BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 022267
(300 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PBH|A Chain A, Crystal Structure Of Human Recombinant Procathepsin B At
3.2 Angstrom Resolution
pdb|2PBH|A Chain A, Crystal Structure Of Human Procathepsin B At 3.3 Angstrom
Resolution
pdb|3PBH|A Chain A, Refined Crystal Structure Of Human Procathepsin B At 2.5
Angstrom Resolution
Length = 317
Score = 194 bits (494), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 114/283 (40%), Positives = 154/283 (54%), Gaps = 30/283 (10%)
Query: 36 HILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV---KPTPKGLLLGVPVKTH 92
H L D ++ VN+ W+A N F N + K L G P P ++
Sbjct: 8 HPLSDELVNYVNKR-NTTWQAGHN--FYNVDMSYLKRLCGTFLGGPKPPQRVM------F 58
Query: 93 DKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVN 152
+ LKLP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 59 TEDLKLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVS 118
Query: 153 XXXXXX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH---- 199
YP AW ++ G+V+ C PY C H
Sbjct: 119 AEDLLTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNG 177
Query: 200 --PGCEPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSF 256
P C TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F
Sbjct: 178 SRPPCTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAF 237
Query: 257 TVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+VY DF YKSGVY+H+TG++MGGHA++++GWG ++G YW+
Sbjct: 238 SVYSDFLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWL 279
>pdb|3AI8|B Chain B, Cathepsin B In Complex With The Nitroxoline
pdb|3AI8|A Chain A, Cathepsin B In Complex With The Nitroxoline
Length = 256
Score = 185 bits (469), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 98/219 (44%), Positives = 130/219 (59%), Gaps = 16/219 (7%)
Query: 96 LKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXX 155
LKLP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 1 LKLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAED 60
Query: 156 XXX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPG 201
YP AW ++ G+V+ C PY S P
Sbjct: 61 LLTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPP 120
Query: 202 CEPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYE 260
C TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY
Sbjct: 121 CTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYS 180
Query: 261 DFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
DF YKSGVY+H+TG++MGGHA++++GWG ++G YW+
Sbjct: 181 DFLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWL 218
>pdb|1MIR|A Chain A, Rat Procathepsin B
pdb|1MIR|B Chain B, Rat Procathepsin B
Length = 322
Score = 184 bits (466), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 113/282 (40%), Positives = 152/282 (53%), Gaps = 28/282 (9%)
Query: 36 HILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLG-VKPTPKGLLLGVPVKT-HD 93
H L D +I +N+ W+A RN F N + K L G V PK +P +
Sbjct: 7 HPLSDDMINYINKQ-NTTWQAGRN--FYNVDISYLKKLCGTVLGGPK-----LPERVGFS 58
Query: 94 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSV 151
+ + LP+SFDAR W C TI++I DQG CGS WAFGAVEA+SDR CIH +N+ +S
Sbjct: 59 EDINLPESFDAREQWSNCPTIAQIRDQGSCGSSWAFGAVEAMSDRICIHTNGRVNVEVSA 118
Query: 152 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH----- 199
YP AW ++ G+V+ C PY C H
Sbjct: 119 EDLLTCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGA 177
Query: 200 -PGCEPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFT 257
P C TPKC + C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FT
Sbjct: 178 RPPCTGEGDTPKCNKMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFT 237
Query: 258 VYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
V+ DF YKSGVYKH GDVMGGHA++++GWG ++G YW+
Sbjct: 238 VFSDFLTYKSGVYKHEAGDVMGGHAIRILGWGI-ENGVPYWL 278
>pdb|1GMY|A Chain A, Cathepsin B Complexed With Dipeptidyl Nitrile Inhibitor
pdb|1GMY|B Chain B, Cathepsin B Complexed With Dipeptidyl Nitrile Inhibitor
pdb|1GMY|C Chain C, Cathepsin B Complexed With Dipeptidyl Nitrile Inhibitor
Length = 261
Score = 182 bits (463), Expect = 2e-46, Method: Compositional matrix adjust.
Identities = 98/219 (44%), Positives = 130/219 (59%), Gaps = 18/219 (8%)
Query: 97 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 156
KLP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 1 KLPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDL 60
Query: 157 XX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PG 201
YP AW ++ G+V+ C PY C H P
Sbjct: 61 LTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNGSRPP 119
Query: 202 CEPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYE 260
C TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY
Sbjct: 120 CTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYS 179
Query: 261 DFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
DF YKSGVY+H+TG++MGGHA++++GWG ++G YW+
Sbjct: 180 DFLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWL 217
>pdb|3CBJ|A Chain A, Chagasin-cathepsin B Complex
pdb|3CBK|A Chain A, Chagasin-Cathepsin B
Length = 266
Score = 181 bits (460), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 97/221 (43%), Positives = 131/221 (59%), Gaps = 16/221 (7%)
Query: 94 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 153
+ LKLP SFDAR WPQC TI I DQG CGS WAFGAVEA+SDR CIH ++S+ V+
Sbjct: 3 EDLKLPASFDAREQWPQCPTIKEIRDQGSCGSAWAFGAVEAISDRICIHTNAHVSVEVSA 62
Query: 154 XXXXX--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH----- 199
YP AW ++ G+V+ C PY +H
Sbjct: 63 EDLLTCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEAHVNGAR 122
Query: 200 PGCEPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV 258
P C TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+V
Sbjct: 123 PPCTGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSV 182
Query: 259 YEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
Y DF YKSGVY+H+TG++MGGHA++++GWG ++G YW+
Sbjct: 183 YSDFLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWL 222
>pdb|3K9M|A Chain A, Cathepsin B In Complex With Stefin A
pdb|3K9M|B Chain B, Cathepsin B In Complex With Stefin A
Length = 254
Score = 181 bits (460), Expect = 4e-46, Method: Compositional matrix adjust.
Identities = 97/218 (44%), Positives = 129/218 (59%), Gaps = 18/218 (8%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH ++S+ V+
Sbjct: 1 LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHTNAHVSVEVSAEDLL 60
Query: 158 X--XXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGC 202
YP AW ++ G+V+ C PY C H P C
Sbjct: 61 TCCGSMCGDGCNGGYPAEAWNFWTRKGLVSGGLYESHVGCRPY-SIPPCEHHVNGSRPPC 119
Query: 203 EPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED 261
TPKC + C + ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY D
Sbjct: 120 TGEGDTPKCSKICEPGYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSD 179
Query: 262 FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
F YKSGVY+H+TG++MGGHA++++GWG ++G YW+
Sbjct: 180 FLLYKSGVYQHVTGEMMGGHAIRILGWGV-ENGTPYWL 216
>pdb|1CPJ|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
pdb|1CPJ|B Chain B, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
pdb|1THE|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B- Inhibitor Complex: Implications For
Structure-Based Inhibitor Design
pdb|1THE|B Chain B, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B- Inhibitor Complex: Implications For
Structure-Based Inhibitor Design
Length = 260
Score = 177 bits (448), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 96/222 (43%), Positives = 128/222 (57%), Gaps = 18/222 (8%)
Query: 94 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSV 151
+ + LP+SFDAR W C TI++I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 3 EDINLPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSA 62
Query: 152 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH----- 199
YP AW ++ G+V+ C PY C H
Sbjct: 63 EDLLTCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGA 121
Query: 200 -PGCEPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFT 257
P C TPKC + C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FT
Sbjct: 122 RPPCTGEGDTPKCNKMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFT 181
Query: 258 VYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
V+ DF YKSGVYKH GDVMGGHA++++GWG ++G YW+
Sbjct: 182 VFSDFLTYKSGVYKHEAGDVMGGHAIRILGWGI-ENGVPYWL 222
>pdb|1ITO|A Chain A, Crystal Structure Analysis Of Bovine Spleen Cathepsin B-
E64c Complex
pdb|2DC6|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca073 Complex
pdb|2DC7|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca042 Complex
pdb|2DC8|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca059 Complex
pdb|2DC9|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca074me Complex
pdb|2DCA|A Chain A, X-ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-ca075 Complex
pdb|2DCB|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca076 Complex
pdb|2DCC|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca077 Complex
pdb|2DCD|A Chain A, X-Ray Crystal Structure Analysis Of Bovine Spleen
Cathepsin B-Ca078 Complex
Length = 256
Score = 176 bits (447), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 93/218 (42%), Positives = 128/218 (58%), Gaps = 18/218 (8%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXX 155
LP+SFDAR WP C TI I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 1 LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDML 60
Query: 156 XXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGC 202
+P AW ++ G+V+ C PY C H P C
Sbjct: 61 TCCGGECGDGCNGGFPSGAWNFWTKKGLVSGGLYNSHVGCRPY-SIPPCEHHVNGSRPPC 119
Query: 203 EPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED 261
TPKC + C + ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY D
Sbjct: 120 TGEGDTPKCSKTCEPGYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSD 179
Query: 262 FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
F YKSGVY+H++G++MGGHA++++GWG ++G YW+
Sbjct: 180 FLLYKSGVYQHVSGEIMGGHAIRILGWGV-ENGTPYWL 216
>pdb|1CTE|A Chain A, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
pdb|1CTE|B Chain B, Crystal Structures Of Recombinant Rat Cathepsin B And A
Cathepsin B-Inhibitor Complex: Implications For
Structure- Based Inhibitor Design
Length = 254
Score = 175 bits (444), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 96/218 (44%), Positives = 126/218 (57%), Gaps = 18/218 (8%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXX 155
LP+SFDAR W C TI++I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 1 LPESFDAREQWSNCPTIAQIRDQGSCGSCWAFGAVEAMSDRICIHTNGRVNVEVSAEDLL 60
Query: 156 XXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGC 202
YP AW ++ G+V+ C PY C H P C
Sbjct: 61 TCCGIQCGDGCNGGYPSGAWNFWTRKGLVSGGVYNSHIGCLPYTIPP-CEHHVNGARPPC 119
Query: 203 EPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED 261
TPKC + C + ++ KHY ++Y ++ ++IMAEIYKNGPVE +FTV+ D
Sbjct: 120 TGEGDTPKCNKMCEAGYSTSYKEDKHYGYTSYSVSDSEKEIMAEIYKNGPVEGAFTVFSD 179
Query: 262 FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
F YKSGVYKH GDVMGGHA++++GWG ++G YW+
Sbjct: 180 FLTYKSGVYKHEAGDVMGGHAIRILGWGI-ENGVPYWL 216
>pdb|1QDQ|A Chain A, X-Ray Crystal Structure Of Bovine Cathepsin B-Ca074
Complex
Length = 253
Score = 175 bits (443), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 93/218 (42%), Positives = 127/218 (58%), Gaps = 18/218 (8%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLSVNXXX 155
LP+SFDAR WP C TI I DQG CGSCWAFGAVEA+SDR CIH +N+ +S
Sbjct: 1 LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIHSNGRVNVEVSAEDML 60
Query: 156 XXXXXXXXXXXXXXYPISAWRYFVHHGVVTEE-------CDPYFDSTGCSH------PGC 202
P AW ++ G+V+ C PY C H P C
Sbjct: 61 TCCGGECGDGCNGGEPSGAWNFWTKKGLVSGGLYNSHVGCRPY-SIPPCEHHVNGSRPPC 119
Query: 203 EPAYPTPKCVRKCVKK-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED 261
TPKC + C + ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY D
Sbjct: 120 TGEGDTPKCSKTCEPGYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSD 179
Query: 262 FAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
F YKSGVY+H++G++MGGHA++++GWG ++G YW+
Sbjct: 180 FLLYKSGVYQHVSGEIMGGHAIRILGWGV-ENGTPYWL 216
>pdb|3QSD|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With Ca074 Inhibitor
pdb|3S3Q|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11017 Inhibitor
pdb|3S3R|A Chain A, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
pdb|3S3R|B Chain B, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
pdb|3S3R|C Chain C, Structure Of Cathepsin B1 From Schistosoma Mansoni In
Complex With K11777 Inhibitor
Length = 254
Score = 166 bits (419), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 95/228 (41%), Positives = 126/228 (55%), Gaps = 34/228 (14%)
Query: 96 LKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG--MNLSLS-VN 152
+++P SFD+R WP+C +I+ I DQ CGSCWAFGAVEA+SDR CI G N+ LS V+
Sbjct: 1 VEIPSSFDSRKKWPRCKSIATIRDQSRCGSCWAFGAVEAMSDRSCIQSGGKQNVELSAVD 60
Query: 153 XXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEP-------- 204
P AW Y+V G+VT S+ +H GCEP
Sbjct: 61 LLSCCESCGLGCEGGILGP--AWDYWVKEGIVT-------GSSKENHAGCEPYPFPKCEH 111
Query: 205 ------------AYPTPKCVRKCVKKNQL-WRNSKHYSISAYRINSDPEDIMAEIYKNGP 251
Y TP+C + C KK + + KH S+Y + +D + I EI K GP
Sbjct: 112 HTKGKYPPCGSKIYKTPRCKQTCQKKYKTPYTQDKHRGKSSYNVKNDEKAIQKEIMKYGP 171
Query: 252 VEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
VE FTVYEDF +YKSG+YKHITG+ +GGHA+++IGWG + YW+
Sbjct: 172 VEAGFTVYEDFLNYKSGIYKHITGETLGGHAIRIIGWGVENKA-PYWL 218
>pdb|4HWY|A Chain A, Trypanosoma Brucei Procathepsin B Solved From 40 Fs
Free-electron Laser Pulse Data By Serial Femtosecond
X-ray Crystallography
Length = 340
Score = 156 bits (394), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/276 (35%), Positives = 133/276 (48%), Gaps = 16/276 (5%)
Query: 34 DSHILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV--KPTPKGLLLGVPVKT 91
D+ +L + + VN + WKA + N T+ + K L GV K +L
Sbjct: 28 DAPVLSKAFVDRVNRLNRGIWKAKYDGVMQNITLREAKRLNGVIKKNNNASILPKRRFTE 87
Query: 92 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 151
+ LP SFD+ AWP C TI +I DQ CGSCWA A A+SDRFC G+
Sbjct: 88 EEARAPLPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHIS 147
Query: 152 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSH---------PGC 202
P AW YF G+V++ C PY CSH P
Sbjct: 148 AGDLLACCSDCGDGCNGGDPDRAWAYFSSTGLVSDYCQPY-PFPHCSHHSKSKNGYPPCS 206
Query: 203 EPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDF 262
+ + TPKC C N + S ++Y + + +D M E++ GP EV+F VYEDF
Sbjct: 207 QFNFDTPKCNYTCDDPTIPVVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDF 263
Query: 263 AHYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 298
Y SGVY H++G +GGHAV+L+GWGTS +G YW
Sbjct: 264 IAYNSGVYHHVSGQYLGGHAVRLVGWGTS-NGVPYW 298
>pdb|3HHI|A Chain A, Crystal Structure Of Cathepsin B From T. Brucei In Complex
With Ca074
pdb|3HHI|B Chain B, Crystal Structure Of Cathepsin B From T. Brucei In Complex
With Ca074
Length = 325
Score = 155 bits (393), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 98/275 (35%), Positives = 131/275 (47%), Gaps = 14/275 (5%)
Query: 34 DSHILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV--KPTPKGLLLGVPVKT 91
D+ +L + + VN + WKA + N T+ + K L GV K +L
Sbjct: 6 DAPVLSKAFVDRVNRLNRGIWKAKYDGVMQNITLREAKRLNGVIKKNNNASILPKRRFTE 65
Query: 92 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 151
+ LP SFD+ AWP C TI +I DQ CGSCWA A A+SDRFC G+
Sbjct: 66 EEARAPLPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHIS 125
Query: 152 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP---- 207
P AW YF G+V++ C PY H + YP
Sbjct: 126 AGDLLACCSDCGDGCNGGDPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQ 185
Query: 208 ----TPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFA 263
TPKC C N + S ++Y + + +D M E++ GP EV+F VYEDF
Sbjct: 186 FNFDTPKCDYTCDDPTIPVVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFI 242
Query: 264 HYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 298
Y SGVY H++G +GGHAV+L+GWGTS +G YW
Sbjct: 243 AYNSGVYHHVSGQYLGGHAVRLVGWGTS-NGVPYW 276
>pdb|3MOR|A Chain A, Crystal Structure Of Cathepsin B From Trypanosoma Brucei
pdb|3MOR|B Chain B, Crystal Structure Of Cathepsin B From Trypanosoma Brucei
Length = 317
Score = 155 bits (393), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 98/275 (35%), Positives = 131/275 (47%), Gaps = 14/275 (5%)
Query: 34 DSHILQDSIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGV--KPTPKGLLLGVPVKT 91
D+ +L + + VN + WKA + N T+ + K L GV K +L
Sbjct: 5 DAPVLSKAFVDRVNRLNRGIWKAKYDGVMQNITLREAKRLNGVIKKNNNASILPKRRFTE 64
Query: 92 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 151
+ LP SFD+ AWP C TI +I DQ CGSCWA A A+SDRFC G+
Sbjct: 65 EEARAPLPSSFDSAEAWPNCPTIPQIADQSACGSCWAVAAASAMSDRFCTMGGVQDVHIS 124
Query: 152 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYP---- 207
P AW YF G+V++ C PY H + YP
Sbjct: 125 AGDLLACCSDCGDGCNGGDPDRAWAYFSSTGLVSDYCQPYPFPHCSHHSKSKNGYPPCSQ 184
Query: 208 ----TPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFA 263
TPKC C N + S ++Y + + +D M E++ GP EV+F VYEDF
Sbjct: 185 FNFDTPKCNYTCDDPTIPVVNYR--SWTSYALQGE-DDYMRELFFRGPFEVAFDVYEDFI 241
Query: 264 HYKSGVYKHITGDVMGGHAVKLIGWGTSDDGEDYW 298
Y SGVY H++G +GGHAV+L+GWGTS +G YW
Sbjct: 242 AYNSGVYHHVSGQYLGGHAVRLVGWGTS-NGVPYW 275
>pdb|1HUC|B Chain B, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1HUC|D Chain D, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1CSB|B Chain B, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|1CSB|E Chain E, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|2IPP|B Chain B, Crystal Structure Of The Tetragonal Form Of Human Liver
Cathepsin B
Length = 205
Score = 113 bits (282), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 59/143 (41%), Positives = 86/143 (60%), Gaps = 14/143 (9%)
Query: 170 YPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGCEPAYPTPKCVRKCVK 217
YP AW ++ G+V+ C PY S P C TPKC + C
Sbjct: 26 YPAEAWNFWTRKGLVSGGLYESHVGCRPYSIPPCEHHVNGSRPPCTGEGDTPKCSKICEP 85
Query: 218 K-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGD 276
+ ++ KHY ++Y +++ +DIMAEIYKNGPVE +F+VY DF YKSGVY+H+TG+
Sbjct: 86 GYSPTYKQDKHYGYNSYSVSNSEKDIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVTGE 145
Query: 277 VMGGHAVKLIGWGTSDDGEDYWV 299
+MGGHA++++GWG ++G YW+
Sbjct: 146 MMGGHAIRILGWGV-ENGTPYWL 167
>pdb|1SP4|B Chain B, Crystal Structure Of Ns-134 In Complex With Bovine
Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor
Extends Along The Whole Active Site Cleft
Length = 205
Score = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 56/143 (39%), Positives = 86/143 (60%), Gaps = 14/143 (9%)
Query: 170 YPISAWRYFVHHGVVTEE-------CDPYF-----DSTGCSHPGCEPAYPTPKCVRKCVK 217
+P AW ++ G+V+ C PY S P C TPKC + C
Sbjct: 27 FPSGAWNFWTKKGLVSGGLYNSHVGCRPYSIPPCEHHVNGSRPPCTGEGDTPKCNKTCEP 86
Query: 218 K-NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGD 276
+ ++ KH+ S+Y + ++ ++IMAEIYKNGPVE +F+VY DF YKSGVY+H++G+
Sbjct: 87 GYSPSYKEDKHFGCSSYSVANNEKEIMAEIYKNGPVEGAFSVYSDFLLYKSGVYQHVSGE 146
Query: 277 VMGGHAVKLIGWGTSDDGEDYWV 299
+MGGHA++++GWG ++G YW+
Sbjct: 147 IMGGHAIRILGWGV-ENGTPYWL 168
>pdb|1HUC|A Chain A, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1HUC|C Chain C, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1CSB|A Chain A, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|1CSB|D Chain D, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|2IPP|A Chain A, Crystal Structure Of The Tetragonal Form Of Human Liver
Cathepsin B
Length = 47
Score = 82.4 bits (202), Expect = 3e-16, Method: Composition-based stats.
