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= psy10704
         (211 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1P97|A Chain A, Nmr Structure Of The C-Terminal Pas Domain Of Hif2a
          Length = 114

 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 43/57 (75%)

Query: 148 SQTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPC 204
           S+TFL++HS+DMKFTY D+ + + +G++P+  + +S ++F+HA DS ++  + +N C
Sbjct: 5   SKTFLSRHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLC 61


>pdb|3F1N|A Chain A, Crystal Structure Of A High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains, With Internally
           Bound Ethylene Glycol.
 pdb|3F1O|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains, With An
           Internally- Bound Artificial Ligand
 pdb|3F1P|A Chain A, Crystal Structure Of A High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains
 pdb|3H7W|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains With The
           Artificial Ligand Ths017
 pdb|3H82|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains With The
           Artificial Ligand Ths020
 pdb|4GHI|A Chain A, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-terminal Pas Domains In Complex With A
           Benzoxadiazole Antagonist
          Length = 117

 Score = 62.0 bits (149), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 43/57 (75%)

Query: 148 SQTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPC 204
           S+TFL++HS+DMKFTY D+ + + +G++P+  + +S ++F+HA DS ++  + +N C
Sbjct: 8   SKTFLSEHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLC 64


>pdb|2A24|A Chain A, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
          Length = 107

 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 22/56 (39%), Positives = 42/56 (75%)

Query: 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPC 204
           +TFL++HS+DMKFTY D+ + + +G++P+  + +S ++F+HA DS ++  + +N C
Sbjct: 1   KTFLSRHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLC 56


>pdb|4H6J|A Chain A, Identification Of Cys 255 In Hif-1 As A Novel Site For
           Development Of Covalent Inhibitors Of Hif-1 ARNT PASB
           DOMAIN PROTEIN-Protein Interaction
          Length = 113

 Score = 60.8 bits (146), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 39/49 (79%)

Query: 148 SQTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHI 196
           S+TFL++HSLDMKF+Y DE + + +G+ P+  + +S+++++HA DS H+
Sbjct: 4   SKTFLSEHSLDMKFSYCDERITELMGYEPEELLGRSIYEYYHALDSDHL 52


>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
           Transcriptional Activator Complex
          Length = 387

 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 55/233 (23%), Positives = 91/233 (39%), Gaps = 73/233 (31%)

Query: 4   DLMGQSIYEVTHPCDHSEVKSILSANHTE----------------DIR---------AQR 38
           DL+GQS+++  HP D ++VK  LS++ T                 DI          A+R
Sbjct: 126 DLIGQSLFDYLHPKDIAKVKEQLSSSDTAPRERLIDAKTGLPVKTDITPGPSRLCSGARR 185

Query: 39  SVFIRLKCT----------LTSKGRNVNVKAATYKVIHCTGHLVQNQTPASNGSTLMEPQ 88
           S F R+KC             S          ++  IH TG+L ++  P   G       
Sbjct: 186 SFFCRMKCNRPSVKVEDKDFASTCSKKKADRKSFCTIHSTGYL-KSWPPTKMGL------ 238

Query: 89  DNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRRVVTEPSHCFVAIGE----PIPHPANYD 144
                              +D+EP+ E             C VAIG      +P PAN +
Sbjct: 239 ------------------DEDNEPDNEGCN--------LSCLVAIGRLHSHMVPQPANGE 272

Query: 145 VPL-SQTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHI 196
           + + S  ++++H++D KF + D+     L + P   +  S +++ H  D  H+
Sbjct: 273 IRVKSMEYVSRHAIDGKFVFVDQRATAILAYLPQELLGTSCYEYFHQDDIGHL 325


>pdb|2K7S|A Chain A, Human Arnt C-Terminal Pas Domain, 3 Residue Ib Slip
          Length = 119

 Score = 34.7 bits (78), Expect = 0.037,   Method: Compositional matrix adjust.
 Identities = 12/51 (23%), Positives = 31/51 (60%)

Query: 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201
           F+++H+++  FT+ D      +G+ P   + K++ +F H +D   ++++F+
Sbjct: 12  FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQ 62


>pdb|2B02|A Chain A, Crystal Structure Of Arnt Pas-B Domain
          Length = 119

 Score = 34.3 bits (77), Expect = 0.054,   Method: Compositional matrix adjust.
 Identities = 15/63 (23%), Positives = 35/63 (55%), Gaps = 2/63 (3%)

