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= psy11827
(336 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3QEA|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
Complex With Dna (Complex Ii)
pdb|3QEB|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
Complex With Dna And Mn2+ (Complex Iii)
Length = 352
Score = 230 bits (586), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 126/292 (43%), Positives = 189/292 (64%), Gaps = 6/292 (2%)
Query: 1 MKYIHMLLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHL 60
MK+++MLL+H IK I+VFDG LP+K+ E RR++R ++ K +LL + SEA+
Sbjct: 60 MKFVNMLLSHGIKPILVFDGCTLPSKKEVERSRRERRQANLLKGKQLLREGKVSEARECF 119
Query: 61 RQSVDVTHKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGA 120
+S+++TH MA VI+A R++GVDC+VAP+EADAQ+AYLN AG +ITEDSDLL FG
Sbjct: 120 TRSINITHAMAHKVIKAARSQGVDCLVAPYEADAQLAYLNKAGIVQAIITEDSDLLAFGC 179
Query: 121 KKIIYKLDLSGNCCFMDREKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKA 180
KK+I K+D GN +D+ +L ++ FT+ KFRYMCILSGCDY + ++G+GL KA
Sbjct: 180 KKVILKMDQFGNGLEIDQARLGMCRQLGDV-FTEEKFRYMCILSGCDYLSSLRGIGLAKA 238
Query: 181 KDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTSFHNTNLMFLYQPVYDPVSKEVV 240
+ +PD ++KI Y K+ + + ++++ F N FLYQ V+DP+ ++++
Sbjct: 239 CKVLRLANNPDIVKVIKKIGHYLKMN--ITVPEDYINGFIRANNTFLYQLVFDPIKRKLI 296
Query: 241 PLNPLESEMRDEVFSQLSLKELELPKDQAFQLALGNLDPFSLEEMDQWNPDS 292
PLN E ++ E LS + A Q+ALGN D + E++D +NPD+
Sbjct: 297 PLNAYEDDVDPET---LSYAGQYVDDSIALQIALGNKDINTFEQIDDYNPDT 345
>pdb|3QE9|Y Chain Y, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
Complex With Dna (Complex I)
pdb|3QE9|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
Complex With Dna (Complex I)
Length = 352
Score = 227 bits (578), Expect = 8e-60, Method: Compositional matrix adjust.
Identities = 125/292 (42%), Positives = 188/292 (64%), Gaps = 6/292 (2%)
Query: 1 MKYIHMLLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHL 60
MK+++MLL+H IK I+VFDG LP+K+ E RR++R ++ K +LL + SEA+
Sbjct: 60 MKFVNMLLSHGIKPILVFDGCTLPSKKEVERSRRERRQANLLKGKQLLREGKVSEARECF 119
Query: 61 RQSVDVTHKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGA 120
+S+++TH MA VI+A R++GVDC+VAP+EADAQ+AYLN AG +ITEDS LL FG
Sbjct: 120 TRSINITHAMAHKVIKAARSQGVDCLVAPYEADAQLAYLNKAGIVQAIITEDSALLAFGC 179
Query: 121 KKIIYKLDLSGNCCFMDREKLPSALKMPLAKFTDAKFRYMCILSGCDYWTGIKGMGLKKA 180
KK+I K+D GN +D+ +L ++ FT+ KFRYMCILSGCDY + ++G+GL KA
Sbjct: 180 KKVILKMDQFGNGLEIDQARLGMCRQLGDV-FTEEKFRYMCILSGCDYLSSLRGIGLAKA 238
Query: 181 KDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTSFHNTNLMFLYQPVYDPVSKEVV 240
+ +PD ++KI Y K+ + + ++++ F N FLYQ V+DP+ ++++
Sbjct: 239 CKVLRLANNPDIVKVIKKIGHYLKMN--ITVPEDYINGFIRANNTFLYQLVFDPIKRKLI 296
Query: 241 PLNPLESEMRDEVFSQLSLKELELPKDQAFQLALGNLDPFSLEEMDQWNPDS 292
PLN E ++ E LS + A Q+ALGN D + E++D +NPD+
Sbjct: 297 PLNAYEDDVDPET---LSYAGQYVDDSIALQIALGNKDINTFEQIDDYNPDT 345