Identities = 35/45 (77%), Positives = 36/45 (80%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIH 142
LP SFDAR WPQC TI I DQG CGSCWAFGAVEA+SDR CIH
Sbjct: 1 LPASFDAREQWPQCPTIKEIRDQGSCGSCWAFGAVEAISDRICIH 45
>pdb|1SP4|A Chain A, Crystal Structure Of Ns-134 In Complex With Bovine
Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor
Extends Along The Whole Active Site Cleft
Length = 48
Score = 80.9 bits (198), Expect = 8e-16, Method: Composition-based stats.
Identities = 34/45 (75%), Positives = 36/45 (80%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIH 142
LP+SFDAR WP C TI I DQG CGSCWAFGAVEA+SDR CIH
Sbjct: 1 LPESFDAREQWPNCPTIKEIRDQGSCGSCWAFGAVEAISDRICIH 45
>pdb|3PDF|A Chain A, Discovery Of Novel Cyanamide-Based Inhibitors Of Cathepsin
C
Length = 441
Score = 77.4 bits (189), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 72/273 (26%), Positives = 118/273 (43%), Gaps = 35/273 (12%)
Query: 41 SIIKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGVK----PTPKGLLLGVPVKTHDKSL 96
+ +K +N K+ W A ++ T+G G P PK L ++ K L
Sbjct: 149 NFVKAINAIQKS-WTATTYMEYETLTLGDMIRRSGGHSRKIPRPKPAPLTAEIQ--QKIL 205
Query: 97 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 156
LP S+D R+ + +S + +Q CGSC++F ++ L R I + + ++
Sbjct: 206 FLPTSWDWRNV-HGINFVSPVRNQASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEV 264
Query: 157 XXXXXXXXXXXXXYP-ISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKC 215
+P + A +Y G+V E C PY TG P C
Sbjct: 265 VSCSQYAQGCEGGFPYLIAGKYAQDFGLVEEACFPY---TGTDSP--------------C 307
Query: 216 VKKNQLWR--NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKH- 272
K +R +S+++ + + + + E+ +GP+ V+F VY+DF HYK G+Y H
Sbjct: 308 KMKEDCFRYYSSEYHYVGGFYGGCNEALMKLELVHHGPMAVAFEVYDDFLHYKKGIYHHT 367
Query: 273 -----ITGDVMGGHAVKLIGWGT-SDDGEDYWV 299
+ HAV L+G+GT S G DYW+
Sbjct: 368 GLRDPFNPFELTNHAVLLVGYGTDSASGMDYWI 400
>pdb|1EF7|A Chain A, Crystal Structure Of Human Cathepsin X
pdb|1EF7|B Chain B, Crystal Structure Of Human Cathepsin X
Length = 242
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 58/210 (27%), Positives = 83/210 (39%), Gaps = 21/210 (10%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGH----CGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 153
LPKS+D R+ + I H CGSCWA + A++DR I ++
Sbjct: 1 LPKSWDWRNV--DGVNYASITRNQHIPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLS 58
Query: 154 XXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKC-- 211
+S W Y HG+ E C+ Y C+ C
Sbjct: 59 VQNVIDCGNAGSCEGGNDLSVWDYAHQHGIPDETCNNYQ----AKDQECDKFNQCGTCNE 114
Query: 212 VRKC--VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGV 269
++C ++ LWR + S+S E +MAEIY NGP+ E A+Y G+
Sbjct: 115 FKECHAIRNYTLWRVGDYGSLSG------REKMMAEIYANGPISCGIMATERLANYTGGI 168
Query: 270 YKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
Y H V + GWG S DG +YW+
Sbjct: 169 YAEYQDTTYINHVVSVAGWGIS-DGTEYWI 197
>pdb|1DEU|A Chain A, Crystal Structure Of Human Procathepsin X: A Cysteine
Protease With The Proregion Covalently Linked To The
Active Site Cysteine
pdb|1DEU|B Chain B, Crystal Structure Of Human Procathepsin X: A Cysteine
Protease With The Proregion Covalently Linked To The
Active Site Cysteine
Length = 277
Score = 74.3 bits (181), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 58/208 (27%), Positives = 81/208 (38%), Gaps = 17/208 (8%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGH----CGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 153
LPKS+D R+ + I H CGSCWA + A++DR I ++
Sbjct: 36 LPKSWDWRNV--DGVNYASITRNQHIPQYCGSCWAHASTSAMADRINIKRKGAWPSTLLS 93
Query: 154 XXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF--DSTGCSHPGCEPAYPTPKC 211
+S W Y HG+ E C+ Y D C +C
Sbjct: 94 VQNVIDCGNAGSCEGGNDLSVWDYAHQHGIPDETCNNYQAKDQECDKFNQCGTCNEFKEC 153
Query: 212 VRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK 271
++ LWR + S+S E +MAEIY NGP+ E A+Y G+Y
Sbjct: 154 --HAIRNYTLWRVGDYGSLSG------REKMMAEIYANGPISCGIMATERLANYTGGIYA 205
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
H V + GWG S DG +YW+
Sbjct: 206 EYQDTTYINHVVSVAGWGIS-DGTEYWI 232
>pdb|1JQP|A Chain A, Dipeptidyl Peptidase I (Cathepsin C), A Tetrameric
Cysteine Protease Of The Papain Family
Length = 438
Score = 70.9 bits (172), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 70/283 (24%), Positives = 122/283 (43%), Gaps = 40/283 (14%)
Query: 32 KLDSHILQDSIIKEVNENPKAGWKAARNPQFSNYTV-------GQFKHLLGVKPTPKGLL 84
+L SH + +K +N K+ W A ++ ++ G +L KP P
Sbjct: 142 RLYSH--HHNFVKAINSVQKS-WTATTYRRYEKLSIRDLIRRSGHSGRILRPKPAP---- 194
Query: 85 LGVPVKTHDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG 144
+ + + L LP+S+D R+ + +S + +Q CGSC++F ++ L R I
Sbjct: 195 --ITDEIQQQILSLPESWDWRNV-RGINFVSPVRNQESCGSCYSFASLGMLEARIRILTN 251
Query: 145 MNLSLSVNXXXXXXXXXXXXXXXXXYP-ISAWRYFVHHGVVTEECDPYFDSTGCSHPGCE 203
+ + ++ +P + A +Y GVV E C PY +
Sbjct: 252 NSQTPILSPQEVVSCSPYAQGCDGGFPYLIAGKYAQDFGVVEENCFPYTATDA------- 304
Query: 204 PAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFA 263
P P C+R + +S++Y + + + + E+ K+GP+ V+F V++DF
Sbjct: 305 PCKPKENCLR--------YYSSEYYYVGGFYGGCNEALMKLELVKHGPMAVAFEVHDDFL 356
Query: 264 HYKSGVYKH------ITGDVMGGHAVKLIGWGTSD-DGEDYWV 299
HY SG+Y H + HAV L+G+G G DYW+
Sbjct: 357 HYHSGIYHHTGLSDPFNPFELTNHAVLLVGYGKDPVTGLDYWI 399
>pdb|3QJ3|A Chain A, Structure Of Digestive Procathepsin L2 Proteinase From
Tenebrio Molitor Larval Midgut
pdb|3QJ3|B Chain B, Structure Of Digestive Procathepsin L2 Proteinase From
Tenebrio Molitor Larval Midgut
Length = 331
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 62/223 (27%), Positives = 97/223 (43%), Gaps = 35/223 (15%)
Query: 86 GVPVKTHDK-----SLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFC 140
G+P+KT + S++ P SFD W +S + +QG CGS WAF + A+ +
Sbjct: 99 GIPIKTREDLGLNASVRYPASFD----WRDQGMVSPVKNQGSCGSSWAFSSTGAIESQMK 154
Query: 141 IHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHP 200
I G SV+ + A+ Y +G + DS G
Sbjct: 155 IANGAGYDSSVSEQQLVDCVPNALGCSGGWMNDAFTYVAQNGGI--------DSEG---- 202
Query: 201 GCEPAYPTPKCVRKC-VKKNQLWRNSKHYSISAYRINSDP-EDIMAE-IYKNGPVEVSFT 257
AYP C NQ+ +S Y S P E+++A+ + GPV V+F
Sbjct: 203 ----AYPYEMADGNCHYDPNQV-----AARLSGYVYLSGPDENMLADMVATKGPVAVAFD 253
Query: 258 VYEDFAHYKSGVYKHITGDVMG-GHAVKLIGWGTSDDGEDYWV 299
+ F Y GVY + T + HAV ++G+G +++G+DYW+
Sbjct: 254 ADDPFGSYSGGVYYNPTCETNKFTHAVLIVGYG-NENGQDYWL 295
>pdb|2O6X|A Chain A, Crystal Structure Of Procathepsin L1 From Fasciola
Hepatica
Length = 310
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 59/243 (24%), Positives = 99/243 (40%), Gaps = 31/243 (12%)
Query: 61 QFSNYTVGQFK--HLLGVKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRIL 118
QF++ T +FK +L + L GVP + +++++ P D W + ++ +
Sbjct: 55 QFTDMTFEEFKAKYLTEMSRASDILSHGVPYEANNRAV--PDKID----WRESGYVTEVK 108
Query: 119 DQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYF 178
DQG+CGS WAF + ++ + ++S S +A++Y
Sbjct: 109 DQGNCGSGWAFSTTGTMEGQYMKNERTSISFSEQQLVDCSRPWGNNGCGGGLMENAYQYL 168
Query: 179 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISAYRINSD 238
G+ TE PY G +C QL Y ++S
Sbjct: 169 KQFGLETESSYPYTAVEG-----------------QCRYNKQL---GVAKVTGFYTVHSG 208
Query: 239 PE-DIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHIT-GDVMGGHAVKLIGWGTSDDGED 296
E ++ + GP V+ V DF Y+SG+Y+ T + HAV +G+GT G D
Sbjct: 209 SEVELKNLVGAEGPAAVAVDVESDFMMYRSGIYQSQTCSPLRVNHAVLAVGYGTQ-GGTD 267
Query: 297 YWV 299
YW+
Sbjct: 268 YWI 270
>pdb|2FO5|A Chain A, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
pdb|2FO5|B Chain B, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
pdb|2FO5|C Chain C, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
pdb|2FO5|D Chain D, Crystal Structure Of Recombinant Barley Cysteine
Endoprotease B Isoform 2 (Ep-B2) In Complex With
Leupeptin
Length = 262
Score = 57.8 bits (138), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 81/204 (39%), Gaps = 24/204 (11%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP S D W Q ++ + DQG CGSCWAF V ++ I G +SLS
Sbjct: 4 LPPSVD----WRQKGAVTGVKDQGKCGSCWAFSTVVSVEGINAIRTGSLVSLSEQELIDC 59
Query: 158 XXXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+A+ Y ++ G++TE PY + G T R
Sbjct: 60 DTADNDGCQGGLMD-NAFEYIKNNGGLITEAAYPYRAARG-----------TCNVARAAQ 107
Query: 217 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
+ H + A + E+ +A N PV V+ + F Y GV+ G
Sbjct: 108 NSPVVVHIDGHQDVPA-----NSEEDLARAVANQPVSVAVEASGKAFMFYSEGVFTGECG 162
Query: 276 DVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G ++DG+ YW
Sbjct: 163 TEL-DHGVAVVGYGVAEDGKAYWT 185
>pdb|1K3B|B Chain B, Crystal Structure Of Human Dipeptidyl Peptidase I
(Cathepsin C): Exclusion Domain Added To An
Endopeptidase Framework Creates The Machine For
Activation Of Granular Serine Proteases
pdb|2DJG|B Chain B, Re-determination Of The Native Structure Of Human
Dipeptidyl Peptidase I (cathepsin C)
pdb|2DJF|B Chain B, Crystal Structure Of Human Dipeptidyl Peptidase I
(Cathepsin C) In Complex With The Inhibitor Gly-Phe-Chn2
Length = 164
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 79/178 (44%), Gaps = 21/178 (11%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP S+D R+ + +S + +Q CGSC++F ++ L R I + + ++
Sbjct: 1 LPTSWDWRNVH-GINFVSPVRNQASCGSCYSFASMGMLEARIRILTNNSQTPILSPQEVV 59
Query: 158 XXXXXXXXXXXXYP-ISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+P + A +Y G+V E C PY TG P C
Sbjct: 60 SCSQYAQGCEGGFPYLIAGKYAQDFGLVEEACFPY---TGTDSP--------------CK 102
Query: 217 KKNQLWR--NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKH 272
K +R +S+++ + + + + E+ +GP+ V+F VY+DF HYK G+Y H
Sbjct: 103 MKEDCFRYYSSEYHYVGGFYGGCNEALMKLELVHHGPMAVAFEVYDDFLHYKKGIYHH 160
>pdb|1YVB|A Chain A, The Plasmodium Falciparum Cysteine Protease Falcipain-2
pdb|2GHU|A Chain A, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2GHU|B Chain B, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2GHU|C Chain C, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2GHU|D Chain D, Crystal Structure Of Falcipain-2 From Plasmodium
Falciparum
pdb|2OUL|A Chain A, The Structure Of Chagasin In Complex With A Cysteine
Protease Clarifies The Binding Mode And Evolution Of A
New Inhibitor Family
pdb|3BPF|A Chain A, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
pdb|3BPF|B Chain B, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
pdb|3BPF|C Chain C, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
pdb|3BPF|D Chain D, Crystal Structure Of Falcipain-2 With Its Inhibitor, E64
Length = 241
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 51/204 (25%), Positives = 87/204 (42%), Gaps = 32/204 (15%)
Query: 94 KSLKLPKSFD-ARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVN 152
K + ++FD A W S ++ + DQ +CGSCWAF ++ ++ ++ I ++LS
Sbjct: 9 KKYRGEENFDHAAYDWRLHSGVTPVKDQKNCGSCWAFSSIGSVESQYAIRKNKLITLS-- 66
Query: 153 XXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAY---PTP 209
S Y + G++ + + G G P P
Sbjct: 67 -------------EQELVDCSFKNYGCNGGLINNAFEDMIELGGICPDGDYPYVSDAPNL 113
Query: 210 KCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKN-GPVEVSFTVYEDFAHYKSG 268
+ +C +K Y I Y S P++ + E + GP+ +S V +DFA YK G
Sbjct: 114 CNIDRCTEK---------YGIKNYL--SVPDNKLKEALRFLGPISISVAVSDDFAFYKEG 162
Query: 269 VYKHITGDVMGGHAVKLIGWGTSD 292
++ GD + HAV L+G+G +
Sbjct: 163 IFDGECGDQL-NHAVMLVGFGMKE 185
>pdb|3QT4|A Chain A, Structure Of Digestive Procathepsin L 3 Of Tenebrio
Molitor Larval Midgut
Length = 329
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 86/214 (40%), Gaps = 27/214 (12%)
Query: 92 HDKSLKLP-----KSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMN 146
H ++L++P K A W + + +S + DQG CGS W+F A+ + + G
Sbjct: 101 HPENLRMPYVSSKKPLAASVDW-RSNAVSEVKDQGQCGSSWSFSTTGAVEGQLALQRGRL 159
Query: 147 LSLSVNXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAY 206
SLS + SA+ Y +G+++E PY G +
Sbjct: 160 TSLSEQNLIDCSSSYGNAGCDGGWMDSAFSYIHDYGIMSESAYPY------EAQGDYCRF 213
Query: 207 PTPKCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYK 266
+ + V S +Y + + D + + + GPV V+ ++ Y
Sbjct: 214 DSSQSVTTL---------SGYYDLPS----GDENSLADAVGQAGPVAVAIDATDELQFYS 260
Query: 267 SGV-YKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
G+ Y H V ++G+G SD+G+DYW+
Sbjct: 261 GGLFYDQTCNQSDLNHGVLVVGYG-SDNGQDYWI 293
>pdb|1CQD|A Chain A, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
pdb|1CQD|B Chain B, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
pdb|1CQD|C Chain C, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
pdb|1CQD|D Chain D, The 2.1 Angstrom Structure Of A Cysteine Protease With
Proline Specificity From Ginger Rhizome, Zingiber
Officinale
Length = 221
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 86/205 (41%), Gaps = 32/205 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP S D W + + + +QG CGSCWAF V A+ I G +SLS
Sbjct: 3 LPDSID----WRENGAVVPVKNQGGCGSCWAFSTVAAVEGINQIVTGDLISLSEQQLVDC 58
Query: 158 XXXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
P A+++ V++ G+ +EE PY G C P
Sbjct: 59 TTANHGCRGGWMNP--AFQFIVNNGGINSEETYPYRGQDGI----CNSTVNAPVV----- 107
Query: 217 KKNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHIT 274
SI +Y + S E + + N PV V+ DF Y+SG++ +
Sbjct: 108 ------------SIDSYENVPSHNEQSLQKAVANQPVSVTMDAAGRDFQLYRSGIFTG-S 154
Query: 275 GDVMGGHAVKLIGWGTSDDGEDYWV 299
++ HA+ ++G+GT +D +D+W+
Sbjct: 155 CNISANHALTVVGYGTEND-KDFWI 178
>pdb|1AEC|A Chain A, Crystal Structure Of Actinidin-E-64 Complex+
Length = 218
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 57/207 (27%), Positives = 85/207 (41%), Gaps = 33/207 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP D RSA + I QG CG CWAF A+ + I G+ +SLS
Sbjct: 1 LPSYVDWRSA----GAVVDIKSQGECGGCWAFSAIATVEGINKIVTGVLISLSEQELIDC 56
Query: 158 XXXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
Y +++ +++ G+ TEE PY G +C
Sbjct: 57 GRTQNTRGCNGGYITDGFQFIINNGGINTEENYPYTAQDG-------------EC----- 98
Query: 217 KKNQLWRNSKHYSISAYR---INSDPEDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKH 272
N +N K+ +I Y N++ A Y+ PV V+ D F Y SG++
Sbjct: 99 --NVDLQNEKYVTIDTYENVPYNNEWALQTAVTYQ--PVSVALDAAGDAFKQYSSGIFTG 154
Query: 273 ITGDVMGGHAVKLIGWGTSDDGEDYWV 299
G + HAV ++G+GT + G DYW+
Sbjct: 155 PCGTAI-DHAVTIVGYGT-EGGIDYWI 179
>pdb|3D6S|A Chain A, Crystal Structure Of Mite Allergen Der F 1
pdb|3D6S|B Chain B, Crystal Structure Of Mite Allergen Der F 1
pdb|3D6S|C Chain C, Crystal Structure Of Mite Allergen Der F 1
pdb|3RVV|A Chain A, Crystal Structure Of Der F 1 Complexed With Fab 4c1
Length = 223
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 55/212 (25%), Positives = 78/212 (36%), Gaps = 36/212 (16%)
Query: 94 KSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNX 153
S+ +P D RS T++ I QG CGSCWAF V A + + +L LS
Sbjct: 7 NSVNVPSELDLRS----LRTVTPIRMQGGCGSCWAFSGVAATESAYLAYRNTSLDLSEQE 62
Query: 154 XXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVR 213
I Y +GVV E PY +C R
Sbjct: 63 LVDCASQHGCHGDTIPRGIE---YIQQNGVVEERSYPYVAR-------------EQRCRR 106
Query: 214 KCVKKNQLWRNSKHYSISAYRINSDPE-----DIMAEIYKNGPVEVSFTVYEDFAHYKS- 267
NS+HY IS Y P+ + + + + V + F HY
Sbjct: 107 P---------NSQHYGISNYCQIYPPDVKQIREALTQTHTAIAVIIGIKDLRAFQHYDGR 157
Query: 268 GVYKHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ +H G HAV ++G+G S G+DYW+
Sbjct: 158 TIIQHDNGYQPNYHAVNIVGYG-STQGDDYWI 188
>pdb|3P5W|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
Length = 220
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 52/204 (25%), Positives = 82/204 (40%), Gaps = 27/204 (13%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP D RS+ + I DQG CGSCWAF + A+ I G +SLS
Sbjct: 1 LPDYVDWRSS----GAVVDIKDQGQCGSCWAFSTIAAVEGINKIATGDLISLSEQELVDC 56
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 217
+ +++ +++G + E + YP +C
Sbjct: 57 GRTQNTRGCDGGFMTDGFQFIINNGGINTEAN----------------YPYTAEEGQC-- 98
Query: 218 KNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITG 275
N + K+ SI Y + + E + PV V+ +F HY SG++ G
Sbjct: 99 -NLDLQQEKYVSIDTYENVPYNNEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCG 157
Query: 276 DVMGGHAVKLIGWGTSDDGEDYWV 299
+ HAV ++G+GT + G DYW+
Sbjct: 158 TAV-DHAVTIVGYGT-EGGIDYWI 179
>pdb|2G6D|A Chain A, Human Cathepsin S Mutant With Vinyl Sulfone Inhibitor Cra-
