PFRMAT AL 
TARGET T0082 
AUTHOR 9808-8259-1323 
METHOD Searched 1962 pdb sequences with max. 90% identity using a 
METHOD sequence profile based on alignment below and PAM250.  
REMARK 
REMARK Alignment used for sequence profile: 
REMARK    
REMARK RNMC_MOMCH                 1 FDSFWFVQQWPPAVCSFQKSGSCPGSGLRT..FTIHGLWPQ.GS.GTSLT 
REMARK RNS1_ARATH                30 FDFFYFVQQWPGSYCDTQKKCCYPNSGKPAADFGIHGLWPNYKD.GTYPS 
REMARK RNLE_LYCES                29 FDFFYFVQQWPGSYCDTKQSCCYPTTGKPAADFGIHGLWPN.NNDGTYPS 
REMARK RNS2_ANTHI                33 FDYFKLVLQWPNSYCSLKTTHCPRTRLPSQ..FTIHGLWPD.NK.SWPLS 
REMARK RNS3_ARATH                22 FDFFYFVLQWPGAYCDSRHSCCYPQTGKPAADFGIHGLWPNYKT.GGWPQ 
REMARK RNS2_NICAL                24 FEYMQLVLTWPITFCRIKHCERTPTN......FTIHGLWPD.NH.TTMLN 
REMARK    
REMARK RNMC_MOMCH                47 NC.PQGSPFDITKISH..LQSQLNTLWPNVL..R....A.....NNQ..Q 
REMARK RNS1_ARATH                79 NCDA.SKPFDSSTISD..LLTSMKKSWPTLACPS....G.....SGE..A 
REMARK RNLE_LYCES                78 NCDP.NSPYDQSQISD..LISSMQQNWPTLACPS....G.....SGS..T 
REMARK RNS2_ANTHI                79 NC.R.DTSADVLKITDKGLIQDLAVHWPDLT..RRQRKV.....PGQ..K 
REMARK RNS3_ARATH                71 NCNP.DSRFDDLRVSD..LMSDLQREWPTLS..C....P.....SNDGMK 
REMARK RNS2_NICAL                66 YCDR.SKPYNMFTDGK..KKNDLDERWPDLT..K....TKFDSLDKQ..A 
REMARK    
REMARK RNMC_MOMCH                81 FWSHEWTKHGTCSESTF.NQAAYFKLAVDMRNNYDIIGALRPHAAGPNGR 
REMARK RNS1_ARATH               115 FWEHEWEKHGTCSESVI.DQHEYFQTALNLKQKTNLLGALTKAGINPDGK 
REMARK RNLE_LYCES               114 FWSHEWEKHGTCAESVLTNQHAYFKKALDLKNQIDLLSILQGADIHPDGE 
REMARK RNS2_ANTHI               118 FWVTQWKKHGACALPMY.SFNDYFVKALELKKRNNVLDMLSRKSLTPGDQ 
REMARK RNS3_ARATH               107 FWTHEWEKHGTCAESEL.DQHDYFEAGLKLKQKANLLHALTNAGIKPDDK 
REMARK RNS2_NICAL               105 FWKDEYVKHGTCCSDKF.DREQYFDLAMTLRDKFDLLSSLRNHGIS.RGF 
REMARK    
REMARK RNMC_MOMCH               130 TKSRQAIKGFLKAKFGKFPGLRCRTDPQTKVSYLVQVVACFAQDGSTLID 
REMARK RNS1_ARATH               164 SYSLESIRDSIKESIGFTPWVECNRDGSGNSQ.LYQVYLCVDRSGSGLIE 
REMARK RNLE_LYCES               164 SYDLVNIRNAIKSAIGYTPWIQCNVD.QSGNSQLYQVYICVDGSGSSLIE 
REMARK RNS2_ANTHI               167 RVDVSDVNGAITKVTGGIAILKCPE......GYLTEVIICFDPSGFPVID 
REMARK RNS3_ARATH               156 FYEMKDIENTIKQVVGFAPGIECNKDSSHNSQ.LYQIYLCVDTSASKFIN 
REMARK RNS2_NICAL               153 SYTVQNLNNTIKAITGGFPNLTC.....SRLRELKEIGICFDETVKNVID 
REMARK    
REMARK RNMC_MOMCH               180 C...TR...DTCGANFIF 
REMARK RNS1_ARATH               213 CPVFPH...GKCGAEIEF 
REMARK RNLE_LYCES               213 C...PIFPGGKCGTSIEF 
REMARK RNS2_ANTHI               211 C...P............. 
REMARK RNS3_ARATH               205 C...P............. 
REMARK RNS2_NICAL               198 C...P............. 
REMARK    
REMARK    
REMARK Search results: 
REMARK           Name               ZScore Score Length   Documentation .. 