>pdb|1MC8|A Chain A, Crystal Structure Of Flap Endonuclease-1 R42e Mutant From
Pyrococcus Horikoshii
pdb|1MC8|B Chain B, Crystal Structure Of Flap Endonuclease-1 R42e Mutant From
Pyrococcus Horikoshii
Length = 343
Score = 69.3 bits (168), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 59/199 (29%), Positives = 90/199 (45%), Gaps = 21/199 (10%)
Query: 7 LLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHLRQSVDV 66
L+ IK VFDG+ K E RR+ R+ + K E L EA+ + +++ V
Sbjct: 68 LMEAGIKPAYVFDGKPPEFKRKELEKRREAREEAELKWKEALAKGNLEEARKYAQRATKV 127
Query: 67 THKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKKIIYK 126
+ + + + G+ I AP E +AQ AY+ G ++D D L+FGA ++I
Sbjct: 128 NEMLIEDAKKLLQLMGIPIIQAPSEGEAQAAYMASKGDVYASASQDYDSLLFGAPRLIRN 187
Query: 127 LDLSGNCCFMDREKLPSA-----LKMPLA---------KFTDAKFRYMCILSGCDYW-TG 171
L ++G + K+P +K L K T K + IL G DY G
Sbjct: 188 LTITG------KRKMPGKDVYVEIKPELVVLDEVLKELKITREKLIELAILVGTDYNPGG 241
Query: 172 IKGMGLKKAKDYVFSIMDP 190
+KG+G KKA + V DP
Sbjct: 242 VKGIGPKKALEIVRYSRDP 260
>pdb|1RXV|A Chain A, Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna
pdb|1RXV|B Chain B, Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna
pdb|1RXW|A Chain A, Crystal Structure Of A. Fulgidus Fen-1 Bound To Dna
Length = 336
Score = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 66/233 (28%), Positives = 104/233 (44%), Gaps = 30/233 (12%)
Query: 12 IKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLI--LDRG-SEAQSHLRQSVDVTH 68
I+ + VFDG K+A E+R+K+R A+A E+ I L G +A+ + + + V
Sbjct: 73 IRPVFVFDGEPPEFKKAEIEERKKRR----AEAEEMWIAALQAGDKDAKKYAQAAGRVDE 128
Query: 69 KMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKK------ 122
+ + G+ + AP E +AQ AY+ G +Y ++D D L+FG+ +
Sbjct: 129 YIVDSAKTLLSYMGIPFVDAPSEGEAQAAYMAAKGDVEYTGSQDYDSLLFGSPRLARNLA 188
Query: 123 IIYKLDLSGNCCFMDREKLPSALKMPLAK--FTDAKFRYMCILSGCDYWTGIKGMGLKKA 180
I K L G ++D + L+ L + T + + IL G DY G+KG+G+KKA
Sbjct: 189 ITGKRKLPGKNVYVDVKPEIIILESNLKRLGLTREQLIDIAILVGTDYNEGVKGVGVKKA 248
Query: 181 KDYVFSIMDPDFENALRKINVYGKIGSYVKITKEFLTSFHNTNLMFLYQPVYD 233
+Y I YG I +K K + FL PV D
Sbjct: 249 LNY---------------IKTYGDIFRALKALKVNIDHVEEIRNFFLNPPVTD 286
>pdb|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
pdb|1A77|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
Length = 326
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 54/187 (28%), Positives = 91/187 (48%), Gaps = 8/187 (4%)
Query: 2 KYIHMLLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHLR 61
K IH LL + I I VFDG KE T + RR+ ++ + K E + + EA + +
Sbjct: 64 KTIH-LLENDITPIWVFDGEPPKLKEKTRKVRREMKEKAELKMKEAIKKEDFEEAAKYAK 122
Query: 62 QSVDVTHKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAK 121
+ +T KM N G+ + AP E +AQ +Y+ G V+++D D L++GA
Sbjct: 123 RVSYLTPKMVENCKYLLSLMGIPYVEAPSEGEAQASYMAKKGDVWAVVSQDYDALLYGAP 182
Query: 122 KIIYKLDLSGNCC-FMDREKLPSALKMPLAKFTDAKFRYMCILSGCDYW-TGIKGMGLKK 179
