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= psy6055
(307 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2R37|A Chain A, Crystal Structure Of Human Glutathione Peroxidase 3
(Selenocysteine To Glycine Mutant)
pdb|2R37|B Chain B, Crystal Structure Of Human Glutathione Peroxidase 3
(Selenocysteine To Glycine Mutant)
Length = 207
Score = 74.3 bits (181), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 39/98 (39%), Positives = 59/98 (60%), Gaps = 6/98 (6%)
Query: 209 GKGFVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTR--IGFTEPLTDLKYEPLRNSDVRE 266
G GFVP F +F G VNG E +T+LK++CPPT +G ++ L +EP++ D+R
Sbjct: 102 GGGFVPNFQLFEKGDVNGEKEQKFYTFLKNSCPPTSELLGTSDRLF---WEPMKVHDIRW 158
Query: 267 PYEKFLVGARGYPVARYDASVEPSELEPDIVEELMKRE 304
+EKFLVG G P+ R+ S ++ DI+ M+R+
Sbjct: 159 NFEKFLVGPDGIPIMRWHHRTTVSNVKMDIL-SYMRRQ 195
>pdb|2I3Y|A Chain A, Crystal Structure Of Human Glutathione Peroxidase 5
Length = 215
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/93 (39%), Positives = 54/93 (58%), Gaps = 3/93 (3%)
Query: 209 GKGFVPKFDVFGPGPVNGASEAPLFTYLKDTCP-PTRIGFTEPLTDLKYEPLRNSDVREP 267
G GFVP F +F G VNG E +F++LK +CP P+ I T + ++P++ D+R
Sbjct: 120 GGGFVPSFQLFEKGDVNGEKEQKVFSFLKHSCPHPSEILGT--FKSISWDPVKVHDIRWN 177
Query: 268 YEKFLVGARGYPVARYDASVEPSELEPDIVEEL 300
+EKFLVG G PV R+ S ++ DI+ L
Sbjct: 178 FEKFLVGPDGIPVMRWSHRATVSSVKTDILAYL 210
>pdb|2F8A|A Chain A, Crystal Structure Of The Selenocysteine To Glycine Mutant
Of Human Glutathione Peroxidase 1
pdb|2F8A|B Chain B, Crystal Structure Of The Selenocysteine To Glycine Mutant
Of Human Glutathione Peroxidase 1
Length = 208
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 63/123 (51%), Gaps = 4/123 (3%)
Query: 184 PISGRGYKLRRYKGKVLLIVHFRVSGKGFVPKFDVFGPGPVNGASEAPLFTYLKDTCPPT 243
P + G++ ++L + + G GF P F +F VNGA PLF +L++ P
Sbjct: 87 PCNQFGHQENAKNEEILNSLKYVRPGGGFEPNFMLFEKCEVNGAGAHPLFAFLREALPAP 146
Query: 244 RIGFTEPLTD---LKYEPLRNSDVREPYEKFLVGARGYPVARYDASVEPSELEPDIVEEL 300
T +TD + + P+ +DV +EKFLVG G P+ RY + ++EPDI E L
Sbjct: 147 SDDATALMTDPKLITWSPVCRNDVAWNFEKFLVGPDGVPLRRYSRRFQTIDIEPDI-EAL 205
Query: 301 MKR 303
+ +
Sbjct: 206 LSQ 208
>pdb|1GP1|A Chain A, The Refined Structure Of The Selenoenzyme Glutathione
Peroxidase At 0.2-Nm Resolution
pdb|1GP1|B Chain B, The Refined Structure Of The Selenoenzyme Glutathione
Peroxidase At 0.2-Nm Resolution
Length = 198
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 38/116 (32%), Positives = 57/116 (49%), Gaps = 3/116 (2%)
Query: 184 PISGRGYKLRRYKGKVLLIVHFRVSGKGFVPKFDVFGPGPVNGASEAPLFTYLKDTCPPT 243
P + G++ ++L + + G GF P F +F VNG PLF +L++ P
Sbjct: 73 PCNQFGHQENAKNEEILNCLKYVRPGGGFEPNFMLFEKCEVNGEKAHPLFAFLREVLPTP 132
Query: 244 RIGFTEPLTD---LKYEPLRNSDVREPYEKFLVGARGYPVARYDASVEPSELEPDI 296
T +TD + + P+ +DV +EKFLVG G PV RY ++EPDI
Sbjct: 133 SDDATALMTDPKFITWSPVCRNDVSWNFEKFLVGPDGVPVRRYSRRFLTIDIEPDI 188
>pdb|2HE3|A Chain A, Crystal Structure Of The Selenocysteine To Cysteine Mutant
Of Human Glutathionine Peroxidase 2 (Gpx2)
Length = 208
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 35/91 (38%), Positives = 47/91 (51%), Gaps = 3/91 (3%)