14009
Length = 217
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 88/208 (42%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 100
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 ------YDSKYRAATCRKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 181
>pdb|3PNR|A Chain A, Structure Of Pbicp-C In Complex With Falcipain-2
Length = 240
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 50/204 (24%), Positives = 86/204 (42%), Gaps = 32/204 (15%)
Query: 94 KSLKLPKSFD-ARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVN 152
K + ++FD A W S ++ + DQ +CGS WAF ++ ++ ++ I ++LS
Sbjct: 8 KKYRGEENFDHAAYDWRLHSGVTPVKDQKNCGSAWAFSSIGSVESQYAIRKNKLITLS-- 65
Query: 153 XXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAY---PTP 209
S Y + G++ + + G G P P
Sbjct: 66 -------------EQELVDCSFKNYGCNGGLINNAFEDMIELGGICPDGDYPYVSDAPNL 112
Query: 210 KCVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKN-GPVEVSFTVYEDFAHYKSG 268
+ +C +K Y I Y S P++ + E + GP+ +S V +DFA YK G
Sbjct: 113 CNIDRCTEK---------YGIKNYL--SVPDNKLKEALRFLGPISISVAVSDDFAFYKEG 161
Query: 269 VYKHITGDVMGGHAVKLIGWGTSD 292
++ GD + HAV L+G+G +
Sbjct: 162 IFDGECGDQL-NHAVMLVGFGMKE 184
>pdb|3N3G|A Chain A, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As
Cathepsin S Inhibitors: N3, Not N1 Is Critically
Important
pdb|3N3G|B Chain B, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As
Cathepsin S Inhibitors: N3, Not N1 Is Critically
Important
pdb|3N4C|A Chain A, 6-Phenyl-1h-Imidazo[4,5-C]pyridine-4-Carbonitrile As
Cathepsin S Inhibitors
pdb|3N4C|B Chain B, 6-Phenyl-1h-Imidazo[4,5-C]pyridine-4-Carbonitrile As
Cathepsin S Inhibitors
Length = 217
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 88/208 (42%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 100
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 181
>pdb|2FQ9|A Chain A, Cathepsin S With Nitrile Inhibitor
pdb|2FQ9|B Chain B, Cathepsin S With Nitrile Inhibitor
pdb|2FRA|A Chain A, Human Cathepsin S With Cra-27934, A Nitrile Inhibitor
pdb|2FRA|B Chain B, Human Cathepsin S With Cra-27934, A Nitrile Inhibitor
pdb|2FRQ|A Chain A, Human Cathepsin S With Inhibitor Cra-26871
pdb|2FRQ|B Chain B, Human Cathepsin S With Inhibitor Cra-26871
pdb|2FT2|A Chain A, Human Cathepsin S With Inhibitor Cra-29728
pdb|2FT2|B Chain B, Human Cathepsin S With Inhibitor Cra-29728
pdb|2FUD|A Chain A, Human Cathepsin S With Inhibitor Cra-27566
pdb|2FUD|B Chain B, Human Cathepsin S With Inhibitor Cra-27566
pdb|2G7Y|A Chain A, Human Cathepsin S With Inhibitor Cra-16981
pdb|2G7Y|B Chain B, Human Cathepsin S With Inhibitor Cra-16981
Length = 225
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 88/208 (42%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 2 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 57
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 58 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 101
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 102 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 155
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 156 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 182
>pdb|3OVX|A Chain A, Cathepsin S In Complex With A Covalent Inhibitor With An
Aldehyde Warhead
pdb|3OVX|B Chain B, Cathepsin S In Complex With A Covalent Inhibitor With An
Aldehyde Warhead
Length = 218
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 88/208 (42%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 2 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 57
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 58 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 101
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 102 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 155
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 156 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 182
>pdb|2F1G|A Chain A, Cathepsin S In Complex With Non-Covalent
2-(Benzoxazol-2-Ylamino)- Acetamide
pdb|2F1G|B Chain B, Cathepsin S In Complex With Non-Covalent
2-(Benzoxazol-2-Ylamino)- Acetamide
pdb|2HH5|B Chain B, Crystal Structure Of Cathepsin S In Complex With A Zinc
Mediated Non-Covalent Arylaminoethyl Amide
pdb|2HH5|A Chain A, Crystal Structure Of Cathepsin S In Complex With A Zinc
Mediated Non-Covalent Arylaminoethyl Amide
pdb|2H7J|A Chain A, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor.
pdb|2H7J|B Chain B, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor.
pdb|2HXZ|A Chain A, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HXZ|B Chain B, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HXZ|C Chain C, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HHN|A Chain A, Cathepsin S In Complex With Non Covalent Arylaminoethyl
Amide.
pdb|2HHN|B Chain B, Cathepsin S In Complex With Non Covalent Arylaminoethyl
Amide.
pdb|2OP3|A Chain A, The Structure Of Cathepsin S With A Novel 2-
Arylphenoxyacetaldehyde Inhibitor Derived By The
Substrate Activity Screening (Sas) Method
pdb|2OP3|B Chain B, The Structure Of Cathepsin S With A Novel 2-
Arylphenoxyacetaldehyde Inhibitor Derived By The
Substrate Activity Screening (Sas) Method
Length = 220
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 88/208 (42%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 4 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 59
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 60 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 103
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 104 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 157
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 158 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 184
>pdb|1MS6|A Chain A, Dipeptide Nitrile Inhibitor Bound To Cathepsin S.
pdb|2R9M|A Chain A, Cathepsin S Complexed With Compound 15
pdb|2R9M|B Chain B, Cathepsin S Complexed With Compound 15
pdb|2R9N|A Chain A, Cathepsin S Complexed With Compound 26
pdb|2R9N|B Chain B, Cathepsin S Complexed With Compound 26
pdb|2R9O|A Chain A, Cathepsin S Complexed With Compound 8
pdb|2R9O|B Chain B, Cathepsin S Complexed With Compound 8
Length = 222
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 54/208 (25%), Positives = 88/208 (42%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGID---SDASYPYKAMDQKCQ 100
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 181
>pdb|8PCH|A Chain A, Crystal Structure Of Porcine Cathepsin H Determined At 2.1
Angstrom Resolution: Location Of The Mini-Chain
C-Terminal Carboxyl Group Defines Cathepsin H
Aminopeptidase Function
pdb|1NB3|A Chain A, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB3|B Chain B, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB3|C Chain C, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB3|D Chain D, Crystal Structure Of Stefin A In Complex With Cathepsin H:
N-Terminal Residues Of Inhibitors Can Adapt To The
Active Sites Of Endo-And Exopeptidases
pdb|1NB5|A Chain A, Crystal Structure Of Stefin A In Complex With Cathepsin H
pdb|1NB5|B Chain B, Crystal Structure Of Stefin A In Complex With Cathepsin H
pdb|1NB5|C Chain C, Crystal Structure Of Stefin A In Complex With Cathepsin H
pdb|1NB5|D Chain D, Crystal Structure Of Stefin A In Complex With Cathepsin H
Length = 220
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/206 (24%), Positives = 82/206 (39%), Gaps = 29/206 (14%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P S D R + + +S + +QG CGSCW F AL I G LSL+
Sbjct: 2 PPSMDWRK---KGNFVSPVKNQGSCGSCWTFSTTGALESAVAIATGKMLSLAEQQLVDCA 58
Query: 159 XXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 217
P A+ Y ++ G++ E+ PY C + K
Sbjct: 59 QNFNNHGCQGGLPSQAFEYIRYNKGIMGEDTYPYKGQDD-------------HCKFQPDK 105
Query: 218 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK----HI 273
++ + ++ +D E ++ + PV +F V DF Y+ G+Y H
Sbjct: 106 AIAFVKDVANITM------NDEEAMVEAVALYNPVSFAFEVTNDFLMYRKGIYSSTSCHK 159
Query: 274 TGDVMGGHAVKLIGWGTSDDGEDYWV 299
T D + HAV +G+G ++G YW+
Sbjct: 160 TPDKV-NHAVLAVGYG-EENGIPYWI 183
>pdb|1NPZ|A Chain A, Crystal Structures Of Cathepsin S Inhibitor Complexes
pdb|1NPZ|B Chain B, Crystal Structures Of Cathepsin S Inhibitor Complexes
pdb|1NQC|A Chain A, Crystal Structures Of Cathepsin S Inhibitor Complexes
Length = 217
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 88/208 (42%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G ++LS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVTLSAQNLVDC 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 100
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 181
>pdb|1S4V|A Chain A, The 2.0 A Crystal Structure Of The Kdel-Tailed Cysteine
Endopeptidase Functioning In Programmed Cell Death Of
Ricinus Communis Endosperm
pdb|1S4V|B Chain B, The 2.0 A Crystal Structure Of The Kdel-Tailed Cysteine
Endopeptidase Functioning In Programmed Cell Death Of
Ricinus Communis Endosperm
Length = 229
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 78/205 (38%), Gaps = 29/205 (14%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
+P S D W + ++ + DQG CGSCWAF + A+ I +SLS
Sbjct: 2 VPASVD----WRKKGAVTSVKDQGQCGSCWAFSTIVAVEGINQIKTNKLVSLSEQELVDC 57
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCV 216
A+ + G +T E + PY AY V K
Sbjct: 58 DTDQNQGCNGGLMDY-AFEFIKQRGGITTEANYPY------------EAYDGTCDVSK-- 102
Query: 217 KKNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHIT 274
N+ SI + + + E+ + + N PV V+ DF Y GV+
Sbjct: 103 ------ENAPAVSIDGHENVPENDENALLKAVANQPVSVAIDAGGSDFQFYSEGVFTGSC 156
Query: 275 GDVMGGHAVKLIGWGTSDDGEDYWV 299
G + H V ++G+GT+ DG YW
Sbjct: 157 GTELD-HGVAIVGYGTTIDGTKYWT 180
>pdb|2FYE|A Chain A, Mutant Human Cathepsin S With Irreversible Inhibitor Cra-
14013
Length = 217
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 87/208 (41%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+CWAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGACWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STKKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 100
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+S + + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 ------YDSAYRAATCRKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 181
>pdb|3P5U|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
pdb|3P5V|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
pdb|3P5X|A Chain A, Actinidin From Actinidia Arguta Planch (Sarusashi)
Length = 220
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 51/204 (25%), Positives = 81/204 (39%), Gaps = 27/204 (13%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP D RS+ + I DQG CGS WAF + A+ I G +SLS
Sbjct: 1 LPDYVDWRSS----GAVVDIKDQGQCGSXWAFSTIAAVEGINKIATGDLISLSEQELVDC 56
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 217
+ +++ +++G + E + YP +C
Sbjct: 57 GRTQNTRGCDGGFMTDGFQFIINNGGINTEAN----------------YPYTAEEGQC-- 98
Query: 218 KNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHITG 275
N + K+ SI Y + + E + PV V+ +F HY SG++ G
Sbjct: 99 -NLDLQQEKYVSIDTYENVPYNNEWALQTAVAYQPVSVALEAAGYNFQHYSSGIFTGPCG 157
Query: 276 DVMGGHAVKLIGWGTSDDGEDYWV 299
+ HAV ++G+GT + G DYW+
Sbjct: 158 TAV-DHAVTIVGYGT-EGGIDYWI 179
>pdb|2C0Y|A Chain A, The Crystal Structure Of A Cys25ala Mutant Of Human
Procathepsin S
Length = 315
Score = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 87/208 (41%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 99 LPDSVD----WREKGCVTEVKYQGSCGAAWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 154
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 155 STEKYGNKGCNGGFMTTAFQYII-------------DNKGID---SDASYPYKAMDQKCQ 198
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 199 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 252
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 253 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 279
>pdb|1IWD|A Chain A, Proposed Amino Acid Sequence And The 1.63 Angstrom X-ray
Crystal Structure Of A Plant Cysteine Protease Ervatamin
B: Insight Into The Structural Basis Of Its Stability
And Substrate Specificity
Length = 215
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 83/205 (40%), Gaps = 33/205 (16%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP D RS ++ I +Q CGSCWAF AV A+ I G +SLS
Sbjct: 1 LPSFVDWRSK----GAVNSIKNQKQCGSCWAFSAVAAVESINKIRTGQLISLS--EQELV 54
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + +G + T++ PY G C+P
Sbjct: 55 DCDTASHGCNGGWMNNAFQYIITNGGIDTQQNYPYSAVQGS----CKP------------ 98
Query: 217 KKNQLWRNSKHYSISAY-RINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHIT 274
+ SI+ + R+ + E + + PV V+ F HY SG++
Sbjct: 99 ------YRLRVVSINGFQRVTRNNESALQSAVASQPVSVTVEAAGAPFQHYSSGIFTGPC 152
Query: 275 GDVMGGHAVKLIGWGTSDDGEDYWV 299
G H V ++G+GT G++YW+
Sbjct: 153 GTAQ-NHGVVIVGYGT-QSGKNYWI 175
>pdb|3BPM|A Chain A, Crystal Structure Of Falcipain-3 With Its Inhibitor,
Leupeptin
pdb|3BPM|B Chain B, Crystal Structure Of Falcipain-3 With Its Inhibitor,
Leupeptin
pdb|3BWK|A Chain A, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
pdb|3BWK|B Chain B, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
pdb|3BWK|C Chain C, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
pdb|3BWK|D Chain D, Crystal Structure Of Falcipain-3 With Its Inhibitor,
K11017
Length = 243
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 50/187 (26%), Positives = 74/187 (39%), Gaps = 27/187 (14%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W ++ + DQ CGSCWAF +V ++ ++ I S
Sbjct: 26 WRLHGGVTPVKDQALCGSCWAFSSVGSVESQYAIRKKALFLFSEQELV------------ 73
Query: 168 XXYPISAWRYFVHHGVVTEECDPYFDSTG-CSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
S + G +T D D G CS + YP V + L R ++
Sbjct: 74 ---DCSVKNNGCYGGYITNAFDDMIDLGGLCS----QDDYPY---VSNLPETCNLKRCNE 123
Query: 227 HYSISAYRINSDPEDIMAEIYKN-GPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKL 285
Y+I +Y S P+D E + GP+ +S +DFA Y+ G Y G HAV L
Sbjct: 124 RYTIKSYV--SIPDDKFKEALRYLGPISISIAASDDFAFYRGGFYDGECG-AAPNHAVIL 180
Query: 286 IGWGTSD 292
+G+G D
Sbjct: 181 VGYGMKD 187
>pdb|3MPE|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
pdb|3MPE|B Chain B, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
Length = 220
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 87/208 (41%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 2 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 57
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 58 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 101
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 102 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 155
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 156 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 182
>pdb|3IEJ|A Chain A, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As
P1 Binding Elements
pdb|3IEJ|B Chain B, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As
P1 Binding Elements
Length = 222
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 87/208 (41%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 3 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 58
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 59 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 102
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 103 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 156
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 157 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 183
>pdb|3KWN|A Chain A, Cathepsin S In Complex With Thioether Acetamide P3
Inhibitor
pdb|3KWN|B Chain B, Cathepsin S In Complex With Thioether Acetamide P3
Inhibitor
pdb|3MPF|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
pdb|3MPF|B Chain B, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
Length = 219
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 87/208 (41%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP +KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDQKCQ 100
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 181
>pdb|1GLO|A Chain A, Crystal Structure Of Cys25ser Mutant Of Human Cathepsin S
