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= psy2024
(352 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1
pdb|3E6U|C Chain C, Crystal Structure Of Human Lancl1
pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1
pdb|3E6U|D Chain D, Crystal Structure Of Human Lancl1
pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed With Gsh
pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh
Length = 411
Score = 109 bits (273), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 64/187 (34%), Positives = 106/187 (56%), Gaps = 11/187 (5%)
Query: 35 LHPSFETKVWATLTRLIEDIDSEYETSDKFRDHDYSVYVGTSGQAMFYYIYYQRTHDSKY 94
L P F ++ + L++ ++ +++D D + Y G +G A+ Y Y D Y
Sbjct: 40 LTPEFSQRLTNKIRELLQQMERGLKSADP---RDGTGYTGWAGIAVLYLHLYDVFGDPAY 96
Query: 95 LDKAQKLIERSLKNLKNRRFSFLNGDAGPIAVSALIYEALGKQEKLESSVQKLKALAPHV 154
L A +++SL L R +FL GDAGP+AV+A++Y + +++ E + +L H+
Sbjct: 97 LQLAHGYVKQSLNCLTKRSITFLCGDAGPLAVAAVLYHKMNNEKQAEDCITRLI----HL 152
Query: 155 VDLRSDIPDEILYGRAGYLYSLLFVNKHIKSVNIEASLIHQVVDSILRSGQNLSARKK-- 212
+ P+E+LYGR GY+Y+LLFVNK+ I S I Q+ ++IL SG+NL ARK+
Sbjct: 153 NKIDPHAPNEMLYGRIGYIYALLFVNKNFGVEKIPQSHIQQICETILTSGENL-ARKRNF 211
Query: 213 -SRVPLI 218
++ PL+
Sbjct: 212 TAKSPLM 218
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 6/62 (9%)
Query: 69 YSVYVGTSGQAMFYYIYYQRTHDSKYLDKAQKLIERSLK------NLKNRRFSFLNGDAG 122
Y + G++G A + Y T D KYL +A K E L+ + FS G AG
Sbjct: 331 YGLCHGSAGNAYAFLTLYNLTQDMKYLYRACKFAEWCLEYGEHGCRTPDTPFSLFEGMAG 390
Query: 123 PI 124
I
Sbjct: 391 TI 392
>pdb|3C2H|A Chain A, Crystal Structure Of Sys-1 At 2.6a Resolution
pdb|3C2H|B Chain B, Crystal Structure Of Sys-1 At 2.6a Resolution
Length = 619
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 38/73 (52%), Gaps = 12/73 (16%)
Query: 163 DEILYGRAGYLYSLLFVNKHIKSVNIEAS---LIHQVVDSILRSGQNLSARKKSRV---- 215
DE++Y G+L +++ +H+K + I ++ L+H ++ R + A K++RV
Sbjct: 339 DEVIYSGTGFLSNVVAHKQHVKDIAIRSNAIFLLHTIISKYPRLDELTDAPKRNRVCEII 398
Query: 216 -----PLINFLML 223
L NFLM+
Sbjct: 399 CNCLRTLNNFLMM 411
>pdb|3C2G|A Chain A, Crystal Complex Of Sys-1POP-1 At 2.5a Resolution
pdb|3C2G|B Chain B, Crystal Complex Of Sys-1POP-1 At 2.5a Resolution
Length = 619
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 163 DEILYGRAGYLYSLLFVNKHIKSVNIEAS---LIHQVVDSILRSGQNLSARKKSRV 215
DE++Y G+L +++ +H+K + I ++ L+H ++ R + A K++RV
Sbjct: 339 DEVIYSGTGFLSNVVAHKQHVKDIAIRSNAIFLLHTIISKYPRLDELTDAPKRNRV 394
>pdb|1Z14|A Chain A, Structural Determinants Of Tissue Tropism And In Vivo
Pathogenicity For The Parvovirus Minute Virus Of Mice
Length = 549
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 232 QPTKSHLYIILFCSSLCDSVKMETKHSSRHHENKYKYGEGEKSKLFTVENKEKIVL 287
+PT + Y FC SV E + + H N +G S+ FT+EN ++I L
Sbjct: 166 KPTIASPYRYYFCVDRDLSVTYENQEGTVEH-NVMGTPKGMNSQFFTIENTQQITL 220
>pdb|1MVM|A Chain A, Mvm(Strain I), Complex(Viral CoatDNA), VP2, PH7.5, T4
Degrees C
pdb|1Z1C|A Chain A, Structural Determinants Of Tissue Tropism And In Vivo
Pathogenicity For The Parvovirus Minute Virus Of Mice
Length = 587
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 232 QPTKSHLYIILFCSSLCDSVKMETKHSSRHHENKYKYGEGEKSKLFTVENKEKIVL 287
+PT + Y FC SV E + + H N +G S+ FT+EN ++I L
Sbjct: 204 KPTIASPYRYYFCVDRDLSVTYENQEGTIEH-NVMGTPKGMNSQFFTIENTQQITL 258
>pdb|2XGK|A Chain A, Virus Like Particle Of L172w Mutant Of Minute Virus Of