Query: 209 GKGFVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTD---LKYEPLRNSDVR 265
G G+ P F + VNG +E P+F YLKD P +TD + + P+R SDV
Sbjct: 112 GGGYQPTFTLVQKCEVNGQNEHPVFAYLKDKLPYPYDDPFSLMTDPKLIIWSPVRRSDVA 171
Query: 266 EPYEKFLVGARGYPVARYDASVEPSELEPDI 296
+EKFL+G G P RY + +EPDI
Sbjct: 172 WNFEKFLIGPEGEPFRRYSRTFPTINIEPDI 202
>pdb|2WGR|A Chain A, Combining Crystallography And Molecular Dynamics: The Case
Of Schistosoma Mansoni Phospholipid Glutathione
Peroxidase
Length = 169
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 65/170 (38%), Gaps = 64/170 (37%)
Query: 182 VDPISGRGYKLRRYKGKVLLIV-------------------HFRVSGKG----------- 211
V I+G L +Y+G V LIV H R+ GKG
Sbjct: 16 VKDINGVDVSLEKYRGHVCLIVNVACKSGATDKNYRQLQEMHTRLVGKGLRILAFPCNQF 75
Query: 212 -------------FVP-----KFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTD 253
FV +FD+F VNG+ L+ +LK T LT+
Sbjct: 76 GGQEPWAEAEIKKFVTEKYGVQFDMFSKIKVNGSDADDLYKFLKSRQHGT-------LTN 128
Query: 254 LKYEPLRNSDVREPYEKFLVGARGYPVARYDASVEPSELEPDIVEELMKR 303
+++ + KFLV +G PV RY + P ++E DI+E L K+
Sbjct: 129 ---------NIKWNFSKFLVDRQGQPVKRYSPTTAPYDIEGDIMELLEKK 169
>pdb|2V1M|A Chain A, Crystal Structure Of Schistosoma Mansoni Glutathione
Peroxidase
Length = 169
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 45/170 (26%), Positives = 65/170 (38%), Gaps = 64/170 (37%)
Query: 182 VDPISGRGYKLRRYKGKVLLIV-------------------HFRVSGKG----------- 211
V I+G L +Y+G V LIV H R+ GKG
Sbjct: 16 VKDINGVDVSLEKYRGHVCLIVNVACKXGATDKNYRQLQEMHTRLVGKGLRILAFPCNQF 75
Query: 212 -------------FVP-----KFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTD 253
FV +FD+F VNG+ L+ +LK T LT+
Sbjct: 76 GGQEPWAEAEIKKFVTEKYGVQFDMFSKIKVNGSDADDLYKFLKSRQHGT-------LTN 128
Query: 254 LKYEPLRNSDVREPYEKFLVGARGYPVARYDASVEPSELEPDIVEELMKR 303
+++ + KFLV +G PV RY + P ++E DI+E L K+
Sbjct: 129 ---------NIKWNFSKFLVDRQGQPVKRYSPTTAPYDIEGDIMELLEKK 169
>pdb|2OBI|A Chain A, Crystal Structure Of The Selenocysteine To Cysteine Mutant
Of Human Phospholipid Hydroperoxide Glutathione
Peroxidase (Gpx4)
Length = 183
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 14/86 (16%)
Query: 211 GFVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEK 270
G+ KFD+F VNG PL+ ++K +P K + + + ++ + K
Sbjct: 108 GYNVKFDMFSKICVNGDDAHPLWKWMK----------IQP----KGKGILGNAIKWNFTK 153
Query: 271 FLVGARGYPVARYDASVEPSELEPDI 296
FL+ G V RY EP +E D+
Sbjct: 154 FLIDKNGCVVKRYGPMEEPLVIEKDL 179
>pdb|2GS3|A Chain A, Crystal Structure Of The Selenocysteine To Glycine Mutant
Of Human Glutathione Peroxidase 4(Gpx4)
Length = 185
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 14/86 (16%)
Query: 211 GFVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEK 270
G+ KFD+F VNG PL+ ++K +P K + + + ++ + K
Sbjct: 110 GYNVKFDMFSKICVNGDDAHPLWKWMK----------IQP----KGKGILGNAIKWNFTK 155
Query: 271 FLVGARGYPVARYDASVEPSELEPDI 296
FL+ G V RY EP +E D+
Sbjct: 156 FLIDKNGCVVKRYGPMEEPLVIEKDL 181
>pdb|2P5Q|A Chain A, Crystal Structure Of The Poplar Glutathione Peroxidase 5
In The Reduced Form
pdb|2P5Q|B Chain B, Crystal Structure Of The Poplar Glutathione Peroxidase 5
In The Reduced Form
pdb|2P5Q|C Chain C, Crystal Structure Of The Poplar Glutathione Peroxidase 5