Length = 217
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 86/208 (41%), Gaps = 33/208 (15%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV-NXXXX 156
LP S D W + ++ + QG CG+ WAF AV AL + + G +SLS N
Sbjct: 1 LPDSVD----WREKGCVTEVKYQGSCGASWAFSAVGALEAQLKLKTGKLVSLSAQNLVDC 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ +A++Y + D+ G + +YP KC
Sbjct: 57 STEKYGNKGCNGGFMTTAFQYII-------------DNKGIDS---DASYPYKAMDLKCQ 100
Query: 217 KKNQLWRNSKHYSISAYRINSDP---EDIMAEIYKN-GPVEVSFTV-YEDFAHYKSGVYK 271
+SK+ + + + P ED++ E N GPV V + F Y+SGVY
Sbjct: 101 ------YDSKYRAATCSKYTELPYGREDVLKEAVANKGPVSVGVDARHPSFFLYRSGVYY 154
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ H V ++G+G +G++YW+
Sbjct: 155 EPSCTQNVNHGVLVVGYGDL-NGKEYWL 181
>pdb|2ACT|A Chain A, Crystallographic Refinement Of The Structure Of Actinidin
At 1.7 Angstroms Resolution By Fast Fourier
Least-Squares Methods
Length = 220
Score = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 54/204 (26%), Positives = 78/204 (38%), Gaps = 27/204 (13%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP D RSA + I QG CG WAF A+ + I G +SLS
Sbjct: 1 LPSYVDWRSA----GAVVDIKSQGECGGXWAFSAIATVEGINKITSGSLISLSEQELIDC 56
Query: 158 XXXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
Y +++ ++ G+ TEE PY G C+ A K V
Sbjct: 57 GRTQNTRGCDGGYITDGFQFIINDGGINTEENYPYTAQDG----DCDVALQDQKYVTIDT 112
Query: 217 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
+N + N A Y+ PV V+ D F Y SG++ G
Sbjct: 113 YENVPYNNEWALQ-------------TAVTYQ--PVSVALDAAGDAFKQYASGIFTGPCG 157
Query: 276 DVMGGHAVKLIGWGTSDDGEDYWV 299
+ HA+ ++G+GT + G DYW+
Sbjct: 158 TAV-DHAIVIVGYGT-EGGVDYWI 179
>pdb|3F75|A Chain A, Activated Toxoplasma Gondii Cathepsin L (Tgcpl) In Complex
With Its Propeptide
Length = 224
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 50/206 (24%), Positives = 73/206 (35%), Gaps = 26/206 (12%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP A W ++ + DQ CGSCWAF AL C G +SLS
Sbjct: 3 LPSELPAGVDWRSRGCVTPVKDQRDCGSCWAFSTTGALEGAHCAKTGKLVSLSEQELMDC 62
Query: 158 XXXXXXXXXXXXYPISAWRYFVHH-GVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKC 215
A++Y + G+ +E+ PY C CE V K
Sbjct: 63 SRAEGNQSCSGGEMNDAFQYVLDSGGICSEDAYPYLARDEECRAQSCEK-------VVKI 115
Query: 216 VKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYE-DFAHYKSGVYKHIT 274
+ + R S E M PV ++ + F Y GV+
Sbjct: 116 LGFKDVPRRS--------------EAAMKAALAKSPVSIAIEADQMPFQFYHEGVFDASC 161
Query: 275 GDVMGGHAVKLIGWGTSDDG-EDYWV 299
G + H V L+G+GT + +D+W+
Sbjct: 162 GTDL-DHGVLLVGYGTDKESKKDFWI 186
>pdb|3HWN|A Chain A, Cathepsin L With Az13010160
pdb|3HWN|B Chain B, Cathepsin L With Az13010160
pdb|3HWN|C Chain C, Cathepsin L With Az13010160
pdb|3HWN|D Chain D, Cathepsin L With Az13010160
Length = 258
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 57/252 (22%), Positives = 95/252 (37%), Gaps = 48/252 (19%)
Query: 62 FSNYTVGQFKHLLG----VKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRI 117
F + T +F+ ++ KP KG + P+ + P+S D W + ++ +
Sbjct: 5 FGDMTSEEFRQVMNGFQNRKPR-KGKVFQEPL-----FYEAPRSVD----WREKGYVTPV 54
Query: 118 LDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRY 177
+QG CGSCWAF A AL + G +SLS A++Y
Sbjct: 55 KNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQY 114
Query: 178 FVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----Y 233
+G + E +YP C + + YS++
Sbjct: 115 VQDNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDAGFV 151
Query: 234 RINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG- 289
I + +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 152 DIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDM-DHGVLVVGYGF 210
Query: 290 --TSDDGEDYWV 299
T D YW+
Sbjct: 211 ESTESDNNKYWL 222
>pdb|2BDZ|A Chain A, Mexicain From Jacaratia Mexicana
pdb|2BDZ|B Chain B, Mexicain From Jacaratia Mexicana
pdb|2BDZ|C Chain C, Mexicain From Jacaratia Mexicana
pdb|2BDZ|D Chain D, Mexicain From Jacaratia Mexicana
Length = 214
Score = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 48/194 (24%), Positives = 76/194 (39%), Gaps = 27/194 (13%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +Q CGSCWAF V + I G +SLS
Sbjct: 2 PESID----WREKGAVTPVKNQNPCGSCWAFSTVATIEGINKIITGQLISLS--EQELLD 55
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
Y ++ +Y V +GV TE PY G +C K
Sbjct: 56 CERRSHGCDGGYQTTSLQYVVDNGVHTEREYPYEKKQG-----------------RCRAK 98
Query: 219 NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVE-VSFTVYEDFAHYKSGVYKHITGDV 277
++ + K Y + ++ E + + N PV V+ + F YK G+Y+ G
Sbjct: 99 DK--KGPKVYITGYKYVPANDEISLIQAIANQPVSVVTDSRGRGFQFYKGGIYEGPCGTN 156
Query: 278 MGGHAVKLIGWGTS 291
HAV +G+G +
Sbjct: 157 T-DHAVTAVGYGKT 169
>pdb|3OF8|A Chain A, Structural Basis For Reversible And Irreversible
Inhibition Of Human Cathepsin L By Their Respective
Dipeptidyl Glyoxal And Diazomethylketone Inhibitors
pdb|3OF9|A Chain A, Structural Basis For Irreversible Inhibition Of Human
Cathepsin L By A Diazomethylketone Inhibitor
Length = 221
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 49/213 (23%), Positives = 80/213 (37%), Gaps = 38/213 (17%)
Query: 97 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 156
+ P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 1 EAPRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVD 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
A++Y +G + E +YP C
Sbjct: 57 CSGPQGNEGCNGGLMDYAFQYVQDNGGLDS----------------EESYPYEATEESC- 99
Query: 217 KKNQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 270
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 100 ------KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYF 153
Query: 271 -KHITGDVMGGHAVKLIGWG---TSDDGEDYWV 299
+ + M H V ++G+G T D YW+
Sbjct: 154 EPDCSSEDM-DHGVLVVGYGFESTESDNNKYWL 185
>pdb|3H89|A Chain A, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|B Chain B, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|C Chain C, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|D Chain D, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|E Chain E, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H89|F Chain F, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 4)
pdb|3H8B|A Chain A, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|B Chain B, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|C Chain C, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|D Chain D, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|E Chain E, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|3H8B|F Chain F, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors(Compound 9)
pdb|2XU3|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2XU4|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2XU5|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJ2|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJ8|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJ9|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJB|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2YJC|A Chain A, Cathepsin L With A Nitrile Inhibitor
Length = 220
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 49/211 (23%), Positives = 79/211 (37%), Gaps = 38/211 (18%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLDS----------------EESYPYEATEESC--- 98
Query: 219 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 272 HITGDVMGGHAVKLIGWG---TSDDGEDYWV 299
+ + M H V ++G+G T D YW+
Sbjct: 155 DCSSEDM-DHGVLVVGYGFESTESDNNKYWL 184
>pdb|3HHA|A Chain A, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|3HHA|B Chain B, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|3HHA|C Chain C, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|3HHA|D Chain D, Crystal Structure Of Cathepsin L In Complex With
Az12878478
pdb|2XU1|A Chain A, Cathepsin L With A Nitrile Inhibitor
pdb|2XU1|B Chain B, Cathepsin L With A Nitrile Inhibitor
pdb|2XU1|C Chain C, Cathepsin L With A Nitrile Inhibitor
pdb|2XU1|D Chain D, Cathepsin L With A Nitrile Inhibitor
Length = 220
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 49/211 (23%), Positives = 79/211 (37%), Gaps = 38/211 (18%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLDS----------------EESYPYEATEESC--- 98
Query: 219 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 272 HITGDVMGGHAVKLIGWG---TSDDGEDYWV 299
+ + M H V ++G+G T D YW+
Sbjct: 155 DCSSEDM-DHGVLVVGYGFESTESDNNKYWL 184
>pdb|2B1M|A Chain A, Crystal Structure Of A Papain-Fold Protein Without The
Catalytic Cysteine From Seeds Of Pachyrhizus Erosus
pdb|2B1N|A Chain A, Crystal Structure Of A Papain-Fold Protein Without The
Catalytic Cysteine From Seeds Of Pachyrhizus Erosus
Length = 246
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 78/205 (38%), Gaps = 24/205 (11%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S+D W + I+++ QG CGS WAF A A+ I G +SLS
Sbjct: 3 PESWD----WSKKGVITKVKFQGQCGSGWAFSATGAIEAAHAIATGNLVSLSEQELIDCV 58
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCVK 217
Y W V HG + E D PY G KC ++
Sbjct: 59 DESEGCYNGWHYQSFEW--VVKHGGIASEADYPYKARDG-------------KCKANEIQ 103
Query: 218 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYK--HITG 275
N +S S+ E + P+ VS +DF Y G+Y + +
Sbjct: 104 DKVTIDNYGVQILSNESTESEAESSLQSFVLEQPISVSIDA-KDFHFYSGGIYDGGNCSS 162
Query: 276 DVMGGHAVKLIGWGTSDDGEDYWVC 300
H V ++G+G S+DG DYW+
Sbjct: 163 PYGINHFVLIVGYG-SEDGVDYWIA 186
>pdb|1CJL|A Chain A, Crystal Structure Of A Cysteine Protease Proform
Length = 312
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 56/251 (22%), Positives = 94/251 (37%), Gaps = 46/251 (18%)
Query: 62 FSNYTVGQFKHL---LGVKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRIL 118
F + T +F+ + L + KG + P+ + P+S D W + ++ +
Sbjct: 59 FGDMTSEEFRQVMNGLQNRKPRKGKVFQEPL-----FYEAPRSVD----WREKGYVTPVK 109
Query: 119 DQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRYF 178
+QG CGS WAF A AL + G +SLS A++Y
Sbjct: 110 NQGQCGSSWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPEGNEGCNGGLMDYAFQYV 169
Query: 179 VHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----YR 234
+G + E +YP C + + YS++
Sbjct: 170 QDNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDAGFVD 206
Query: 235 INSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG-- 289
I + +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 207 IPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDM-DHGVLVVGYGFE 265
Query: 290 -TSDDGEDYWV 299
T DG YW+
Sbjct: 266 STESDGNKYWL 276
>pdb|2PNS|A Chain A, 1.9 Angstrom Resolution Crystal Structure Of A Plant
Cysteine Protease Ervatamin-C Refinement With Cdna
Derived Amino Acid Sequence
pdb|2PNS|B Chain B, 1.9 Angstrom Resolution Crystal Structure Of A Plant
Cysteine Protease Ervatamin-C Refinement With Cdna
Derived Amino Acid Sequence
pdb|2PRE|A Chain A, Crystal Structure Of Plant Cysteine Protease Ervatamin-C
Complexed With Irreversible Inhibitor E-64 At 2.7 A
Resolution
pdb|2PRE|B Chain B, Crystal Structure Of Plant Cysteine Protease Ervatamin-C
Complexed With Irreversible Inhibitor E-64 At 2.7 A
Resolution
Length = 208
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 38/205 (18%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP+ D W + ++ + +QG CGSCWAF V + I G +SLS
Sbjct: 1 LPEQID----WRKKGAVTPVKNQGKCGSCWAFSTVSTVESINQIRTGNLISLSEQQLVDC 56
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ A++Y + +G + E + PY G P K VR
Sbjct: 57 NKKNHGCKGGAF--VYAYQYIIDNGGIDTEANYPYKAVQG-------PCRAAKKVVR--- 104
Query: 217 KKNQLWRNSKHYSISAYR-INSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVYKHIT 274
I Y+ + E+ + + + P V+ + F HYKSG++
Sbjct: 105 -------------IDGYKGVPHCNENALKKAVASQPSVVAIDASSKQFQHYKSGIFSGPC 151
Query: 275 GDVMGGHAVKLIGWGTSDDGEDYWV 299
G + H V ++G+ +DYW+
Sbjct: 152 GTKL-NHGVVIVGY-----WKDYWI 170
>pdb|1FH0|A Chain A, Crystal Structure Of Human Cathepsin V Complexed With An
Irreversible Vinyl Sulfone Inhibitor
pdb|1FH0|B Chain B, Crystal Structure Of Human Cathepsin V Complexed With An
Irreversible Vinyl Sulfone Inhibitor
Length = 221
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 84/214 (39%), Gaps = 41/214 (19%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LPKS D W + ++ + +Q CGSCWAF A AL + G +SLS
Sbjct: 1 LPKSVD----WRKKGYVTPVKNQKQCGSCWAFSATGALEGQMFRKTGKLVSLSEQNLVDC 56
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
+ A++Y +G + +EE PY + K
Sbjct: 57 SRPQGNQGCNGGFMARAFQYVKENGGLDSEESYPYV---------------AVDEICKYR 101
Query: 217 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY----- 270
+N + +++ ++ + + +M + GP+ V+ + F YKSG+Y
Sbjct: 102 PENSVAQDTGFTVVAPGK----EKALMKAVATVGPISVAMDAGHSSFQFYKSGIYFEPDC 157
Query: 271 --KHITGDVMGGHAVKLIGW---GTSDDGEDYWV 299
K++ H V ++G+ G + D YW+
Sbjct: 158 SSKNLD------HGVLVVGYGFEGANSDNSKYWL 185
>pdb|1YAL|A Chain A, Carica Papaya Chymopapain At 1.7 Angstroms Resolution
Length = 218
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 53/207 (25%), Positives = 79/207 (38%), Gaps = 38/207 (18%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W ++ + +QG CGS WAF + + I G L LS
Sbjct: 2 PQSID----WRAKGAVTPVKNQGACGSXWAFSTIATVEGINKIVTGNLLELS--EQELVD 55
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPY----FDSTGCSHPGCEPAYPTPKCVRK 214
Y ++ +Y ++GV T + PY + PG PK
Sbjct: 56 CDKHSYGCKGGYQTTSLQYVANNGVHTSKVYPYQAKQYKCRATDKPG-------PKV--- 105
Query: 215 CVKKNQLWRNSKHYSISAY-RINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKH 272
I+ Y R+ S+ E N P+ V + F YKSGV+
Sbjct: 106 --------------KITGYKRVPSNXETSFLGALANQPLSVLVEAGGKPFQLYKSGVFDG 151
Query: 273 ITGDVMGGHAVKLIGWGTSDDGEDYWV 299
G + HAV +G+GTS DG++Y +
Sbjct: 152 PCGTKLD-HAVTAVGYGTS-DGKNYII 176
>pdb|2NQD|B Chain B, Crystal Structure Of Cysteine Protease Inhibitor,
Chagasin, In Complex With Human Cathepsin L
Length = 221
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 79/213 (37%), Gaps = 38/213 (17%)
Query: 97 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 156
+ P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 1 EAPRSVD----WREKGYVTPVKNQGQCGSAWAFSATGALEGQMFRKTGRLISLSEQNLVD 56
Query: 157 XXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCV 216
A++Y +G + E +YP C
Sbjct: 57 CSGPQGNEGCNGGLMDYAFQYVQDNGGLD----------------SEESYPYEATEESC- 99
Query: 217 KKNQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 270
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 100 ------KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYF 153
Query: 271 -KHITGDVMGGHAVKLIGWG---TSDDGEDYWV 299
+ + M H V ++G+G T D YW+
Sbjct: 154 EPDCSSEDM-DHGVLVVGYGFESTESDNNKYWL 185
>pdb|1CS8|A Chain A, Crystal Structure Of Procathepsin L
Length = 316
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 56/252 (22%), Positives = 94/252 (37%), Gaps = 48/252 (19%)
Query: 62 FSNYTVGQFKHLLG----VKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRI 117
F + T +F+ ++ KP KG + P+ + P+S D W + ++ +
Sbjct: 63 FGDMTSEEFRQVMNGFQNRKPR-KGKVFQEPL-----FYEAPRSVD----WREKGYVTPV 112
Query: 118 LDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPISAWRY 177
+QG CGS WAF A AL + G +SLS A++Y
Sbjct: 113 KNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCSGPQGNEGCNGGLMDYAFQY 172
Query: 178 FVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSISA----Y 233
+G + E +YP C + + YS++
Sbjct: 173 VQDNGGLD----------------SEESYPYEATEESC-------KYNPKYSVANDAGFV 209
Query: 234 RINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLIGWG- 289
I + +M + GP+ V+ +E F YK G+Y + + M H V ++G+G
Sbjct: 210 DIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEPDCSSEDM-DHGVLVVGYGF 268
Query: 290 --TSDDGEDYWV 299
T D YW+
Sbjct: 269 ESTESDNNKYWL 280
>pdb|3IV2|A Chain A, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant
pdb|3IV2|B Chain B, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant
pdb|3K24|A Chain A, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant In
Complex With Gln-Leu-Ala Peptide
pdb|3K24|B Chain B, Crystal Structure Of Mature Apo-Cathepsin L C25a Mutant In
Complex With Gln-Leu-Ala Peptide
Length = 220
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 48/211 (22%), Positives = 78/211 (36%), Gaps = 38/211 (18%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSAWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLD----------------SEESYPYEATEESC--- 98