+++ L + ++ ++ L++ L D + I G DY G+KG+G K+
Sbjct: 183 RVVRNLTTTKEMPELIELNEVLEDLRISLDDLID-----IAIFMGTDYNPGGVKGIGFKR 237
Query: 180 AKDYVFS 186
A + V S
Sbjct: 238 AYELVRS 244
>pdb|2IZO|A Chain A, Structure Of An Archaeal Pcna1-Pcna2-Fen1 Complex
Length = 346
Score = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 64/250 (25%), Positives = 112/250 (44%), Gaps = 30/250 (12%)
Query: 7 LLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHLRQSVDV 66
+L + I VFDG+ K E RRK ++ + K + E + + + + +
Sbjct: 65 ILEEGVIPIYVFDGKPPEQKSEELERRRKAKEEAERKLERAKSEGKIEELRKYSQAILRL 124
Query: 67 THKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKKIIYK 126
++ M + RA G+ + AP E +A+ AYLN G + ++D D ++FGAK+++
Sbjct: 125 SNIMVEESKKLLRAMGIPIVQAPSEGEAEAAYLNKLGLSWAAASQDYDAILFGAKRLVRN 184
Query: 127 LDLSGNCCFMDR--------EKLPSALKMPLAKFTDAKFRYMCILSGCDYW-TGIKGMGL 177
L ++G ++ E + + + + T + + IL G DY GI+G+G
Sbjct: 185 LTITGKRKLPNKDVYVEIKPELIETEILLKKLGITREQLIDIGILIGTDYNPDGIRGIG- 243
Query: 178 KKAKDYVFSIMDPDFENALRKINVYGKIG---SYVKITKEFLT-SFHNTNLMFLYQPVYD 233
P E AL+ I YGKI Y +I+K+ + + +FL V
Sbjct: 244 ------------P--ERALKIIKKYGKIEKAMEYGEISKKDINFNIDEIRGLFLNPQVVK 289
Query: 234 PVSKEVVPLN 243
P +E + LN
Sbjct: 290 P--EEALDLN 297
>pdb|3ORY|A Chain A, Crystal Structure Of Flap Endonuclease 1 From
Hyperthermophilic Archaeon Desulfurococcus Amylolyticus
Length = 363
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 56/184 (30%), Positives = 84/184 (45%), Gaps = 21/184 (11%)
Query: 12 IKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSE-AQSHLRQSVDVTHKM 70
IK + VFDG+ P +A E +RRK AK E + E A+ + S +T +M
Sbjct: 87 IKPVYVFDGKP-PELKAREIERRKAVKEEAAKKYEEAVQSGDLELARRYAMMSAKLTEEM 145
Query: 71 ALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKKIIYKLDLS 130
+ A G+ + AP E +AQ AY+ G A ++D D L+FG+ K++ L +S
Sbjct: 146 VRDAKSLLDAMGIPWVQAPAEGEAQAAYIVKKGDAYASASQDYDSLLFGSPKLVRNLTIS 205
Query: 131 GNCC-------------FMDREKLPSALKMPLAKFTDAKFRYMCILSGCDYWT-GIKGMG 176
G ++ +KL L + L D + IL G DY G +G+G
Sbjct: 206 GRRKLPRKNEYVEVKPELIELDKLLVQLGITLENLID-----IGILLGTDYNPDGFEGIG 260
Query: 177 LKKA 180
KKA
Sbjct: 261 PKKA 264
>pdb|1B43|A Chain A, Fen-1 From P. Furiosus
pdb|1B43|B Chain B, Fen-1 From P. Furiosus
Length = 340
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 58/203 (28%), Positives = 91/203 (44%), Gaps = 29/203 (14%)
Query: 7 LLAHKIKVIMVFDGR--HLPAKEATEEDRRKKRDSHKAKAAELLILDRGS--EAQSHLRQ 62
L+ IK + VFDG KE + ++ K + A L++G EA+ + ++
Sbjct: 68 LMEAGIKPVYVFDGEPPEFKKKELEKRREAREEAEEKWREA----LEKGEIEEARKYAQR 123
Query: 63 SVDVTHKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKK 122
+ V + + + G+ + AP E +AQ AY+ G ++D D L+FGA +
Sbjct: 124 ATRVNEMLIEDAKKLLELMGIPIVQAPSEGEAQAAYMAAKGSVYASASQDYDSLLFGAPR 183
Query: 123 IIYKLDLSGNCCFMDREKLPSA-----LKMPLA---------KFTDAKFRYMCILSGCDY 168
++ L ++G + KLP +K L K T K + IL G DY