REMARK pdb90:1rthA               +   6.27   7.20  543. ! Resolution=2.20  543 residues MOL_ID: 1; 
REMARK pdb90:1har                +   5.48   6.68  196. !  Resolution=2.20  196 residues HIV-1 REVERSE TRANSCRIPTASE (AMINO-TERMINAL HALF) 
REMARK pdb90:6fd1                +   4.53   6.06  106. !  Resolution=1.35  106 residues MOL_ID: 1; 
REMARK pdb90:3pte                +   4.47   6.02  347. !  Resolution=1.60  347 residues D-ALANYL-D-ALANINE CARBOXYPEPTIDASE/TRANSPEPTIDAS 
REMARK 
REMARK Alignment: 
REMARK    
REMARK t0082.pep                  1 FDSFWFVQQWPPAVCS.FQKSGSCPGSGLRT..FTIHGLWPQ.QS..GTS 
REMARK 1RTHA                      1 ................PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKAL 
REMARK   Consensus                1 FDYFFFVLQWPGTYCD.IKHCCCYPTRGKPQADFTIHGLWPDYKD..GSM 
REMARK    
REMARK t0082.pep                 45 LTNC..PGSPFDITKISH..........LQSQLNTLWPNVL.....RANN 
REMARK 1RTHA                     35 VEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRT 
REMARK   Consensus               51 LNHCDRQDKPYDMLKIGDK........GLMDDLDQHWPDLTKRRCPRVDG 
REMARK    
REMARK t0082.pep                 78 QQFWSHEWTKHGTCSESTF.......NQAAYFKLAVDMRNNYDIIGALRP 
REMARK 1RTHA                     85 QDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPS 
REMARK   Consensus              101 QKFWTHEWDKHGTCCEPMFT......DHHEYFDMGLDLRDKYDLLGMLRR 
REMARK    
REMARK t0082.pep                121 HAAGPNGRTKSRQAIKGFLKAKFGKFPGLRCRTDPQTKVSYLVQVVACFA 
REMARK 1RTHA                    135 INNETPGIRYQYNVLPQGWKGSPAIFQSSMT............KILEPFR 
REMARK   Consensus              151 HGITPDGKKYDMQDIKGTIKEVIGGFPSLKCPKDPQSRLRYLFQVYICFD 
REMARK    
REMARK t0082.pep                171 QDGSTLIDCTR...DTC.GANFIF 
REMARK 1RTHA                    173 KQNPDIVIYQ.YMDDLYVGSDLEI 
REMARK   Consensus              201 PTGKPLIDCPRFPHGKC.GADFIF 
REMARK    
MODEL 1  
PARENT 1RTHA 
F  17    I   2     
Q  18    S   3     
K  19    P   4     
S  20    I   5     
G  21    E   6     
S  22    T   7     
C  23    V   8     
P  24    P   9     
G  25    V  10     
S  26    K  11     
G  27    L  12     
L  28    K  13     
R  29    P  14     
T  30    G  15     
F  31    G  18     
T  32    P  19     
I  33    K  20     
H  34    V  21     
G  35    K  22     
L  36    Q  23     
W  37    W  24     
P  38    P  25     
Q  39    L  26     
Q  40    E  28     
S  41    E  29     
G  42    K  32     
T  43    A  33     
S  44    L  34     
L  45    V  35     
T  46    E  36     
N  47    I  37     
C  48    C  38     
P  49    M  41     
G  50    E  42     
S  51    K  43     
P  52    E  44     
F  53    G  45     
D  54    K  46     
I  55    I  47     
T  56    S  48     
K  57    K  49     
I  58    I  50     
S  59    G  51     
H  60    P  52     
L  61    I  63     
Q  62    K  64     
S  63    K  65     
Q  64    K  66     
L  65    D  67     
N  66    S  68     
T  67    T  69     
L  68    K  70     
W  69    W  71     
P  70    R  72     
N  71    K  73     
V  72    L  74     
L  73    V  75     
R  74    N  81     
A  75    K  82     
N  76    R  83     
N  77    T  84     
Q  78    Q  85     
Q  79    D  86     
F  80    F  87     
W  81    W  88     
S  82    E  89     
H  83    V  90     
E  84    Q  91     
W  85    L  92     
T  86    G  93     
K  87    I  94     
H  88    P  95     
G  89    H  96     
T  90    P  97     
C  91    A  98     
S  92    G  99     
E  93    L 100     
S  94    K 101     
T  95    K 102     
F  96    K 103     
N  97    V 111     
Q  98    G 112     
A  99    D 113     
A 100    A 114     
Y 101    Y 115     
F 102    F 116     
K 103    S 117     
L 104    V 118     
A 105    P 119     
V 106    L 120     
D 107    D 121     
M 108    E 122     
R 109    D 123     
N 110    F 124     
N 111    R 125     
Y 112    K 126     
D 113    Y 127     
I 114    T 128     
I 115    A 129     
G 116    F 130     
A 117    T 131     
L 118    I 132     
R 119    P 133     
P 120    S 134     
H 121    I 135     
A 122    N 136     
A 123    N 137     
G 124    E 138     
P 125    T 139     
N 126    P 140     
G 127    G 141     
R 128    I 142     
T 129    R 143     
K 130    Y 144     
S 131    Q 145     
R 132    Y 146     
Q 133    N 147     
A 134    V 148     
I 135    L 149     
K 136    P 150     
G 137    Q 151     
F 138    G 152     
L 139    W 153     
K 140    K 154     
A 141    G 155     
K 142    S 156     
F 143    P 157     
G 144    A 158     
K 145    I 159     
F 146    F 160     
P 147    Q 161     
G 148    S 162     
L 149    S 163     
R 150    M 164     
C 151    T 165     
Q 164    K 166     
V 165    I 167     
V 166    L 168     
A 167    E 169     
C 168    P 170     
F 169    F 171     
A 170    R 172     
Q 171    K 173     
D 172    Q 174     
G 173    N 175     
S 174    P 176     
T 175    D 177     
L 176    I 178     
I 177    V 179     
D 178    I 180     
C 179    Y 181     
T 180    Q 182     
D 182    D 186     
T 183    L 187     
C 184    Y 188     
G 185    G 190     
A 186    S 191     
N 187    D 192     
F 188    L 193     
I 189    E 194     
F 190    I 195     
TER 
END 