Query: 219 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 272 HITGDVMGGHAVKLIGWG---TSDDGEDYWV 299
+ + M H V ++G+G T D YW+
Sbjct: 155 DCSSEDM-DHGVLVVGYGFESTESDNNKYWL 184
>pdb|1ICF|A Chain A, Crystal Structure Of Mhc Class Ii Associated P41 Ii
Fragment In Complex With Cathepsin L
pdb|1ICF|C Chain C, Crystal Structure Of Mhc Class Ii Associated P41 Ii
Fragment In Complex With Cathepsin L
Length = 175
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 76/198 (38%), Gaps = 35/198 (17%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CGSCWAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSCWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + DS E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGL--------DS--------EESYPYEATEESC--- 98
Query: 219 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 272 HITGDVMGGHAVKLIGWG 289
+ + M H V ++G+G
Sbjct: 155 DCSSEDM-DHGVLVVGYG 171
>pdb|3BC3|A Chain A, Exploring Inhibitor Binding At The S Subsites Of Cathepsin
L
pdb|3BC3|B Chain B, Exploring Inhibitor Binding At The S Subsites Of Cathepsin
L
pdb|3H8C|A Chain A, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors (Compound 14)
pdb|3H8C|B Chain B, A Combined Crystallographic And Molecular Dynamics Study
Of Cathepsin-L Retro-Binding Inhibitors (Compound 14)
Length = 220
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 48/211 (22%), Positives = 78/211 (36%), Gaps = 38/211 (18%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLD----------------SEESYPYEATEESC--- 98
Query: 219 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 272 HITGDVMGGHAVKLIGWG---TSDDGEDYWV 299
+ + M H V ++G+G T D YW+
Sbjct: 155 DCSSEDM-DHGVLVVGYGFESTESDNNKYWL 184
>pdb|3KSE|A Chain A, Unreduced Cathepsin L In Complex With Stefin A
pdb|3KSE|B Chain B, Unreduced Cathepsin L In Complex With Stefin A
pdb|3KSE|C Chain C, Unreduced Cathepsin L In Complex With Stefin A
Length = 220
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 48/211 (22%), Positives = 78/211 (36%), Gaps = 38/211 (18%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGLD----------------SEESYPYEATEESC--- 98
Query: 219 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDAGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 272 HITGDVMGGHAVKLIGWG---TSDDGEDYWV 299
+ + M H V ++G+G T D YW+
Sbjct: 155 DCSSEDM-DHGVLVVGYGFESTESDDNKYWL 184
>pdb|3H7D|A Chain A, The Crystal Structure Of The Cathepsin K Variant M5 In
Compl Chondroitin-4-Sulfate
pdb|3H7D|E Chain E, The Crystal Structure Of The Cathepsin K Variant M5 In
Compl Chondroitin-4-Sulfate
Length = 215
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 54/207 (26%), Positives = 80/207 (38%), Gaps = 35/207 (16%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 PDSVDYREK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 55
Query: 159 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 216
Y +A++Y + G+ +E+ PY C + PT K KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMYN------PTGKAA-KCR 108
Query: 217 KKNQLWR-NSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KH 272
++ N K + R+ GPV V+ F Y GVY +
Sbjct: 109 GYREIPEGNEKALKRAVARV--------------GPVSVAIDASLTSFQFYSKGVYYDES 154
Query: 273 ITGDVMGGHAVKLIGWGTSDDGEDYWV 299
D + HAV +G+G S G +W+
Sbjct: 155 CNSDNL-NHAVLAVGYGES-KGNKHWI 179
>pdb|3BCN|A Chain A, Crystal Structure Of A Papain-Like Cysteine Protease
Ervatamin-A Complexed With Irreversible Inhibitor E-64
pdb|3BCN|B Chain B, Crystal Structure Of A Papain-Like Cysteine Protease
Ervatamin-A Complexed With Irreversible Inhibitor E-64
Length = 209
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 76/205 (37%), Gaps = 38/205 (18%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP+ D W + + +QG CGSCWAF V + I G +SLS
Sbjct: 1 LPEHVD----WRAKGAVIPLKNQGKCGSCWAFSTVTTVESINQIRTGNLISLS--EQQLV 54
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECD-PYFDSTGCSHPGCEPAYPTPKCVR--K 214
Y A++Y + +G + E + PY G P K VR
Sbjct: 55 DCSKKNHGCKGGYFDRAYQYIIANGGIDTEANYPYKAFQG-------PCRAAKKVVRIDG 107
Query: 215 CVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHIT 274
C Q N+ +++ S P + + + F HYK G++
Sbjct: 108 CKGVPQCNENALKNAVA-----SQPSVVAID-----------ASSKQFQHYKGGIFTGPC 151
Query: 275 GDVMGGHAVKLIGWGTSDDGEDYWV 299
G + H V ++G+ G+DYW+
Sbjct: 152 GTKL-NHGVVIVGY-----GKDYWI 170
>pdb|2F7D|A Chain A, A Mutant Rabbit Cathepsin K With A Nitrile Inhibitor
Length = 215
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 79/208 (37%), Gaps = 37/208 (17%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 PDSIDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 55
Query: 159 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 216
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQRNRGIDSEDAYPYVGQDESCMY---NPTGKAAKC----- 107
Query: 217 KKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
YR + + + + + GPV V+ F Y GVY +
Sbjct: 108 --------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDE 153
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ + D + HAV +G+G G +W+
Sbjct: 154 NCSSDNL-NHAVLAVGYGI-QKGNKHWI 179
>pdb|3RVW|A Chain A, Crystal Structure Of Der P 1 Complexed With Fab 4c1
pdb|3RVX|A Chain A, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 222
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 49/209 (23%), Positives = 72/209 (34%), Gaps = 40/209 (19%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P D R Q T++ I QG CGSCWAF V A + + +L L+
Sbjct: 11 PAEIDLR----QMRTVTPIRMQGGCGSCWAFSGVAATESAYLAYRNQSLDLAEQELVDCA 66
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 217
I Y H+GVV E Y C P
Sbjct: 67 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRP----------------- 106
Query: 218 KNQLWRNSKHYSISAY------RINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKS-GVY 270
N++ + IS Y +N E +A+ + V + + F HY +
Sbjct: 107 ------NAQRFGISNYCQIYPPNVNKIRE-ALAQTHSAIAVIIGIKDLDAFRHYDGRTII 159
Query: 271 KHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ G HAV ++G+ + G DYW+
Sbjct: 160 QRDNGYQPNYHAVNIVGYSNA-QGVDYWI 187
>pdb|3U8E|A Chain A, Crystal Structure Of Cysteine Protease From Bulbs Of
Crocus Sativus At 1.3 A Resolution
Length = 222
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLS 150
P S D W + ++ + DQG CG CWAFGA A+ I G +S+S
Sbjct: 2 PASID----WRKKGAVTSVKDQGACGMCWAFGATGAIEGIDAITTGRLISVS 49
>pdb|1U9V|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor Nvp-Abe854
pdb|1U9W|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor Nvp-Abi491
pdb|1U9X|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor Nvp-Abj688
pdb|2R6N|A Chain A, Crystal Structure Of A Pyrrolopyrimidine Inhibitor In
Complex With Human Cathepsin K
Length = 217
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 50/210 (23%), Positives = 78/210 (37%), Gaps = 37/210 (17%)
Query: 97 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 156
+ P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 RAPDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNL 55
Query: 157 XXXXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRK 214
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 56 VDCVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC--- 109
Query: 215 CVKKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 270
YR + + + + + GPV V+ F Y GVY
Sbjct: 110 ----------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYY 153
Query: 271 -KHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ D + HAV +G+G G +W+
Sbjct: 154 DESCNSDNL-NHAVLAVGYGI-QKGNKHWI 181
>pdb|2AS8|A Chain A, Crystal Structure Of Mature And Fully Active Der P 1
Allergen
pdb|2AS8|B Chain B, Crystal Structure Of Mature And Fully Active Der P 1
Allergen
Length = 222
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 72/203 (35%), Gaps = 28/203 (13%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P D R Q T++ I QG CGSCWAF V A + + +L L+
Sbjct: 11 PAEIDLR----QMRTVTPIRMQGGCGSCWAFSGVAATESAYLAYRQQSLDLAEQELVDCA 66
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 217
I Y H+GVV E Y C P + + C
Sbjct: 67 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYC------ 117
Query: 218 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKS-GVYKHITGD 276
+ Y +A +I + +A+ + V + + F HY + + G
Sbjct: 118 --------QIYPPNANKI----REALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGY 165
Query: 277 VMGGHAVKLIGWGTSDDGEDYWV 299
HAV ++G+ + G DYW+
Sbjct: 166 QPNYHAVNIVGYSNA-QGVDYWI 187
>pdb|2VHS|A Chain A, Cathsilicatein, A Chimera
pdb|2VHS|B Chain B, Cathsilicatein, A Chimera
pdb|2VHS|C Chain C, Cathsilicatein, A Chimera
pdb|2VHS|D Chain D, Cathsilicatein, A Chimera
Length = 217
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 77/203 (37%), Gaps = 25/203 (12%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CG+ +AF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGASYAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + DS E +YP C K
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGL--------DS--------EESYPYEATEESC-KY 100
Query: 219 NQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVYKHITGDV 277
N + S + I + +M + GP+ V+ +E F YK G+Y
Sbjct: 101 NPKY--SVANDVGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFSSDCSS 158
Query: 278 MG-GHAVKLIGWGTSDDGEDYWV 299
HA+ ++G+G + + YW+
Sbjct: 159 SSLNHAMLVVGYGFISNNQKYWL 181
>pdb|2P7U|A Chain A, The Crystal Structure Of Rhodesain, The Major Cysteine
Protease Of T. Brucei Rhodesiense, Bound To Inhibitor
K777
pdb|2P86|A Chain A, The High Resolution Crystal Structure Of Rohedsain, The
Major Cathepsin L Protease From T. Brucei Rhodesiense,
Bound To Inhibitor K11002
Length = 215
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 42/194 (21%), Positives = 74/194 (38%), Gaps = 23/194 (11%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W + ++ + DQG CGSCWAF + + ++ + +SLS
Sbjct: 7 WREKGAVTPVKDQGQCGSCWAFSTIGNIEGQWQVAGNPLVSLSEQMLVSCDTIDFGCGGG 66
Query: 168 XXYPISAWRYFVHHG-VVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
W + G V TE PY G P+C Q+ +
Sbjct: 67 LMDNAFNWIVNSNGGNVFTEASYPYVSGNG----------EQPQC--------QMNGHEI 108
Query: 227 HYSISAY-RINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKL 285
+I+ + + D + I A + +NGP+ ++ F Y G+ T + + H V L
Sbjct: 109 GAAITDHVDLPQDEDAIAAYLAENGPLAIAVDATS-FMDYNGGILTSCTSEQL-DHGVLL 166
Query: 286 IGWGTSDDGEDYWV 299
+G+ + + YW+
Sbjct: 167 VGYNDASN-PPYWI 179
>pdb|7PCK|A Chain A, Crystal Structure Of Wild Type Human Procathepsin K
pdb|7PCK|B Chain B, Crystal Structure Of Wild Type Human Procathepsin K
pdb|7PCK|C Chain C, Crystal Structure Of Wild Type Human Procathepsin K
pdb|7PCK|D Chain D, Crystal Structure Of Wild Type Human Procathepsin K
pdb|1BY8|A Chain A, The Crystal Structure Of Human Procathepsin K
Length = 314
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 50/210 (23%), Positives = 78/210 (37%), Gaps = 37/210 (17%)
Query: 97 KLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXX 156
+ P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 99 RAPDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNL 152
Query: 157 XXXXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRK 214
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 153 VDCVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC--- 206
Query: 215 CVKKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY- 270
YR + + + + + GPV V+ F Y GVY
Sbjct: 207 ----------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYY 250
Query: 271 -KHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
+ D + HAV +G+G G +W+
Sbjct: 251 DESCNSDNL-NHAVLAVGYGIQ-KGNKHWI 278
>pdb|1SNK|A Chain A, Cathepsin K Complexed With Carbamate Derivatized
Norleucine Aldehyde
Length = 214
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 77/208 (37%), Gaps = 37/208 (17%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 1 PDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 54
Query: 159 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 216
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 55 CVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC----- 106
Query: 217 KKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
YR + + + + + GPV V+ F Y GVY +
Sbjct: 107 --------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDE 152
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
D + HAV +G+G G +W+
Sbjct: 153 SCNSDNL-NHAVLAVGYGI-QKGNKHWI 178
>pdb|3H6S|A Chain A, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3H6S|B Chain B, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3H6S|C Chain C, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3H6S|D Chain D, Strucure Of Clitocypin - Cathepsin V Complex
pdb|3KFQ|A Chain A, Unreduced Cathepsin V In Complex With Stefin A
pdb|3KFQ|B Chain B, Unreduced Cathepsin V In Complex With Stefin A
Length = 221
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 52/216 (24%), Positives = 78/216 (36%), Gaps = 45/216 (20%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LPKS D W + ++ + +Q CGS WAF A AL + G +SLS
Sbjct: 1 LPKSVD----WRKKGYVTPVKNQKQCGSXWAFSATGALEGQMFRKTGKLVSLSEQNLVDC 56
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVV-TEECDPY--FDSTGCSHPGCEPAYPTPKCVRK 214
+ A++Y +G + +EE PY D P A T V
Sbjct: 57 SRPQGNQGCNGGFMARAFQYVKENGGLDSEESYPYVAVDEICKYRPENSVAQDTGFTVVA 116
Query: 215 CVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--- 270
K+ L M + GP+ V+ + F YKSG+Y
Sbjct: 117 PGKEKAL---------------------MKAVATVGPISVAMDAGHSSFQFYKSGIYFEP 155
Query: 271 ----KHITGDVMGGHAVKLIGW---GTSDDGEDYWV 299
K++ H V ++G+ G + D YW+
Sbjct: 156 DCSSKNLD------HGVLVVGYGFEGANSDNSKYWL 185
>pdb|1MEM|A Chain A, Crystal Structure Of Cathepsin K Complexed With A Potent
Vinyl Sulfone Inhibitor
pdb|1NL6|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1NL6|B Chain B, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1NLJ|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1NLJ|B Chain B, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Azepanone Inhibitor
pdb|1Q6K|A Chain A, Cathepsin K Complexed With T-butyl(1s)-1-cyclohexyl-2-
Oxoethylcarbamate
pdb|1TU6|A Chain A, Cathepsin K Complexed With A Ketoamide Inhibitor
pdb|1TU6|B Chain B, Cathepsin K Complexed With A Ketoamide Inhibitor
pdb|1YK7|A Chain A, Cathepsin K Complexed With A Cyanopyrrolidine Inhibitor
pdb|1YK8|A Chain A, Cathepsin K Complexed With A Cyanamide-Based Inhibitor
pdb|1YT7|A Chain A, Cathepsin K Complexed With A Constrained Ketoamide
Inhibitor
pdb|2BDL|A Chain A, Cathepsin K Complexed With A Pyrrolidine Ketoamide-Based
Inhibitor
pdb|2ATO|A Chain A, Crystal Structure Of Human Cathepsin K In Complex With
Myocrisin
pdb|2AUX|A Chain A, Cathepsin K Complexed With A Semicarbazone Inhibitor
pdb|2AUZ|A Chain A, Cathepsin K Complexed With A Semicarbazone Inhibitor
pdb|2FTD|A Chain A, Crystal Structure Of Cathepsin K Complexed With 7-Methyl-
Substituted Azepan-3-One Compound
pdb|2FTD|B Chain B, Crystal Structure Of Cathepsin K Complexed With 7-Methyl-
Substituted Azepan-3-One Compound
pdb|1ATK|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With The Covalent Inhibitor E-64
pdb|1AU0|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Symmetric Diacylaminomethyl
Ketone Inhibitor
pdb|1AU2|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Propanone Inhibitor
pdb|1AU3|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Pyrrolidinone Inhibitor
pdb|1AU4|A Chain A, Crystal Structure Of The Cysteine Protease Human Cathepsin
K In Complex With A Covalent Pyrrolidinone Inhibitor
pdb|1AYU|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent Symmetric Biscarbohydrazide
Inhibitor
pdb|1AYV|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent Thiazolhydrazide Inhibitor
pdb|1AYW|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent
Benzyloxybenzoylcarbohydrazide Inhibitor
pdb|1BGO|A Chain A, Crystal Structure Of Cysteine Protease Human Cathepsin K
In Complex With A Covalent Peptidomimetic Inhibitor
pdb|3C9E|A Chain A, Crystal Structure Of The Cathepsin K : Chondroitin Sulfate
Complex.