Mice - The Immunosuppressive Strain
Length = 587
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 232 QPTKSHLYIILFCSSLCDSVKMETKHSSRHHENKYKYGEGEKSKLFTVENKEKIVL 287
+PT + Y FC SV E + + H N +G S+ FT+EN ++I L
Sbjct: 204 KPTIASPYRYYFCVDRDLSVTYENQEGTIEH-NVMGTPKGMNSQFFTIENTQQITL 258
>pdb|2X9J|A Chain A, Structure Of The Mutant D206n Of Phycoerythrobilin
Synthase Pebs From The Cyanophage P-Ssm2 In Complex With
Bound Substrate Biliverdin Ixa
pdb|2X9J|B Chain B, Structure Of The Mutant D206n Of Phycoerythrobilin
Synthase Pebs From The Cyanophage P-Ssm2 In Complex With
Bound Substrate Biliverdin Ixa
Length = 233
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 135 GKQEKLESSVQK----LKALAPHVVDLRSDIPDEILYGRAG 171
G KL ++++ LKA H+VD SDI + ILY + G
Sbjct: 56 GGDAKLTANIRTGEHFLKAREAHIVDPNSDIYNTILYPKTG 96
>pdb|2X9I|A Chain A, Structure Of The Mutant D105n Of Phycoerythrobilin
Synthase Pebs From The Cyanophage P-Ssm2 In Complex With
Bound Substrate Biliverdin Ixa
pdb|2X9I|B Chain B, Structure Of The Mutant D105n Of Phycoerythrobilin
Synthase Pebs From The Cyanophage P-Ssm2 In Complex With
Bound Substrate Biliverdin Ixa
pdb|2X9I|C Chain C, Structure Of The Mutant D105n Of Phycoerythrobilin
Synthase Pebs From The Cyanophage P-Ssm2 In Complex With
Bound Substrate Biliverdin Ixa
pdb|2X9I|D Chain D, Structure Of The Mutant D105n Of Phycoerythrobilin
Synthase Pebs From The Cyanophage P-Ssm2 In Complex With
Bound Substrate Biliverdin Ixa
Length = 233
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 135 GKQEKLESSVQK----LKALAPHVVDLRSDIPDEILYGRAG 171
G KL ++++ LKA H+VD SDI + ILY + G
Sbjct: 56 GGDAKLTANIRTGEHFLKAREAHIVDPNSDIYNTILYPKTG 96
>pdb|2VGR|A Chain A, Structure Of The Wt-phycoerythrobilin Synthase Pebs From
The Cyanophage P-ssm2 In Complex With The Bound
Substrate Biliverdin Ixa
pdb|2VGR|B Chain B, Structure Of The Wt-phycoerythrobilin Synthase Pebs From
The Cyanophage P-ssm2 In Complex With The Bound
Substrate Biliverdin Ixa
pdb|2VGR|C Chain C, Structure Of The Wt-phycoerythrobilin Synthase Pebs From
The Cyanophage P-ssm2 In Complex With The Bound
Substrate Biliverdin Ixa
pdb|2VGR|D Chain D, Structure Of The Wt-phycoerythrobilin Synthase Pebs From
The Cyanophage P-ssm2 In Complex With The Bound
Substrate Biliverdin Ixa
Length = 233
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 135 GKQEKLESSVQK----LKALAPHVVDLRSDIPDEILYGRAG 171
G KL ++++ LKA H+VD SDI + ILY + G
Sbjct: 56 GGDAKLTANIRTGEHFLKAREAHIVDPNSDIYNTILYPKTG 96
>pdb|2VCK|A Chain A, Structure Of Phycoerythrobilin Synthase Pebs From The
Cyanophage P-Ssm2 In Complex With The Bound Substrate
Biliverdin Ixa
pdb|2VCK|B Chain B, Structure Of Phycoerythrobilin Synthase Pebs From The
Cyanophage P-Ssm2 In Complex With The Bound Substrate
Biliverdin Ixa
pdb|2VCK|C Chain C, Structure Of Phycoerythrobilin Synthase Pebs From The
Cyanophage P-Ssm2 In Complex With The Bound Substrate
Biliverdin Ixa
pdb|2VCK|D Chain D, Structure Of Phycoerythrobilin Synthase Pebs From The
Cyanophage P-Ssm2 In Complex With The Bound Substrate
Biliverdin Ixa
pdb|2VCL|A Chain A, Structure Of Phycoerythrobilin Synthase Pebs From The
Cyanophage P-Ssm2 In The Substrate Free Form
Length = 233
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 135 GKQEKLESSVQK----LKALAPHVVDLRSDIPDEILYGRAG 171