In The Reduced Form
pdb|2P5Q|D Chain D, Crystal Structure Of The Poplar Glutathione Peroxidase 5
In The Reduced Form
pdb|2P5R|A Chain A, Crystal Structure Of The Poplar Glutathione Peroxidase 5
In The Oxidized Form
pdb|2P5R|B Chain B, Crystal Structure Of The Poplar Glutathione Peroxidase 5
In The Oxidized Form
Length = 170
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 38/89 (42%), Gaps = 16/89 (17%)
Query: 212 FVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEKF 271
F +F +F VNG + +PL+ +LK L + D++ + KF
Sbjct: 95 FKSEFPIFDKIDVNGENASPLYRFLK----------------LGKWGIFGDDIQWNFAKF 138
Query: 272 LVGARGYPVARYDASVEPSELEPDIVEEL 300
LV G V RY + P LE DI + L
Sbjct: 139 LVNKDGQVVDRYYPTTSPLSLERDIKQLL 167
>pdb|3CMI|A Chain A, Crystal Structure Of Glutathione-Dependent Phospholipid
Peroxidase Hyr1 From The Yeast Saccharomyces Cerevisiae
Length = 171
Score = 34.3 bits (77), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 16/82 (19%)
Query: 224 VNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEKFLVGARGYPVARY 283
VNG +E P++ +LK K L ++ +EKFLV +G RY
Sbjct: 106 VNGGNEDPVYKFLKSQ---------------KSGMLGLRGIKWNFEKFLVDKKGKVYERY 150
Query: 284 DASVEPSELEPDIVEELMKREE 305
+ +PS L + +EEL+K E
Sbjct: 151 SSLTKPSSL-SETIEELLKEVE 171
>pdb|2VUP|A Chain A, Crystal Structure Of A Type Ii Tryparedoxin-Dependant
Peroxidase From Trypanosoma Brucei
Length = 190
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 34/86 (39%), Gaps = 15/86 (17%)
Query: 212 FVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEKF 271
F +F + VNG + PL+ Y+K T P L+ ++ + F
Sbjct: 111 FKAEFPIMAKINVNGENAHPLYEYMKKTKPGI---------------LKTKAIKWNFTSF 155
Query: 272 LVGARGYPVARYDASVEPSELEPDIV 297
L+ G PV R+ ++E ++
Sbjct: 156 LIDRDGVPVERFSPGASVKDIEKKLI 181
>pdb|2G9H|D Chain D, Crystal Structure Of Staphylococcal Enterotoxin I (Sei) In
Complex With A Human Mhc Class Ii Molecule
Length = 218
Score = 31.6 bits (70), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 44/106 (41%), Gaps = 10/106 (9%)
Query: 110 SNAERVGSRRVSRMERFG----GPCGGRSQSTSASPENSGIGGPDRIDGSRLRGPSHRSV 165
+N + + + +++ FG GPC + A+ + +I + H+++
Sbjct: 49 NNWDEISKFKGKKLDIFGIDYNGPCKSKYMYGGATLSGQYLNSARKIPINLWVNGKHKTI 108
Query: 166 GTDHIVVPSRLPSANVVDPISGRGYKLRRYKGKVLLIVHFRVSGKG 211
TD I +L +A +D KLRRY + I +GKG
Sbjct: 109 STDKISTNKKLVTAQEIDV------KLRRYLQEEYNIYGHNSTGKG 148
>pdb|3DWV|A Chain A, Glutathione Peroxidase-Type Tryparedoxin Peroxidase,
Oxidized Form
pdb|3DWV|B Chain B, Glutathione Peroxidase-Type Tryparedoxin Peroxidase,
Oxidized Form
Length = 187
Score = 31.6 bits (70), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 15/86 (17%)
Query: 212 FVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEKF 271
F +F + VNG + PL+ Y+K T P L ++ + F
Sbjct: 109 FKAEFPIMAKINVNGENAHPLYEYMKKTKPGI---------------LATKAIKWNFTSF 153
Query: 272 LVGARGYPVARYDASVEPSELEPDIV 297
L+ G PV R+ ++E ++
Sbjct: 154 LIDRDGVPVERFSPGASVKDIEEKLI 179
>pdb|2RM5|A Chain A, Glutathione Peroxidase-Type Tryparedoxin Peroxidase,
Oxidized Form
pdb|2RM6|A Chain A, Glutathione Peroxidase-Type Tryparedoxin Peroxidase,
Reduced Form
Length = 167
