 2
Germin motif II - 2
PCODE ST INT
KVLNKGDVFVFPEGLIHFQFN O49002 142 11
KVLNKGDVFVFPVGLIHFQFN Q43487 146 15
KVLNKGDVFVFPQGLIHFQLN GLP1_MESCR 146 14
KVLNKGDVFVFPEGFIHFQFN O49181 144 11
KTLNVGDVFVFPEGLIHFQFN O23319 146 12
KVVHKGDTFVFPKAMIHFQMN O48997 142 10
KVLYPGDVFVFPIGMIHFQVN P92997 144 12
KVVHKGDVFVFPKAMIHFQMN O48998 142 10
QSLKKGDVFAFPKGLVHFQKN O80538 139 9
QSLKKGDVFAFPKGLVHFQKN P94097 140 10
QSLKKGDVFAFPKGLVHFQKN P94014 139 9
QTLKPGQVMVFPQGLLHFQIN P94040 130 9
KVLHPGDVFVFPIGMIHFQVN P92996 143 12
KVLHPGDVFVFPIGMIHFQVN Q39106 143 12
RVVRAGETFVIPRGLMHFQFN O24004 144 12
RVVRAGETFVIPRGLMHFQFN OXO1_HORVU 121 12
KTLNRGDSMVFPQGLLHFQLN P94028 133 9
KTLNRGDSMVFPQGLLHFQLN P94072 133 9
KTLSRGDSMVFPQGLLHFQLN GLP1_SINAL 133 9
QTLKPGQVMVFPQGLLHFQIN GLP1_BRANA 129 9
KTLKKGDIIVFPQGLLHFQVN O04012 131 9
RVVRAGETFLIPRGLMHFQFN GER2_WHEAT 144 12
RVVRAGETFLIPRGLMHFQFN OXO2_HORVU 144 12
QTLEKGDIMVFPQGLLHFQVN O04011 136 9
QTLKPGQVMVFPQGLLHFQIN Q96265 130 9
KVLNAGEAFVIPRGLVHFQWN P92995 126 9
KTLYKGDIMVFPQGLLHYQYN O49871 134 10
RVVRAGETFLIPRGLMHFQFN GER3_WHEAT 144 12
RTLYAGDIMVFPQGLLHYQYN O49001 135 10
RTLYAGDIMVFPQGLLHYQYN O65044 135 10
RVVRAGETFLIPRGLMHFQFI P93598 144 12
RVVRAGETFLIPRGLMHFQFN P93600 144 12
KNLNKGDVFTFPKGLIHFQKN O65252 189 9
KTVTAGEVFVFPRGLVHFQQN O49000 139 9
HTLEAGMATVFPQGAIHFEIN SR1A_PHYPO 154 10
KHVNKGDVFVFPKALLHFQQN P93000 139 9
HILEEGMATVFPQGAIHFEIN SR1B_PHYPO 141 10
KHIVKGEVFSFPRGLVHFQQN O65358 140 9
KALYPGDVMVFPQGLLDFQEI GLP1_PHANI 136 9
KHIVQGEVFVFPRGLVHFQKN O64439 142 9
KVVGEGETFAIPRGLMHFQYN O81385 143 9
HKLVTGDVFVFPKGAVHYLQN O65010 149 9
HKLVAGDVFIFPKGTVHYLQN O49135 141 9
GERMIN3 Length of motif = 16 Motif number = 3
Germin motif III - 2
PCODE ST INT
SSQNPGAITIANAVFG O49002 176 13
SSQNPGAITIANAVFG Q43487 180 13
SSQNPGVITIANAVFG GLP1_MESCR 179 12
SSQNPGVITIANAVFG O49181 178 13
SSQNAGVITIANTIFG O23319 179 12
NSQNPGVITIASAVFG O48997 176 13
SSQNAGVITIADTVFG P92997 177 12
SSQNPGVITIASAIFG O48998 176 13
NSQLPGTQSLGATLFG O80538 172 12
NSQLPGTQSLGATLFG P94097 173 12
NSQLPGTQSLGATLFG P94014 172 12
NSANPGLQILDFALFA P94040 163 12
SSQNAGVITIANTVFG P92996 176 12
SSQNAGVITIANTVFG Q39106 176 12
NSQNPGIVFVPLTLFG O24004 177 12
NSQNPGIVFVPLTLFG OXO1_HORVU 154 12
GSSSPGLQILPFALFA P94028 166 12
GSSSPGLQILPFALFA P94072 166 12
GSSSPGLQILPFALFA GLP1_SINAL 166 12
SSASPGLQILDFALFA GLP1_BRANA 162 12
SSPSPGLQIVDFALFK O04012 164 12
NSQNPGIVFVPLTLFG GER2_WHEAT 177 12
NSQNPGIVFVPLTLFG OXO2_HORVU 177 12
GSASPGLQILDFALFK O04011 169 12
NSANRGLQILDFALFA Q96265 163 12
NSQLPGAVVLPSTLFG P92995 159 12
SGPNPGLQITDYALFA O49871 167 12
NSQSPSVVFVPLTLFG GER3_WHEAT 177 12
SGPNPGLQITDYALFA O49001 168 12
SGPNPGLQITDYALFA O65044 168 12
NSQNPGIVFVPLTFFG P93598 177 12
NSQNPGIVFVLTLFFG P93600 177 12
DSQLPGTQSLVASLFG O65252 222 12
NSQLQGTQAIAATLFA O49000 172 12
NNEDPGVQTTASSFFG SR1A_PHYPO 187 12
DSQLPGTQVVGPSLFG P93000 172 12
NNEDPGVQTTASSFFG SR1B_PHYPO 174 12
NSQLPGTHSIATTLFA O65358 172 11
RQRNPGLQILEFQHCF GLP1_PHANI 168 11
NSQLAGTQSIATTLFA O64439 175 12
NSQLPGVVPAATALFG O81385 176 12
NSQNPGTAIVSLATFA O65010 182 12
NSQNPGTVIVSMATFA O49135 174 12
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