pdb|3KW9|A Chain A, X-Ray Structure Of Cathepsin K Covalently Bound To A
Triazine Ligand
pdb|3KWZ|A Chain A, Cathepsin K In Complex With A Non-Selective 2-Cyano-
Pyrimidine Inhibitor
pdb|3KX1|A Chain A, Cathepsin K In Complex With A Selective 2-Cyano-Pyrimidine
Inhibitor
pdb|3KWB|X Chain X, Structure Of Catk Covalently Bound To A Dioxo-Triazine
Inhibitor
pdb|3KWB|Y Chain Y, Structure Of Catk Covalently Bound To A Dioxo-Triazine
Inhibitor
pdb|3O1G|A Chain A, Cathepsin K Covalently Bound To A 2-Cyano Pyrimidine
Inhibitor With A Benzyl P3 Group.
pdb|3O0U|A Chain A, Cathepsin K Covalently Bound To A Cyano-Pyrimidine
Inhibitor With Improved Selectivity Over Herg
pdb|4DMX|A Chain A, Cathepsin K Inhibitor
pdb|4DMY|A Chain A, Cathepsin K Inhibitor
pdb|4DMY|B Chain B, Cathepsin K Inhibitor
Length = 215
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 77/208 (37%), Gaps = 37/208 (17%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P S D R ++ + +QG CGSCWAF +V AL + G L+LS
Sbjct: 2 PDSVDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVD 55
Query: 159 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 216
Y +A++Y + G+ +E+ PY C + P KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC----- 107
Query: 217 KKNQLWRNSKHYSISAYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
YR + + + + + GPV V+ F Y GVY +
Sbjct: 108 --------------RGYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDE 153
Query: 272 HITGDVMGGHAVKLIGWGTSDDGEDYWV 299
D + HAV +G+G G +W+
Sbjct: 154 SCNSDNL-NHAVLAVGYGI-QKGNKHWI 179
>pdb|1VSN|A Chain A, Crystal Structure Of A Potent Small Molecule Inhibitor
Bound To Cathepsin K
Length = 215
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 52/210 (24%), Positives = 82/210 (39%), Gaps = 41/210 (19%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P S D R ++ + +QG CGSCWAF +V AL + G L+L+
Sbjct: 2 PDSIDYRKK----GYVTPVKNQGQCGSCWAFSSVGALEGQLKKATGALLNLA--PQNLVD 55
Query: 159 XXXXXXXXXXXYPISAWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCV 216
Y +A++Y + G+ +E+ PY C + PT K KC
Sbjct: 56 CVSENDGCGGGYMTNAFQYVQRNRGIDSEDAYPYVGQDESCMYN------PTGKAA-KCR 108
Query: 217 KKNQLWRNSKHYSISAYRINSDPEDIMAEIYKN----GPVEVSFTV-YEDFAHYKSGVY- 270
++ PE A + + GPV V+ F Y +GVY
Sbjct: 109 GYREI-----------------PEGNEAALKRAVAAVGPVSVAIDASLTSFQFYSAGVYY 151
Query: 271 -KHITGDVMGGHAVKLIGWGTSDDGEDYWV 299
++ + D + HAV +G+G G +W+
Sbjct: 152 DENCSSDAL-NHAVLAVGYGI-QAGNKHWI 179
>pdb|3TNX|A Chain A, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 2.6 Angstroem Resolution
pdb|3TNX|C Chain C, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 2.6 Angstroem Resolution
pdb|3USV|A Chain A, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 3.8 A Resolution From A Crystal Soaked At Ph 4
pdb|3USV|C Chain C, Structure Of The Precursor Of A Thermostable Variant Of
Papain At 3.8 A Resolution From A Crystal Soaked At Ph 4
Length = 363
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 48/200 (24%), Positives = 74/200 (37%), Gaps = 29/200 (14%)
Query: 92 HDKSLKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSV 151
+D + +P+ D W Q ++ + +QG CGS WAF AV + I G NL+
Sbjct: 146 NDGDVNIPEYVD----WRQKGAVTPVKNQGSCGSAWAFSAVSTIESIIKIRTG-NLN-EY 199
Query: 152 NXXXXXXXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPK 210
+ YP SA + +G+ PY C P
Sbjct: 200 SEQELLDCDRRSYGCNGGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTD 259
Query: 211 CVRKCVKKNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGV 269
VR+ N+ + YSI+ N PV V +DF Y+ G+
Sbjct: 260 GVRQVQPYNE---GALLYSIA-----------------NQPVSVVLEAAGKDFQLYRGGI 299
Query: 270 YKHITGDVMGGHAVKLIGWG 289
+ G+ + HAV +G+G
Sbjct: 300 FVGPCGNKV-DHAVAAVGYG 318
>pdb|3OVZ|A Chain A, Cathepsin K In Complex With A Covalent Inhibitor With A
Ketoamide Warhead
Length = 213
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 46/193 (23%), Positives = 73/193 (37%), Gaps = 33/193 (17%)
Query: 114 ISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXXXXYPIS 173
++ + +QG CGSCWAF +V AL + G L+LS Y +
Sbjct: 11 VTPVKNQGQCGSCWAFSSVGALEGQLKKKTGKLLNLS--PQNLVDCVSENDGCGGGYMTN 68
Query: 174 AWRYFV-HHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKHYSIS 231
A++Y + G+ +E+ PY C + P KC
Sbjct: 69 AFQYVQKNRGIDSEDAYPYVGQEESCMY---NPTGKAAKC-------------------R 106
Query: 232 AYRI--NSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--KHITGDVMGGHAVKLI 286
YR + + + + + GPV V+ F Y GVY + D + HAV +
Sbjct: 107 GYREIPEGNEKALKRAVARVGPVSVAIDASLTSFQFYSKGVYYDESCNSDNL-NHAVLAV 165
Query: 287 GWGTSDDGEDYWV 299
G+G G +W+
Sbjct: 166 GYGI-QKGNKHWI 177
>pdb|1PPP|A Chain A, Crystal Structure Of Papain-E64-C Complex. Binding
Diversity Of E64-C To Papain S2 And S3 Subsites
Length = 212
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 47/184 (25%), Positives = 68/184 (36%), Gaps = 25/184 (13%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W Q ++ + +QG CGSCWAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 168 XXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
YP SA + +G+ PY C P VR+ NQ +
Sbjct: 65 GGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GAL 121
Query: 227 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKL 285
YSI+ N PV V +DF Y+ G++ G+ + HAV
Sbjct: 122 LYSIA-----------------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKV-DHAVAA 163
Query: 286 IGWG 289
+G+G
Sbjct: 164 VGYG 167
>pdb|1PIP|A Chain A, Crystal Structure Of
Papain-Succinyl-Gln-Val-Val-Ala-Ala-P- Nitroanilide
Complex At 1.7 Angstroms Resolution: Noncovalent Binding
Mode Of A Common Sequence Of Endogenous Thiol Protease
Inhibitors
pdb|1POP|A Chain A, X-Ray Crystallographic Structure Of A Papain-Leupeptin
Complex
pdb|1CVZ|A Chain A, Crystal Structure Analysis Of Papain With
Clik148(Cathepsin L Specific Inhibitor)
pdb|1BP4|A Chain A, Use Of Papain As A Model For The Structure-Based Design Of
Cathepsin K Inhibitors. Crystal Structures Of Two Papain
Inhibitor Complexes Demonstrate Binding To S'-Subsites.
pdb|1BQI|A Chain A, Use Of Papain As A Model For The Structure-Based Design Of
Cathepsin K Inhibitors. Crystal Structures Of Two Papain
Inhibitor Complexes Demonstrate Binding To S'-Subsites.
pdb|1PE6|A Chain A, Refined X-Ray Structure Of Papain(Dot)e-64-C Complex At
2.1-Angstroms Resolution
pdb|1PPD|A Chain A, Restrained Least-Squares Refinement Of The Sulfhydryl
Protease Papain To 2.0 Angstroms
pdb|2PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|4PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|6PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|1PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
pdb|5PAD|A Chain A, Binding Of Chloromethyl Ketone Substrate Analogues To
Crystalline Papain
Length = 212
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 47/184 (25%), Positives = 68/184 (36%), Gaps = 25/184 (13%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W Q ++ + +QG CGSCWAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 168 XXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
YP SA + +G+ PY C P VR+ NQ +
Sbjct: 65 GGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GAL 121
Query: 227 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKL 285
YSI+ N PV V +DF Y+ G++ G+ + HAV
Sbjct: 122 LYSIA-----------------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKV-DHAVAA 163
Query: 286 IGWG 289
+G+G
Sbjct: 164 VGYG 167
>pdb|1KHP|A Chain A, Monoclinic Form Of Papain/zlfg-dam Covalent Complex
pdb|1KHQ|A Chain A, Orthorhombic Form Of PapainZLFG-Dam Covalent Complex
pdb|1PPN|A Chain A, Structure Of Monoclinic Papain At 1.60 Angstroms
Resolution
pdb|3E1Z|B Chain B, Crystal Structure Of The Parasite Protesase Inhibitor
Chagasin In Complex With Papain
Length = 212
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 43/183 (23%), Positives = 71/183 (38%), Gaps = 23/183 (12%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W Q ++ + +QG CGSCWAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSCWAFSAVVTIEGIIKIRTG-NLN-EYSEQELLDCDRRSYGCN 64
Query: 168 XXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKH 227
YP SA + +G+ ++ +T YP R C + + +K
Sbjct: 65 GGYPWSALQLVAQYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKT 107
Query: 228 YSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLI 286
+ ++ E + N PV V +DF Y+ G++ G+ + HAV +
Sbjct: 108 DGVR--QVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKV-DHAVAAV 164
Query: 287 GWG 289
G+G
Sbjct: 165 GYG 167
>pdb|1PCI|A Chain A, Procaricain
pdb|1PCI|B Chain B, Procaricain
pdb|1PCI|C Chain C, Procaricain
Length = 322
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 96 LKLPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLS 150
+ LP++ D W + ++ + QG CGSCWAF AV + I G + LS
Sbjct: 105 VNLPENVD----WRKKGAVTPVRHQGSCGSCWAFSAVATVEGINKIRTGKLVELS 155
>pdb|1MHW|A Chain A, Design Of Non-covalent Inhibitors Of Human Cathepsin L.
From The 96- Residue Proregion To Optimized Tripeptides
pdb|1MHW|B Chain B, Design Of Non-covalent Inhibitors Of Human Cathepsin L.
From The 96- Residue Proregion To Optimized Tripeptides
Length = 175
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 75/198 (37%), Gaps = 35/198 (17%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P+S D W + ++ + +QG CGS WAF A AL + G +SLS
Sbjct: 2 PRSVD----WREKGYVTPVKNQGQCGSXWAFSATGALEGQMFRKTGRLISLSEQNLVDCS 57
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKK 218
A++Y +G + DS E +YP C
Sbjct: 58 GPQGNEGCNGGLMDYAFQYVQDNGGL--------DS--------EESYPYEATEESC--- 98
Query: 219 NQLWRNSKHYSISA----YRINSDPEDIMAEIYKNGPVEVSFTV-YEDFAHYKSGVY--K 271
+ + YS++ I + +M + GP+ V+ +E F YK G+Y
Sbjct: 99 ----KYNPKYSVANDTGFVDIPKQEKALMKAVATVGPISVAIDAGHESFLFYKEGIYFEP 154
Query: 272 HITGDVMGGHAVKLIGWG 289
+ + M H V ++G+G
Sbjct: 155 DCSSEDM-DHGVLVVGYG 171
>pdb|1AIM|A Chain A, Cruzain Inhibited By
Benzoyl-Tyrosine-Alanine-Fluoromethylketone
Length = 215
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 67/193 (34%), Gaps = 21/193 (10%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W ++ + DQG CGSCWAF A+ + ++ + +LS
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGG 66
Query: 168 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 227 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 286
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEAL-DHGVLLV 167
Query: 287 GWGTSDDGEDYWV 299
G+ S YW+
Sbjct: 168 GYNDS-AAVPYWI 179
>pdb|1PPO|A Chain A, Determination Of The Structure Of Papaya Protease Omega
Length = 216
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLS 150
LP++ D W + ++ + QG CGSCWAF AV + I G + LS
Sbjct: 1 LPENVD----WRKKGAVTPVRHQGSCGSCWAFSAVATVEGINKIRTGKLVELS 49
>pdb|1MEG|A Chain A, Crystal Structure Of A Caricain D158e Mutant In Complex
With E-64
Length = 216
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLS 150
LP++ D W + ++ + QG CGSCWAF AV + I G + LS
Sbjct: 1 LPENVD----WRKKGAVTPVRHQGSCGSCWAFSAVATVEGINKIRTGKLVELS 49
>pdb|1O0E|A Chain A, 1.9 Angstrom Crystal Structure Of A Plant Cysteine
Protease Ervatamin C
pdb|1O0E|B Chain B, 1.9 Angstrom Crystal Structure Of A Plant Cysteine
Protease Ervatamin C
Length = 208
Score = 37.0 bits (84), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLS 150
LP+ D W + ++ + +QG CGSCWAF V + I G +SLS
Sbjct: 1 LPEQID----WRKKGAVTPVKNQGSCGSCWAFSTVSTVESINQIRTGNLISLS 49
>pdb|1EWP|A Chain A, Cruzain Bound To Mor-Leu-Hpq
pdb|1F29|A Chain A, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (I)
pdb|1F29|B Chain B, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (I)
pdb|1F29|C Chain C, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (I)
pdb|1F2A|A Chain A, Crystal Structure Analysis Of Cruzain Bound To A Vinyl
Sulfone Derived Inhibitor (Ii)
pdb|1F2B|A Chain A, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (Iii)
pdb|1F2C|A Chain A, Crystal Structure Analysis Of Cryzain Bound To Vinyl
Sulfone Derived Inhibitor (Iv)
pdb|1ME3|A Chain A, High Resolution Crystal Structure Analysis Of Cruzain Non-
Covalently Bound To A Hydroxymethyl Ketone Inhibitor
(Ii)
pdb|1ME4|A Chain A, High Resolution Crystal Structure Analysis Of Cruzain
Non-Covalently Bound To A Hydroxymethyl Ketone Inhibitor
(I)
pdb|1EWL|A Chain A, Crystal Structure Of Cruzain Bound To Wrr-99
pdb|1EWM|A Chain A, The Cysteine Protease Cruzain Bound To Wrr-112
pdb|1EWO|A Chain A, The Cysteine Protease Cruzain Bound To Wrr-204
pdb|1U9Q|X Chain X, Crystal Structure Of Cruzain Bound To An Alpha-Ketoester
pdb|2AIM|A Chain A, Cruzain Inhibited With
Benzoyl-Arginine-Alanine-Fluoromethylketone
pdb|2OZ2|A Chain A, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (K11777)
pdb|2OZ2|C Chain C, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (K11777)
pdb|3I06|A Chain A, Crystal Structure Of Cruzain Covalently Bound To A Purine
Nitrile
pdb|3KKU|A Chain A, Cruzain In Complex With A Non-Covalent Ligand
pdb|3LXS|A Chain A, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (Wrr483)
pdb|3LXS|C Chain C, Crystal Structure Analysis Of Cruzain Bound To Vinyl
Sulfone Derived Inhibitor (Wrr483)
Length = 215
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 67/193 (34%), Gaps = 21/193 (10%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W ++ + DQG CGSCWAF A+ + ++ + +LS
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLSEQMLVSCDKTDSGCSGG 66
Query: 168 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 227 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 286
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQL-DHGVLLV 167
Query: 287 GWGTSDDGEDYWV 299
G+ S YW+
Sbjct: 168 GYNDS-AAVPYWI 179
>pdb|1XKG|A Chain A, Crystal Structure Of The Major House Dust Mite Allergen
Der P 1 In Its Pro Form At 1.61 A Resolution
Length = 312
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 71/203 (34%), Gaps = 28/203 (13%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P D R Q T++ I QG CGS WAF V A + + +L L+
Sbjct: 91 PAEIDLR----QMRTVTPIRMQGGCGSAWAFSGVAATESAYLAYRDQSLDLAEQELVDCA 146
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 217
I Y H+GVV E Y C P + + C
Sbjct: 147 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYC------ 197
Query: 218 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYK-SGVYKHITGD 276
+ Y +A +I + +A+ + V + + F HY + + G
Sbjct: 198 --------QIYPPNANKI----REALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGY 245
Query: 277 VMGGHAVKLIGWGTSDDGEDYWV 299
HAV ++G+ + G DYW+
Sbjct: 246 QPNYHAVNIVGYSNA-QGVDYWI 267
>pdb|3IOQ|A Chain A, Crystal Structure Of The Carica Candamarcensis Cysteine
Protease Cms1ms2 In Complex With E-64
Length = 213
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 48/193 (24%), Positives = 73/193 (37%), Gaps = 25/193 (12%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
+P S D W Q ++ + +QG CGSCW F +V A+ I G LSLS
Sbjct: 1 IPTSID----WRQKGAVTPVRNQGGCGSCWTFSSVAAVEGINKIVTGQLLSLSE--QELL 54
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 217
+P+ A +Y + G+ + PY G PK V
Sbjct: 55 DCERRSYGCRGGFPLYALQYVANSGIHLRQYYPY---EGVQRQCRASQAKGPKVKTDGVG 111
Query: 218 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDV 277
+ + RN++ I RI P I+ E F +Y+ G++ G
Sbjct: 112 R--VPRNNEQALIQ--RIAIQPVSIVVEAKG-----------RAFQNYRGGIFAGPCGTS 156
Query: 278 MGGHAVKLIGWGT 290
+ HAV +G+G
Sbjct: 157 I-DHAVAAVGYGN 168
>pdb|3IUT|A Chain A, The Crystal Structure Of Cruzain In Complex With A
Tetrafluorophenoxymethyl Ketone Inhibitor
Length = 221
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 44/195 (22%), Positives = 69/195 (35%), Gaps = 25/195 (12%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W ++ + DQG CGSCWAF A+ + ++ + +L+
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLAEQMLVSCDKTDSGCSGG 66
Query: 168 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 227 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 286
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQL-DHGVLLV 167
Query: 287 GWGTSDDGED--YWV 299
G+ +DG YW+
Sbjct: 168 GY---NDGAAVPYWI 179
>pdb|3HD3|A Chain A, High Resolution Crystal Structure Of Cruzain Bound To The
Vinyl Sulfone Inhibitor Smdc-256047
pdb|3HD3|B Chain B, High Resolution Crystal Structure Of Cruzain Bound To The
Vinyl Sulfone Inhibitor Smdc-256047
Length = 215
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 44/195 (22%), Positives = 69/195 (35%), Gaps = 25/195 (12%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W ++ + DQG CGSCWAF A+ + ++ + +L+
Sbjct: 7 WRARGAVTAVKDQGQCGSCWAFSAIGNVECQWFLAGHPLTNLAEQMLVSCDKTDSGCSGG 66
Query: 168 XXYPISAWRYFVHHGVV-TEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
W ++G V TE+ PY G S P + + V+ Q
Sbjct: 67 LMNNAFEWIVQENNGAVYTEDSYPYASGEGISPPCTTSGHTVGATITGHVELPQ------ 120
Query: 227 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKSGVYKHITGDVMGGHAVKLI 286
D I A + NGPV V+ + Y GV + + H V L+
Sbjct: 121 -----------DEAQIAAWLAVNGPVAVAVDA-SSWMTYTGGVMTSCVSEQL-DHGVLLV 167
Query: 287 GWGTSDDGED--YWV 299
G+ +DG YW+
Sbjct: 168 GY---NDGAAVPYWI 179
>pdb|3F5V|A Chain A, C2 Crystal Form Of Mite Allergen Der P 1
pdb|3F5V|B Chain B, C2 Crystal Form Of Mite Allergen Der P 1
Length = 222
Score = 35.4 bits (80), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 71/203 (34%), Gaps = 28/203 (13%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXX 158
P D R Q T++ I QG CGS WAF V A + + +L L+
Sbjct: 11 PAEIDLR----QMRTVTPIRMQGGCGSXWAFSGVAATESAYLAYRQQSLDLAEQELVDCA 66
Query: 159 XXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYF-DSTGCSHPGCEPAYPTPKCVRKCVK 217
I Y H+GVV E Y C P + + C
Sbjct: 67 SQHGCHGDTIPRGIE---YIQHNGVVQESYYRYVAREQSCRRPNAQRFGISNYC------ 117
Query: 218 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSFTVYEDFAHYKS-GVYKHITGD 276