Sbjct: 184 LVRNLTITG------KRKLPGKNVYVEIKPELIILEEVLKELKLTREKLIELAILVGTDY 237
Query: 169 W-TGIKGMGLKKAKDYVFSIMDP 190
GIKG+GLKKA + V DP
Sbjct: 238 NPGGIKGIGLKKALEIVRHSKDP 260
>pdb|3Q8K|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (Wt) In
Complex With Product 5'-Flap Dna, Sm3+, And K+
pdb|3Q8L|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (Wt) In
Complex With Substrate 5'-Flap Dna, Sm3+, And K+
Length = 341
Score = 54.7 bits (130), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 49/189 (25%), Positives = 78/189 (41%), Gaps = 23/189 (12%)
Query: 7 LLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHLRQSVDV 66
++ + IK + VFDG+ K R ++R + + + E + ++ V V
Sbjct: 73 MMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKV 132
Query: 67 THKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKKIIYK 126
T + G+ + AP EA+A A L AG TED D L FG+ ++
Sbjct: 133 TKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFGSPVLMRH 192
Query: 127 LDLSGNCCFMDREKLPSALKMPLAKF-----------TDAKFRYMCILSGCDYWTGIKGM 175
L S A K+P+ +F +F +CIL G DY I+G+
Sbjct: 193 LTAS------------EAKKLPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGI 240
Query: 176 GLKKAKDYV 184
G K+A D +
Sbjct: 241 GPKRAVDLI 249
>pdb|1UL1|X Chain X, Crystal Structure Of The Human Fen1-Pcna Complex
pdb|1UL1|Y Chain Y, Crystal Structure Of The Human Fen1-Pcna Complex
pdb|1UL1|Z Chain Z, Crystal Structure Of The Human Fen1-Pcna Complex
Length = 379
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 64/256 (25%), Positives = 103/256 (40%), Gaps = 36/256 (14%)
Query: 7 LLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHLRQSVDV 66
++ + IK + VFDG+ K R ++R + + + E + ++ V V
Sbjct: 73 MMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKV 132
Query: 67 THKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKKIIYK 126
T + G+ + AP EA+A A L AG TED D L FG+ ++
Sbjct: 133 TKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFGSPVLMRH 192
Query: 127 LDLSGNCCFMDREKLPSALKMPLAKF-----------TDAKFRYMCILSGCDYWTGIKGM 175
L S A K+P+ +F +F +CIL G DY I+G+
Sbjct: 193 LTAS------------EAKKLPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGI 240
Query: 176 GLKKAKDYVFSIMDPDFENALRKI--NVYGKIGSYVKITKEFLTSFHNTNLMFLYQPVYD 233
G K+A D + E +R++ N Y + + +L + +FL V D
Sbjct: 241 GPKRAVDLIQK--HKSIEEIVRRLDPNKY-------PVPENWL--HKEAHQLFLEPEVLD 289
Query: 234 PVSKEVVPLNPLESEM 249
P S E+ P E E+
Sbjct: 290 PESVELKWSEPNEEEL 305
>pdb|3Q8M|A Chain A, Crystal Structure Of Human Flap Endonuclease Fen1 (D181a)
In Complex With Substrate 5'-Flap Dna And K+
pdb|3Q8M|B Chain B, Crystal Structure Of Human Flap Endonuclease Fen1 (D181a)
In Complex With Substrate 5'-Flap Dna And K+
Length = 341
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 48/189 (25%), Positives = 77/189 (40%), Gaps = 23/189 (12%)
Query: 7 LLAHKIKVIMVFDGRHLPAKEATEEDRRKKRDSHKAKAAELLILDRGSEAQSHLRQSVDV 66