Query: 139 HPANYDVPLSQTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQN 198
           H +N   P    F+++H+++  FT+ D      +G+ P   + K++ +F H +D   +++
Sbjct: 2   HXSNVSQPTE--FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRD 59

Query: 199 AFK 201
           +F+
Sbjct: 60  SFQ 62


>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
           Transcriptional Activator Complex
          Length = 361

 Score = 34.3 bits (77), Expect = 0.055,   Method: Compositional matrix adjust.
 Identities = 46/199 (23%), Positives = 78/199 (39%), Gaps = 39/199 (19%)

Query: 4   DLMGQSIYEVTHPCDHSEVKSILSANHTEDIRAQRSVFIRLK-----CTLTSKGRNVNVK 58
           DL+ QSI+      +HSEV  ILS  H  +  +    +++ K     C    +G     +
Sbjct: 125 DLVDQSIFNFIPEGEHSEVYKILST-HLLESDSLTPEYLKSKNQLEFCCHMLRGTIDPKE 183

Query: 59  AATYKVIHCTGHLVQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGE 118
            +TY+ +   G+  ++ T  S  +      +  E     T R S                
Sbjct: 184 PSTYEYVRFIGNF-KSLTSVSTST-----HNGFEGTIQRTHRPSY--------------- 222

Query: 119 KRRVVTEPSHCFVA---IGEP--IPHPANYDVPLSQTFLTKHSLDMKFTYADETMEDFLG 173
                 E   CFVA   +  P  I      + P ++ F ++HSL+ KF + D      +G
Sbjct: 223 ------EDRVCFVATVRLATPQFIKEMCTVEEP-NEEFTSRHSLEWKFLFLDHRAPPIIG 275

Query: 174 FNPDIFIAKSVFDFHHAQD 192
           + P   +  S +D++H  D
Sbjct: 276 YLPFEVLGTSGYDYYHVDD 294


>pdb|4H6J|B Chain B, Identification Of Cys 255 In Hif-1 As A Novel Site For
           Development Of Covalent Inhibitors Of Hif-1 ARNT PASB
           DOMAIN PROTEIN-Protein Interaction
          Length = 116

 Score = 33.9 bits (76), Expect = 0.066,   Method: Compositional matrix adjust.
 Identities = 12/51 (23%), Positives = 31/51 (60%)

Query: 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201
           F+++H+++  FT+ D      +G+ P   + K++ +F H +D   ++++F+
Sbjct: 9   FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQ 59


>pdb|1WA9|A Chain A, Crystal Structure Of The Pas Repeat Region Of The
           Drosophila Clock Protein Period
 pdb|1WA9|B Chain B, Crystal Structure Of The Pas Repeat Region Of The
           Drosophila Clock Protein Period
          Length = 368

 Score = 33.9 bits (76), Expect = 0.074,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 6/61 (9%)

Query: 138 PHPANYDVP---LSQT---FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQ 191
           P  ++Y VP   LSQ    F  +H+     ++ D      LG+ P   I +S+ DF+H +
Sbjct: 141 PIKSSYKVPDEILSQKSPKFAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHE 200

Query: 192 D 192
           D
Sbjct: 201 D 201



 Score = 29.3 bits (64), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 18/30 (60%)

Query: 163 YADETMEDFLGFNPDIFIAKSVFDFHHAQD 192
           Y   ++ D LG+  D+++ +S  DF H +D
Sbjct: 22  YTTPSITDVLGYPRDMWLGRSFIDFVHLKD 51


>pdb|2HV1|A Chain A, Haddock Structure Of Arnt Pas-B Homodimer
 pdb|2HV1|B Chain B, Haddock Structure Of Arnt Pas-B Homodimer
 pdb|1X0O|A Chain A, Human Arnt C-Terminal Pas Domain
          Length = 119

 Score = 33.9 bits (76), Expect = 0.076,   Method: Compositional matrix adjust.
 Identities = 12/51 (23%), Positives = 31/51 (60%)

Query: 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201
           F+++H+++  FT+ D      +G+ P   + K++ +F H +D   ++++F+
Sbjct: 12  FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQ 62