+ Y +A +I + +A+ + V + + F HY + + G
Sbjct: 118 --------QIYPPNANKI----REALAQTHSAIAVIIGIKDLDAFRHYDGRTIIQRDNGY 165
Query: 277 VMGGHAVKLIGWGTSDDGEDYWV 299
HAV ++G+ + G DYW+
Sbjct: 166 QPNYHAVNIVGYSNA-QGVDYWI 187
>pdb|1STF|E Chain E, The Refined 2.4 Angstroms X-Ray Crystal Structure Of
Recombinant Human Stefin B In Complex With The Cysteine
Proteinase Papain: A Novel Type Of Proteinase Inhibitor
Interaction
pdb|9PAP|A Chain A, Structure Of Papain Refined At 1.65 Angstroms Resolution
Length = 212
Score = 34.3 bits (77), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 67/184 (36%), Gaps = 25/184 (13%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W Q ++ + +QG CGS WAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSXWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 168 XXYPISAWRYFVHHGVVTEECDPYFD-STGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSK 226
YP SA + +G+ PY C P VR+ NQ +
Sbjct: 65 GGYPWSALQLVAQYGIHYRNTYPYEGVQRYCRSREKGPYAAKTDGVRQVQPYNQ---GAL 121
Query: 227 HYSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKL 285
YSI+ N PV V +DF Y+ G++ G+ + HAV
Sbjct: 122 LYSIA-----------------NQPVSVVLQAAGKDFQLYRGGIFVGPCGNKV-DHAVAA 163
Query: 286 IGWG 289
+G+G
Sbjct: 164 VGYG 167
>pdb|1GEC|E Chain E, Glycyl Endopeptidase-complex With
Benzyloxycarbonyl-leucine-valine- Glycine-methylene
Covalently Bound To Cysteine 25
Length = 216
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 41/190 (21%), Positives = 69/190 (36%), Gaps = 27/190 (14%)
Query: 98 LPKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXX 157
LP+S D W ++ + QG+C SCWAF V + I G + LS
Sbjct: 1 LPESVD----WRAKGAVTPVKHQGYCESCWAFSTVATVEGINKIKTGNLVELS--EQELV 54
Query: 158 XXXXXXXXXXXXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVK 217
Y ++ +Y +G+ PY ++ +
Sbjct: 55 DCDLQSYGCNRGYQSTSLQYVAQNGIHLRAKYPYIAK------------------QQTCR 96
Query: 218 KNQLWRNSKHYSISAYRINSDPEDIMAEIYKNGPVEVSF-TVYEDFAHYKSGVYKHITGD 276
NQ+ K + R+ S+ E + + PV V + DF +YK G+++ G
Sbjct: 97 ANQVG-GPKVKTNGVGRVQSNNEGSLLNAIAHQPVSVVVESAGRDFQNYKGGIFEGSCGT 155
Query: 277 VMGGHAVKLI 286
+ HAV +
Sbjct: 156 KV-DHAVTAV 164
>pdb|1M6D|A Chain A, Crystal Structure Of Human Cathepsin F
pdb|1M6D|B Chain B, Crystal Structure Of Human Cathepsin F
Length = 214
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 99 PKSFDARSAWPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFG 144
P +D RS ++++ DQG CGSCWAF + ++ ++ G
Sbjct: 2 PPEWDWRSK----GAVTKVKDQGMCGSCWAFSVTGNVEGQWFLNQG 43
>pdb|2CIO|A Chain A, The High Resolution X-Ray Structure Of Papain Complexed
With Fragments Of The Trypanosoma Brucei Cysteine
Protease Inhibitor Icp
Length = 212
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 42/183 (22%), Positives = 70/183 (38%), Gaps = 23/183 (12%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W Q ++ + +QG CGS WAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSXWAFSAVVTIEGIIKIRTG-NLN-QYSEQELLDCDRRSYGCN 64
Query: 168 XXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKH 227
YP SA + +G+ ++ +T YP R C + + +K
Sbjct: 65 GGYPWSALQLVAQYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKT 107
Query: 228 YSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLI 286
+ ++ E + N PV V +DF Y+ G++ G+ + HAV +
Sbjct: 108 DGVR--QVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKV-DHAVAAV 164
Query: 287 GWG 289
G+G
Sbjct: 165 GYG 167
>pdb|3IMA|A Chain A, Complex Strcuture Of Tarocystatin And Papain
pdb|3IMA|C Chain C, Complex Strcuture Of Tarocystatin And Papain
pdb|3LFY|A Chain A, Ctd Of Tarocystatin In Complex With Papain
pdb|3LFY|C Chain C, Ctd Of Tarocystatin In Complex With Papain
Length = 212
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 42/183 (22%), Positives = 70/183 (38%), Gaps = 23/183 (12%)
Query: 108 WPQCSTISRILDQGHCGSCWAFGAVEALSDRFCIHFGMNLSLSVNXXXXXXXXXXXXXXX 167
W Q ++ + +QG CGS WAF AV + I G NL+ +
Sbjct: 7 WRQKGAVTPVKNQGSCGSXWAFSAVVTIEGIIKIRTG-NLN-EYSEQELLDCDRRSYGCN 64
Query: 168 XXYPISAWRYFVHHGVVTEECDPYFDSTGCSHPGCEPAYPTPKCVRKCVKKNQLWRNSKH 227
YP SA + +G+ ++ +T YP R C + + +K
Sbjct: 65 GGYPWSALQLVAQYGI-------HYRNT----------YPYEGVQRYCRSREKGPYAAKT 107
Query: 228 YSISAYRINSDPEDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITGDVMGGHAVKLI 286
+ ++ E + N PV V +DF Y+ G++ G+ + HAV +
Sbjct: 108 DGVR--QVQPYNEGALLYSIANQPVSVVLEAAGKDFQLYRGGIFVGPCGNKV-DHAVAAV 164
Query: 287 GWG 289
G+G
Sbjct: 165 GYG 167
>pdb|3S88|I Chain I, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Gulu) Bound To 16f6
Length = 298
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 59/156 (37%), Gaps = 29/156 (18%)
Query: 15 LGVISSQTFAEGVVSKLKLDSHILQDSIIKEVNEN----------PKA----GWKAARNP 60
LGV+++ T + +L H+ +K V N P A G+++ P
Sbjct: 20 LGVVTNSTLEVTEIDQLVCKDHLASTDQLKSVGLNLEGSGVSTDIPSATKRWGFRSGVPP 79
Query: 61 QFSNYTVGQFKHLLGVKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRILDQ 120
+ +Y G++ + +K D S LP D +P+C + +
Sbjct: 80 KVVSYEAGEWAENC----------YNLEIKKPDGSECLPPPPDGVRGFPRCRYVHKAQGT 129
Query: 121 GHCGSCWAFGAVEA--LSDRFC---IHFGMNLSLSV 151
G C +AF A L DR I+ G+N + V
Sbjct: 130 GPCPGDYAFHKDGAFFLYDRLASTVIYRGVNFAEGV 165
>pdb|3VE0|I Chain I, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Boniface) Bound To 16f6
Length = 298
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 59/156 (37%), Gaps = 29/156 (18%)
Query: 15 LGVISSQTFAEGVVSKLKLDSHILQDSIIKEVNEN----------PKA----GWKAARNP 60
LGV+++ T + +L H+ +K V N P A G+++ P
Sbjct: 20 LGVVTNSTLEVTEIDQLVCKDHLASTDQLKSVGLNLEGSGVSTDIPSATKRWGFRSGVPP 79
Query: 61 QFSNYTVGQFKHLLGVKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCSTISRILDQ 120
+ +Y G++ + +K D S LP D +P+C + +
Sbjct: 80 KVVSYEAGEWAENC----------YNLEIKKPDGSECLPPPPDGVRGFPRCRYVHKAQGT 129
Query: 121 GHCGSCWAFGAVEA--LSDRFC---IHFGMNLSLSV 151
G C +AF A L DR I+ G+N + V
Sbjct: 130 GPCPGDYAFHKDGAFFLYDRLASTVIYRGVNFAEGV 165
>pdb|2EKL|A Chain A, Structure Of St1218 Protein From Sulfolobus Tokodaii
Length = 313
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 258 VYEDFAHYKSGVYKHITGDVMGGHAVKLIGWG 289
+Y A KSG++K I G + G + ++G+G
Sbjct: 120 MYTSMALAKSGIFKKIEGLELAGKTIGIVGFG 151
>pdb|1W78|A Chain A, E.Coli Folc In Complex With Dhpp And Adp
pdb|1W7K|A Chain A, E.Coli Folc In Complex With Adp, Without Folate Substrate
Length = 422
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 15/77 (19%)
Query: 29 SKLKLDSHILQDSI--------IKEVNENPKAGWKAARNPQFSNYTVGQFKHLLGVKPTP 80
S L++ + ++D I + V+E+P+ + A NP + Y G+ K L P
Sbjct: 268 SGLEVSENAIRDGIASAILPGRFQIVSESPRVIFDVAHNPHAAEYLTGRMKAL------P 321
Query: 81 K-GLLLGVPVKTHDKSL 96
K G +L V HDK +
Sbjct: 322 KNGRVLAVIGMLHDKDI 338
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|2IAJ|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 560
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DRS|A Chain A, Hiv Reverse Transcriptase K103n Mutant In Complex With
Inhibitor R8d
pdb|3LP0|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP1|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP2|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3T1A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M05
pdb|3T1A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M05
pdb|3TAM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M06
Length = 563
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2RF2|A Chain A, Hiv Reverse Transcriptase In Complex With Inhibitor 7e
(Nnrti)
pdb|3C6T|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 14
pdb|3C6U|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 22
pdb|3DRP|A Chain A, Hiv Reverse Transcriptase In Complex With Inhibitor R8e
pdb|3I0R|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 3
pdb|3I0S|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 7
pdb|3T19|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Wild
Type) In Complex With Inhibitor M05
pdb|3T19|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Wild
Type) In Complex With Inhibitor M05
pdb|2YNG|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk560
pdb|2YNH|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk500
pdb|2YNI|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk952
Length = 563
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|4B3Q|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3P|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JLE|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase
pdb|1JLG|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|1IKV|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
Efivarenz
pdb|1IKX|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
The Inhibitor Pnu142721
pdb|1IKY|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc194
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3O|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S6P|A Chain A, Crystal Structure Of Human Immunodeficiency Virus Type 1
Reverse Transcriptase (Rt) In Complex With
Janssen-R100943
pdb|1S6Q|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R147681
pdb|1S9E|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R129385
pdb|1S9G|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R120394.
pdb|1SUQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R185545
pdb|2B6A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Thr-50
pdb|2B5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R165481
pdb|2BAN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R157208
pdb|2BE2|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With R221239
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JKH|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1JLA|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|1JLB|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1JLC|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3JSM|A Chain A, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds-Dna And Complexed With Tenofovir-Diphosphate As The
Incoming Nucleotide Substrate
pdb|3JYT|A Chain A, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds- Dna And Complexed With Datp As The Incoming
Nucleotide Substrate
Length = 558
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1QE1|A Chain A, Crystal Structure Of 3tc-Resistant M184i Mutant Of Hiv-1
Reverse Transcriptase
pdb|1J5O|A Chain A, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 558
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3MED|A Chain A, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc125
pdb|3MEG|A Chain A, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc278
pdb|2WOM|A Chain A, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (K103n)
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2JLE|A Chain A, Novel Indazole Nnrtis Created Using Molecular Template
Hybridization Based On Crystallographic Overlays
pdb|2JLE|B Chain B, Novel Indazole Nnrtis Created Using Molecular Template
Hybridization Based On Crystallographic Overlays
Length = 566
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DI6|A Chain A, Hiv-1 Rt With Pyridazinone Non-Nucleoside Inhibitor
pdb|3DYA|A Chain A, Hiv-1 Rt With Non-Nucleoside Inhibitor Annulated Pyrazole
1
pdb|3E01|A Chain A, Hiv-Rt With Non-Nucleoside Inhibitor Annulated Pyrazole 2
pdb|3M8P|A Chain A, Hiv-1 Rt With Nnrti Tmc-125
pdb|3M8Q|A Chain A, Hiv-1 Rt With Aminopyrimidine Nnrti
pdb|3NBP|A Chain A, Hiv-1 Reverse Transcriptase With Aminopyrimidine Inhibitor
2
Length = 561
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DM2|A Chain A, Crystal Structure Of Hiv-1 K103n Mutant Reverse
Transcriptase In Complex With Gw564511.
pdb|3DOK|A Chain A, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw678248
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2OPP|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 542
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|1HPZ|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQE|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQU|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1SV5|A Chain A, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase (Rt) In Complex With Janssen-R165335
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1N5Y|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1T03|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|1T05|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Template-Primer
With Tenofovir-Diphosphate Bound As The Incoming
Nucleotide Substrate
pdb|1R0A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
Length = 558
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1IKW|A Chain A, Wild Type Hiv-1 Reverse Transcriptase In Complex With
Efavirenz
pdb|3ISN|C Chain C, Crystal Structure Of Hiv-1 Rt Bound To A 6-Vinylpyrimidine
Inhibitor
pdb|3ITH|A Chain A, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
pdb|3ITH|C Chain C, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1REV|A Chain A, Hiv-1 Reverse Transcriptase
pdb|1RT2|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Tnk-651
pdb|1RT1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Mkc-442
pdb|1KLM|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Bhap U-90152
pdb|1RT4|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc781
pdb|1RT5|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc10
pdb|1RT6|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc38
pdb|1RT7|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc84
pdb|1DTT|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-2 (Pett130a94)
pdb|1DTQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-1 (Pett131a94)
pdb|1C1B|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gca-186
pdb|1C1C|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Tnk-6123
pdb|1C0T|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+21.1326
pdb|1C0U|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+50.0934
pdb|1EP4|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With S-1153
pdb|1JLQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With 739w94
pdb|1TKT|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw426318
pdb|1TKX|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw490745
pdb|1TKZ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw429576
pdb|1TL1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw451211
pdb|1TL3|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw450557
pdb|3DLE|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gf128590.
pdb|3DLG|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw564511.
pdb|1RTJ|A Chain A, Mechanism Of Inhibition Of Hiv-1 Reverse Transcriptase By
Non-Nucleoside Inhibitors
pdb|1RTI|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRT|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1RTH|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRU|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
Length = 560
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HNI|A Chain A, Structure Of Hiv-1 Reverse Transcriptase In A Complex With
The Nonnucleoside Inhibitor Alpha-Apa R 95845 At 2.8
Angstroms Resolution
pdb|1HNV|A Chain A, Structure Of Hiv-1 Rt(Slash)tibo R 86183 Complex Reveals
Similarity In The Binding Of Diverse Nonnucleoside
Inhibitors
pdb|1TVR|A Chain A, Hiv-1 Rt9-Cl Tibo
pdb|2HMI|A Chain A, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
Length = 558
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3QO9|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tsao-T, A Non-Nucleoside Rt Inhibitor
(Nnrti)
Length = 557
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|3DMJ|B Chain B, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 440
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3BGR|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|4I2Q|A Chain A, Crystal Structure Of K103n/y181c Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Rilpivirine (tmc278)
Analogue
Length = 557
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|2HNY|B Chain B, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|2HNZ|B Chain B, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 422
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 314 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 353
>pdb|2HNY|A Chain A, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|2HNZ|A Chain A, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 534
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|1LWF|A Chain A, Crystal Structure Of A Mutant Hiv-1 Reverse Transcriptase
(rtmq+m184v: M41l/d67n/k70r/m184v/t215y) In Complex With
Nevirapine
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2RKI|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Triazole Derived Nnrti
pdb|3LAK|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Heterocycle Pyrimidinedione
Non-Nucleoside Inhibitor
pdb|3LAK|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Heterocycle Pyrimidinedione
Non-Nucleoside Inhibitor
pdb|3LAL|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Ethyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAL|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Ethyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Propyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Propyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Butyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Butyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3MEC|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Tmc125
pdb|3MEE|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Tmc278
pdb|2WON|A Chain A, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (Wild-Type).