++ + IK + VFDG+ K R ++R + + + E + ++ V V
Sbjct: 73 MMENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKRLVKV 132
Query: 67 THKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADYVITEDSDLLVFGAKKIIYK 126
T + G+ + AP EA+A A L AG TED L FG+ ++
Sbjct: 133 TKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMACLTFGSPVLMRH 192
Query: 127 LDLSGNCCFMDREKLPSALKMPLAKF-----------TDAKFRYMCILSGCDYWTGIKGM 175
L S A K+P+ +F +F +CIL G DY I+G+
Sbjct: 193 LTAS------------EAKKLPIQEFHLSRILQELGLNQEQFVDLCILLGSDYCESIRGI 240
Query: 176 GLKKAKDYV 184
G K+A D +
Sbjct: 241 GPKRAVDLI 249
>pdb|3PVQ|A Chain A, Crystal Structure Of A Putative Dipeptidyl-Peptidase Vi
(Bt_1314) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.10 A Resolution
pdb|3PVQ|B Chain B, Crystal Structure Of A Putative Dipeptidyl-Peptidase Vi
(Bt_1314) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.10 A Resolution
Length = 308
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 252 EVFSQLSLKELELPKDQAFQLALGNLDPFSLEEMDQWNPDSEENLPVTSIWSKQYEKPCD 311
+V E++ P D + + P S E+ D+WN E + VTS + YEKP D
Sbjct: 44 KVLQYTGWYEIQTPDDYTGWVHRXVITPXSKEKYDEWN--RAEKIVVTSHYGFTYEKPDD 101
>pdb|2J32|A Chain A, The Role Of Loop Bundle Hydrogen Bonds In The Maturation
And Activity Of(Pro)caspase-3
Length = 250
Score = 32.0 bits (71), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 28/66 (42%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC +A P EAD AY GY + ++
Sbjct: 123 LTGKPKLFIIQACRGTELDCGIATDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 182
Query: 112 DSDLLV 117
D +
Sbjct: 183 DGSWFI 188
>pdb|2J31|A Chain A, The Role Of Loop Bundle Hydrogen Bonds In The Maturation
And Activity Of(pro)caspase-3
Length = 250
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 123 LTGKPKLFIIQACRGTALDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 182
Query: 112 DSDLLV 117
D +
Sbjct: 183 DGSWFI 188
>pdb|4EHA|A Chain A, Allosteric Modulation Of Caspase-3 Through Mutagenesis
pdb|4EHA|C Chain C, Allosteric Modulation Of Caspase-3 Through Mutagenesis
Length = 277
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 151 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 210
Query: 112 DSDLLV 117
D +
Sbjct: 211 DGSWFI 216
>pdb|4EHL|A Chain A, Allosteric Modulation Of Caspase-3 Through Mutagenesis
pdb|4EHL|C Chain C, Allosteric Modulation Of Caspase-3 Through Mutagenesis
Length = 277
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 151 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 210
Query: 112 DSDLLV 117
D +
Sbjct: 211 DGSWFI 216
>pdb|3ITN|A Chain A, Crystal Structure Of Pseudo-Activated Procaspase-3
Length = 250
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 123 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 182
Query: 112 DSDLLV 117
D +
Sbjct: 183 DGSWFI 188
>pdb|3H0E|A Chain A, 3,4-Dihydropyrimido(1,2-A)indol-10(2h)-Ones As Potent Non-