G KL ++++ LKA H+VD SDI + ILY + G
Sbjct: 56 GGDAKLTANIRTGEHFLKAREAHIVDPNSDIYNTILYPKTG 96
>pdb|1KN0|A Chain A, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|B Chain B, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|C Chain C, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|D Chain D, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|E Chain E, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|F Chain F, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|G Chain G, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|H Chain H, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|I Chain I, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|J Chain J, Crystal Structure Of The Human Rad52 Protein
pdb|1KN0|K Chain K, Crystal Structure Of The Human Rad52 Protein
Length = 212
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 243 FCSSLCDSVKMETKHSSRHHENKYKYGEGEKSKLFTVENKEKIVLHPSFETKVRA 297
F +C V+++ K S H + Y EG KSK ++E K + + +R+
Sbjct: 103 FYVGVCAFVRVQLKDGSYHEDVGYGVSEGLKSKALSLEKARKEAVTDGLKRALRS 157
>pdb|1H2I|A Chain A, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|B Chain B, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|C Chain C, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|D Chain D, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|E Chain E, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|F Chain F, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|G Chain G, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|H Chain H, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|I Chain I, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|J Chain J, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|K Chain K, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|L Chain L, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|M Chain M, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|N Chain N, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|O Chain O, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|P Chain P, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|Q Chain Q, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|R Chain R, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|S Chain S, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|T Chain T, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|U Chain U, Human Rad52 Protein, N-Terminal Domain
pdb|1H2I|V Chain V, Human Rad52 Protein, N-Terminal Domain
Length = 209
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 243 FCSSLCDSVKMETKHSSRHHENKYKYGEGEKSKLFTVENKEKIVLHPSFETKVRA 297
F +C V+++ K S H + Y EG KSK ++E K + + +R+
Sbjct: 103 FYVGVCAFVRVQLKDGSYHEDVGYGVSEGLKSKALSLEKARKEAVTDGLKRALRS 157
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 0.132 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,792,230
Number of Sequences: 62578
Number of extensions: 379701
Number of successful extensions: 1010
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1002
Number of HSP's gapped (non-prelim): 27
length of query: 352
length of database: 14,973,337
effective HSP length: 100
effective length of query: 252
effective length of database: 8,715,537
effective search space: 2196315324
effective search space used: 2196315324
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)