pdb|3QIP|A Chain A, Structure Of Hiv-1 Reverse Transcriptase In Complex With
An Rnase H Inhibitor And Nevirapine
pdb|4I7F|A Chain A, Hiv-1 Reverse Transcriptase In Complex With A Phosphonate
Analog Of Nevirapine
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LW0|A Chain A, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1LW2|A Chain A, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With 1051u91
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HMV|A Chain A, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1TV6|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Cp-94,707
pdb|1HMV|C Chain C, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|E Chain E, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|G Chain G, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3V4I|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V4I|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V6D|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V6D|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V81|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|3V81|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
Length = 556
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3KLH|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 564
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3KLE|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|E Chain E, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|I Chain I, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|M Chain M, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLG|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLG|E Chain E, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLI|A Chain A, Crystal Structure Of Unliganded Azt-Resistant Hiv-1
Reverse Transcriptase
Length = 562
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3KJV|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Dna
pdb|3KK1|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Nuceotide
Inhibitor Gs- 9148-Diphosphate Bound In Nucleotide Site
pdb|3KK2|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Datp Bound In
The Nucleotide Binding Site
pdb|3KK3|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Gs-9148
Terminated Primer
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3DRR|B Chain B, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 443
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|2OPS|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 542
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 319 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 358
>pdb|1HVU|A Chain A, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|D Chain D, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|G Chain G, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|J Chain J, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
Length = 554
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1T|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
pdb|1S1U|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1S1V|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|3DOL|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw695634
Length = 560
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1RTD|A Chain A, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1RTD|C Chain C, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
Length = 554
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3KLF|A Chain A, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|E Chain E, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|I Chain I, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|M Chain M, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
Length = 557
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|3IRX|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With The Non-Nucleoside Rt Inhibitor
(E)-S-Methyl
5-(1-(3,7-Dimethyl-2-Oxo-2,
3-Dihydrobenzo[d]oxazol-5-Yl)-5-
(5-Methyl-1,3,4-Oxadiazol-2-Yl)pent-1-Enyl)-2-Methoxy-3-
Methylbenzothioate.
pdb|3IS9|A Chain A, Crystal Structure Of The Hiv-1 Reverse Transcriptase (Rt)
In Complex With The Alkenyldiarylmethane (Adam)
Non-Nucleoside Rt Inhibitor Dimethyl
3,3'-(6-Methoxy-6-Oxohex-1-Ene-1,1-
Diyl)bis(5-Cyano-6-Methoxybenzoate)
Length = 558
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|2OPQ|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 534
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|2ZD1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tmc278 (Rilpivirine), A Non-Nucleoside Rt
Inhibitor
pdb|4H4M|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With (E)-
3-(3-Chloro-5-(4-Chloro-2-(2-(2,4-Dioxo-3,4-
Dihydropyrimidin-1(2h)-
Yl)ethoxy)phenoxy)phenyl)acrylonitrile (Jlj494), A
Non-Nucleoside Inhibitor
pdb|4H4O|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With
(E)-3-(3-(2-(2-(2,4-Dioxo-3,
4-Dihydropyrimidin-1(2h)-Yl)ethoxy)- 4-
Fluorophenoxy)-5-Fluorophenyl)acrylonitrile (Jlj506), A
Non- Nucleoside Inhibitor
pdb|4I2P|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Rilpivirine (tmc278) Based Analogue
pdb|4G1Q|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (rt) In
Complex With Rilpivirine (tmc278, Edurant), A
Non-nucleoside Rt-inhibiting Drug
pdb|4I7G|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At Nnrti
Adjacent Site
pdb|4ICL|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Incoming Dntp Binding Site
pdb|4ID5|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Rnase H Primer Grip Site
pdb|4IDK|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The 428
Site
pdb|4IFV|A Chain A, Detecting Allosteric Sites Of Hiv-1 Reverse Transcriptase
By X-ray Crystallographic Fragment Screening
pdb|4IFY|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Knuckles Site
pdb|4IG0|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The 507
Site
pdb|4IG3|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment Near
Knuckles Site
Length = 557
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2YKN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
Length = 562
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2VG5|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG6|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG7|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
Length = 557
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3P|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
pdb|4B3Q|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 454
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 334 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 373
>pdb|1FK9|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Dmp- 266(Efavirenz)
Length = 543
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JKH|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1JLA|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|1JLB|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1JLC|B Chain B, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 440
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 319 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 358
>pdb|2HND|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 534
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 317 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 356
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1JLE|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase
pdb|1JLF|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1JLG|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 440
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1T05|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Template-Primer
With Tenofovir-Diphosphate Bound As The Incoming
Nucleotide Substrate
Length = 437
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1T03|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|3JSM|B Chain B, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds-Dna And Complexed With Tenofovir-Diphosphate As The
Incoming Nucleotide Substrate
pdb|3JYT|B Chain B, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds- Dna And Complexed With Datp As The Incoming
Nucleotide Substrate
Length = 437
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1FKO|A Chain A, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1FKP|A Chain A, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Nevirapine
Length = 543
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3QLH|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Manicol At The
Rnase H Active Site And Tmc278 (rilpivirine) At The
Nnrti Binding Pocket
Length = 555
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|3DLK|B Chain B, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
pdb|3QLH|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Manicol At The
Rnase H Active Site And Tmc278 (rilpivirine) At The
Nnrti Binding Pocket
Length = 423
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>pdb|2ZE2|A Chain A, Crystal Structure Of L100iK103N MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
Length = 557
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 322 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 361
>pdb|2HND|B Chain B, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 422
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 314 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 353
>pdb|2OPS|B Chain B, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 435
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>pdb|2OPP|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 427
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2YNF|B Chain B, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
pdb|2YNG|B Chain B, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk560
pdb|2YNH|B Chain B, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk500
pdb|2YNI|B Chain B, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk952
Length = 447
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 339 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 378
>pdb|2YKM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
Length = 562
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3KLF|B Chain B, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|F Chain F, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|J Chain J, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|N Chain N, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
Length = 444
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 336 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 375
>pdb|3KLE|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|F Chain F, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|J Chain J, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|N Chain N, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLG|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLG|F Chain F, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLH|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
pdb|3KLI|B Chain B, Crystal Structure Of Unliganded Azt-Resistant Hiv-1
Reverse Transcriptase
Length = 437
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3KJV|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Dna
pdb|3KK1|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Nuceotide
Inhibitor Gs- 9148-Diphosphate Bound In Nucleotide Site
pdb|3KK2|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Datp Bound In
The Nucleotide Binding Site
pdb|3KK3|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Gs-9148
Terminated Primer
Length = 452
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 332 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 371
>pdb|1S1W|B Chain B, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 440
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1RT3|B Chain B, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 440
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1R0A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
pdb|2I5J|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 429
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2OPR|B Chain B, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 426
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 315 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 354
>pdb|2HMI|B Chain B, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
pdb|1BQM|B Chain B, Hiv-1 RtHBY 097
pdb|1N5Y|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|B Chain B, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1S6P|B Chain B, Crystal Structure Of Human Immunodeficiency Virus Type 1
Reverse Transcriptase (Rt) In Complex With
Janssen-R100943
pdb|1S6Q|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R147681
pdb|1S9E|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R129385
pdb|1S9G|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R120394.
pdb|1SUQ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R185545
pdb|2B6A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Thr-50
pdb|2B5J|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R165481
pdb|2BAN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R157208
pdb|2BE2|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With R221239
Length = 430
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4I7G|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At Nnrti
Adjacent Site
pdb|4ICL|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Incoming Dntp Binding Site
pdb|4ID5|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Rnase H Primer Grip Site
pdb|4IDK|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The 428
Site
pdb|4IFV|B Chain B, Detecting Allosteric Sites Of Hiv-1 Reverse Transcriptase
By X-ray Crystallographic Fragment Screening
pdb|4IFY|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Knuckles Site
pdb|4IG0|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The 507
Site
pdb|4IG3|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment Near
Knuckles Site
Length = 429
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|1UWB|B Chain B, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 427
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HYS|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 425
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HVU|B Chain B, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|E Chain E, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|H Chain H, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|K Chain K, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
Length = 423
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>pdb|1BQN|B Chain B, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 430
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3HVT|B Chain B, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
pdb|2VG5|B Chain B, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG6|B Chain B, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG7|B Chain B, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
Length = 428
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HPZ|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1HQE|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1HQU|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1SV5|B Chain B, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase (Rt) In Complex With Janssen-R165335
Length = 430
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1X|B Chain B, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 440
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1RTH|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1RTI|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1RTJ|B Chain B, Mechanism Of Inhibition Of Hiv-1 Reverse Transcriptase By
Non-Nucleoside Inhibitors
pdb|1VRT|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRU|B Chain B, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1REV|B Chain B, Hiv-1 Reverse Transcriptase
pdb|1RT2|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Tnk-651
pdb|1RT1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Mkc-442
pdb|1KLM|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Bhap U-90152
pdb|1RT4|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc781
pdb|1RT5|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc10
pdb|1RT6|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc38
pdb|1RT7|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Uc84
pdb|1RTD|B Chain B, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1RTD|D Chain D, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1DTT|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-2 (Pett130a94)
pdb|1DTQ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-1 (Pett131a94)
pdb|1C1C|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Tnk-6123
pdb|1C0T|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+21.1326
pdb|1C0U|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+50.0934
pdb|1EP4|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With S-1153
pdb|1FK9|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Dmp- 266(Efavirenz)
pdb|1JLQ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With 739w94
pdb|1TKT|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw426318
pdb|1TKX|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw490745
pdb|1TKZ|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw429576
pdb|1TL1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw451211
pdb|1TL3|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw450557
pdb|2RKI|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Triazole Derived Nnrti
pdb|3DLE|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gf128590.
pdb|3DLG|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw564511.
pdb|3DOL|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw695634.
pdb|3DI6|B Chain B, Hiv-1 Rt With Pyridazinone Non-Nucleoside Inhibitor
pdb|3DYA|B Chain B, Hiv-1 Rt With Non-Nucleoside Inhibitor Annulated Pyrazole
1
pdb|3E01|B Chain B, Hiv-Rt With Non-Nucleoside Inhibitor Annulated Pyrazole 2
pdb|3MEC|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Tmc125
pdb|3MEE|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Tmc278
pdb|3M8P|B Chain B, Hiv-1 Rt With Nnrti Tmc-125
pdb|3M8Q|B Chain B, Hiv-1 Rt With Aminopyrimidine Nnrti
pdb|2WON|B Chain B, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (Wild-Type).
pdb|3NBP|B Chain B, Hiv-1 Reverse Transcriptase With Aminopyrimidine Inhibitor
2
pdb|3QIP|B Chain B, Structure Of Hiv-1 Reverse Transcriptase In Complex With
An Rnase H Inhibitor And Nevirapine
pdb|4I7F|B Chain B, Hiv-1 Reverse Transcriptase In Complex With A Phosphonate
Analog Of Nevirapine
Length = 440
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2ZD1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tmc278 (Rilpivirine), A Non-Nucleoside Rt
Inhibitor
pdb|2ZE2|B Chain B, Crystal Structure Of L100iK103N MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|3BGR|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|3IG1|B Chain B, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
pdb|3IRX|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With The Non-Nucleoside Rt Inhibitor
(E)-S-Methyl
5-(1-(3,7-Dimethyl-2-Oxo-2,
3-Dihydrobenzo[d]oxazol-5-Yl)-5-
(5-Methyl-1,3,4-Oxadiazol-2-Yl)pent-1-Enyl)-2-Methoxy-3-
Methylbenzothioate.
pdb|3IS9|B Chain B, Crystal Structure Of The Hiv-1 Reverse Transcriptase (Rt)
In Complex With The Alkenyldiarylmethane (Adam)
Non-Nucleoside Rt Inhibitor Dimethyl
3,3'-(6-Methoxy-6-Oxohex-1-Ene-1,1-
Diyl)bis(5-Cyano-6-Methoxybenzoate).
pdb|3QO9|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tsao-T, A Non-Nucleoside Rt Inhibitor
(Nnrti)
pdb|2YKM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
pdb|2YKN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
pdb|3V4I|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V4I|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V6D|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V6D|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V81|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|3V81|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|4H4M|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With (E)-
3-(3-Chloro-5-(4-Chloro-2-(2-(2,4-Dioxo-3,4-
Dihydropyrimidin-1(2h)-
Yl)ethoxy)phenoxy)phenyl)acrylonitrile (Jlj494), A
Non-Nucleoside Inhibitor
pdb|4H4O|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With
(E)-3-(3-(2-(2-(2,4-Dioxo-3,
4-Dihydropyrimidin-1(2h)-Yl)ethoxy)- 4-
Fluorophenoxy)-5-Fluorophenyl)acrylonitrile (Jlj506), A
Non- Nucleoside Inhibitor
pdb|4I2P|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Rilpivirine (tmc278) Based Analogue
pdb|4I2Q|B Chain B, Crystal Structure Of K103n/y181c Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Rilpivirine (tmc278)
Analogue
pdb|4G1Q|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (rt) In
Complex With Rilpivirine (tmc278, Edurant), A
Non-nucleoside Rt-inhibiting Drug
Length = 428
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|2RF2|B Chain B, Hiv Reverse Transcriptase In Complex With Inhibitor 7e
(Nnrti)
pdb|3C6T|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 14
pdb|3C6U|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 22
pdb|3DRP|B Chain B, Hiv Reverse Transcriptase In Complex With Inhibitor R8e
pdb|3I0R|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 3
pdb|3I0S|B Chain B, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 7
Length = 443
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|3DRS|B Chain B, Hiv Reverse Transcriptase K103n Mutant In Complex With
Inhibitor R8d
pdb|3LP0|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP1|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP2|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3TAM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M06
Length = 443
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 323 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 362
>pdb|1IKV|B Chain B, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
Efivarenz
pdb|1IKX|B Chain B, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
The Inhibitor Pnu142721
pdb|1IKY|B Chain B, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc194
Length = 427
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1J5O|B Chain B, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 430
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1S1T|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
pdb|1S1U|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1S1V|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
Length = 440
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HMV|B Chain B, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1TV6|B Chain B, Hiv-1 Reverse Transcriptase Complexed With Cp-94,707
pdb|1HMV|D Chain D, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|F Chain F, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|H Chain H, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
Length = 440
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1EET|B Chain B, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
pdb|1IKW|B Chain B, Wild Type Hiv-1 Reverse Transcriptase In Complex With
Efavirenz
pdb|3ISN|D Chain D, Crystal Structure Of Hiv-1 Rt Bound To A 6-Vinylpyrimidine
Inhibitor
pdb|3ITH|B Chain B, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
pdb|3ITH|D Chain D, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
Length = 427
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3FFI|B Chain B, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 441
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|2OPQ|B Chain B, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 424
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 316 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 355
>pdb|1QE1|B Chain B, Crystal Structure Of 3tc-Resistant M184i Mutant Of Hiv-1
Reverse Transcriptase
Length = 427
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1HNV|B Chain B, Structure Of Hiv-1 Rt(Slash)tibo R 86183 Complex Reveals
Similarity In The Binding Of Diverse Nonnucleoside
Inhibitors
pdb|1DLO|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1TVR|B Chain B, Hiv-1 Rt9-Cl Tibo
pdb|4DG1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 427
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LWF|B Chain B, Crystal Structure Of A Mutant Hiv-1 Reverse Transcriptase
(rtmq+m184v: M41l/d67n/k70r/m184v/t215y) In Complex With
Nevirapine
Length = 440
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LWC|B Chain B, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 440
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1FKO|B Chain B, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1FKP|B Chain B, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Nevirapine
pdb|3DM2|B Chain B, Crystal Structure Of Hiv-1 K103n Mutant Reverse
Transcriptase In Complex With Gw564511.
pdb|3DOK|B Chain B, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw678248.
pdb|3MED|B Chain B, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc125
pdb|3MEG|B Chain B, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc278
pdb|2WOM|B Chain B, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (K103n)
Length = 440
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|4B3O|B Chain B, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 441
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 321 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 360
>pdb|2IAJ|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 447
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVY-EDFAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y E F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1C1B|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gca-186
Length = 440
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LWE|B Chain B, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 440
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|1LW0|B Chain B, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1LW2|B Chain B, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With 1051u91
Length = 440
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 238 DP-EDIMAEIYKNGPVEVSFTVYED-FAHYKSGVYKHITG 275
DP +D++AEI K G + ++ +Y++ F + K+G Y + G
Sbjct: 320 DPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRG 359
>pdb|3CSY|I Chain I, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|K Chain K, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|M Chain M, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|O Chain O, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
Length = 334
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 17/77 (22%), Positives = 32/77 (41%), Gaps = 10/77 (12%)
Query: 53 GWKAARNPQFSNYTVGQFKHLLGVKPTPKGLLLGVPVKTHDKSLKLPKSFDARSAWPQCS 112
G+++ P+ NY G++ + +K D S LP + D +P+C
Sbjct: 72 GFRSGVPPKVVNYEAGEWAENC----------YNLEIKKPDGSECLPAAPDGIRGFPRCR 121
Query: 113 TISRILDQGHCGSCWAF 129
+ ++ G C +AF
Sbjct: 122 YVHKVSGTGPCAGDFAF 138
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,509,732
Number of Sequences: 62578
Number of extensions: 384861
Number of successful extensions: 1157
Number of sequences better than 100.0: 233
Number of HSP's better than 100.0 without gapping: 107
Number of HSP's successfully gapped in prelim test: 126
Number of HSP's that attempted gapping in prelim test: 968
Number of HSP's gapped (non-prelim): 260
length of query: 300
length of database: 14,973,337
effective HSP length: 98
effective length of query: 202
effective length of database: 8,840,693
effective search space: 1785819986
effective search space used: 1785819986
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)