Peptidic Inhibitors Of Caspase-3
pdb|3H0E|B Chain B, 3,4-Dihydropyrimido(1,2-A)indol-10(2h)-Ones As Potent Non-
Peptidic Inhibitors Of Caspase-3
Length = 255
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 123 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 182
Query: 112 DSDLLV 117
D +
Sbjct: 183 DGSWFI 188
>pdb|2J30|A Chain A, The Role Of Loop Bundle Hydrogen Bonds In The Maturation
And Activity Of (Pro)caspase-3
Length = 250
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 123 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 182
Query: 112 DSDLLV 117
D +
Sbjct: 183 DGSWFI 188
>pdb|4EHH|A Chain A, Allosteric Modulation Of Caspase-3 Through Mutagenesis
Length = 277
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 151 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 210
Query: 112 DSDLLV 117
D +
Sbjct: 211 DGSWFI 216
>pdb|3PD1|A Chain A, Caspase-3 K242a
Length = 250
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 123 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 182
Query: 112 DSDLLV 117
D +
Sbjct: 183 DGSWFI 188
>pdb|3PCX|A Chain A, Caspase-3 E246a, K242a Double Mutant
Length = 250
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 14/66 (21%)
Query: 66 VTHKMALNVIQACRARGVDCIVA--------------PFEADAQMAYLNIAGYADYVITE 111
+T K L +IQACR +DC + P EAD AY GY + ++
Sbjct: 123 LTGKPKLFIIQACRGTELDCGIETDSGVDDDMACHKIPVEADFLYAYSTAPGYYSWRNSK 182
Query: 112 DSDLLV 117
D +
Sbjct: 183 DGSWFI 188
>pdb|3NPF|A Chain A, Crystal Structure Of A Putative Dipeptidyl-Peptidase Vi
(Bacova_00612) From Bacteroides Ovatus At 1.72 A
Resolution
pdb|3NPF|B Chain B, Crystal Structure Of A Putative Dipeptidyl-Peptidase Vi
(Bacova_00612) From Bacteroides Ovatus At 1.72 A
Resolution
Length = 306
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 261 ELELPKDQAFQLALGNLDPFSLEEMDQWNPDSEENLPVTSIWSKQYEKP 309
E++ P D + + P S E D+WN E + VTS + YEKP
Sbjct: 53 EIQTPDDYTGWVHRXVITPXSKERYDEWN--RAEKIVVTSHYGFAYEKP 99
>pdb|3LP8|A Chain A, Crystal Structure Of Phosphoribosylamine-Glycine Ligase
From Ehrlichia Chaffeensis
Length = 442
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 8/83 (9%)
Query: 48 LILDRGSEAQSHLRQSVDVTHKMALNVIQACRARGVDCIVAPFEADAQMAYLNIAGYADY 107
L + G E S L +D+ + VIQ C+ ++ +V E + G +D
Sbjct: 49 LFIAPGREGMSGLADIIDIDINSTIEVIQVCKKEKIELVVIGPETPL------MNGLSD- 101
Query: 108 VITEDSDLLVFGAKKIIYKLDLS 130
+TE+ +LVFG K +L+ S
Sbjct: 102 ALTEEG-ILVFGPSKAAARLESS 123
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
0.321 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,490,357
Number of Sequences: 62578
Number of extensions: 387587
Number of successful extensions: 903
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 863
Number of HSP's gapped (non-prelim): 31
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
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: 52 (24.6 bits)