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 33/86 (38%), Gaps = 15/86 (17%)
Query: 212 FVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEKF 271
F +F + VNG + PL+ Y+K T P L ++ + F
Sbjct: 89 FKAEFPIMAKINVNGENAHPLYEYMKKTKPGI---------------LATKAIKWNFTSF 133
Query: 272 LVGARGYPVARYDASVEPSELEPDIV 297
L+ G PV R+ ++E ++
Sbjct: 134 LIDRDGVPVERFSPGASVKDIEEKLI 159
>pdb|2WGF|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGF|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGF|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGF|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGF|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGF|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGF|G Chain G, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGF|H Chain H, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant
pdb|2WGG|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
pdb|2WGG|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
pdb|2WGG|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
pdb|2WGG|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
pdb|2WGG|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
pdb|2WGG|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
pdb|2WGG|G Chain G, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
pdb|2WGG|H Chain H, Crystal Structure Of Mycobacterium Tuberculosis C171q Kasa
Variant With Bound Tlm
Length = 416
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 10/53 (18%)
Query: 110 SNAERVGSRRVSRMERFGGPCGGRSQSTSASPE----------NSGIGGPDRI 152
S+ R+ RR+S ++R G GG+ ++ SPE +G+GG +RI
Sbjct: 70 SHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERI 122
>pdb|2WGD|A Chain A, Crystal Structure Of Kasa Of Mycobacterium Tuberculosis
pdb|2WGE|A Chain A, Crystal Structure Of Kasa Of Mycobacterium Tuberculosis
With Bound Tlm
Length = 416
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 10/53 (18%)
Query: 110 SNAERVGSRRVSRMERFGGPCGGRSQSTSASPE----------NSGIGGPDRI 152
S+ R+ RR+S ++R G GG+ ++ SPE +G+GG +RI
Sbjct: 70 SHMGRLDMRRMSYVQRMGKLLGGQLWESAGSPEVDPDRFAVVVGTGLGGAERI 122
>pdb|3E0U|A Chain A, Crystal Structure Of T. Cruzi Gpx1
Length = 166
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 31/82 (37%), Gaps = 17/82 (20%)
Query: 212 FVPKFDVFGPGPVNGASEAPLFTYLKDTCPPTRIGFTEPLTDLKYEPLRNSDVREPYEKF 271
F F + VNG+ PL+ ++K T P ++ + F
Sbjct: 88 FKADFPIMAKIDVNGSKAHPLYEFMKATIPGL---------------FGTKAIKWNFTSF 132
Query: 272 LVGARGYPVARYD--ASVEPSE 291
L+ G PV R+ ASVE E
Sbjct: 133 LIDRHGVPVERFSPGASVEDIE 154
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
0.317 0.137 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,573,439
Number of Sequences: 62578
Number of extensions: 416800
Number of successful extensions: 714
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 689
Number of HSP's gapped (non-prelim): 23
length of query: 307
length of database: 14,973,337
effective HSP length: 99
effective length of query: 208
effective length of database: 8,778,115
effective search space: 1825847920
effective search space used: 1825847920
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)