>pdb|3RTY|A Chain A, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
 pdb|3RTY|B Chain B, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
 pdb|3RTY|C Chain C, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
 pdb|3RTY|D Chain D, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
 pdb|3RTY|E Chain E, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
 pdb|3RTY|F Chain F, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
 pdb|3RTY|G Chain G, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
 pdb|3RTY|H Chain H, Structure Of An Enclosed Dimer Formed By The Drosophila
           Period Protein
          Length = 339

 Score = 33.5 bits (75), Expect = 0.080,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 6/61 (9%)

Query: 138 PHPANYDVP---LSQT---FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQ 191
           P  ++Y VP   LSQ    F  +H+     ++ D      LG+ P   I +S+ DF+H +
Sbjct: 137 PIKSSYKVPDEILSQKSPKFAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHE 196

Query: 192 D 192
           D
Sbjct: 197 D 197



 Score = 28.9 bits (63), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 18/30 (60%)

Query: 163 YADETMEDFLGFNPDIFIAKSVFDFHHAQD 192
           Y   ++ D LG+  D+++ +S  DF H +D
Sbjct: 18  YTTPSITDVLGYPRDMWLGRSFIDFVHLKD 47


>pdb|3F1N|B Chain B, Crystal Structure Of A High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains, With Internally
           Bound Ethylene Glycol.
 pdb|3F1O|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains, With An
           Internally- Bound Artificial Ligand
 pdb|3F1P|B Chain B, Crystal Structure Of A High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains
 pdb|3H7W|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains With The
           Artificial Ligand Ths017
 pdb|3H82|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-Terminal Pas Domains With The
           Artificial Ligand Ths020
 pdb|4GHI|B Chain B, Crystal Structure Of The High Affinity Heterodimer Of Hif2
           Alpha And Arnt C-terminal Pas Domains In Complex With A
           Benzoxadiazole Antagonist
          Length = 121

 Score = 33.5 bits (75), Expect = 0.083,   Method: Compositional matrix adjust.
 Identities = 12/51 (23%), Positives = 31/51 (60%)

Query: 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201
           F+++H+++  FT+ D      +G+ P   + K++ +F H +D   ++++F+
Sbjct: 14  FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQ 64


>pdb|3GEC|A Chain A, Crystal Structure Of A Tandem Pas Domain Fragment Of
           Drosophila Period
          Length = 312

 Score = 33.5 bits (75), Expect = 0.084,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 6/61 (9%)

Query: 138 PHPANYDVP---LSQT---FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQ 191
           P  ++Y VP   LSQ    F  +H+     ++ D      LG+ P   I +S+ DF+H +
Sbjct: 146 PIKSSYKVPDEILSQKSPKFAIRHTATGIISHVDSAAVSALGYLPQDLIGRSIMDFYHHE 205

Query: 192 D 192
           D
Sbjct: 206 D 206



 Score = 28.9 bits (63), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 18/30 (60%)

Query: 163 YADETMEDFLGFNPDIFIAKSVFDFHHAQD 192
           Y   ++ D LG+  D+++ +S  DF H +D
Sbjct: 27  YTTPSITDVLGYPRDMWLGRSFIDFVHLKD 56


>pdb|2A24|B Chain B, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
          Length = 108

 Score = 33.5 bits (75), Expect = 0.090,   Method: Compositional matrix adjust.
 Identities = 12/51 (23%), Positives = 31/51 (60%)

Query: 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201
           F+++H+++  FT+ D      +G+ P   + K++ +F H +D   ++++F+
Sbjct: 6   FISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQ 56


>pdb|2KDK|A Chain A, Structure Of Human Circadian Clock Protein Bmal2
           C-Terminal Pas Domain
          Length = 121

 Score = 32.0 bits (71), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 12/42 (28%), Positives = 23/42 (54%)

Query: 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQD 192
           F+T+ +++ KF Y D+     LG+ P   +  S +++ H  D
Sbjct: 15  FITRFAVNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDD 56


>pdb|2I3O|A Chain A, Crystal Structure Of Gamma-Glutamyl Transferase Related
           Protein From Thermoplasma Acidophilum
 pdb|2I3O|B Chain B, Crystal Structure Of Gamma-Glutamyl Transferase Related
           Protein From Thermoplasma Acidophilum
 pdb|2I3O|C Chain C, Crystal Structure Of Gamma-Glutamyl Transferase Related
           Protein From Thermoplasma Acidophilum
 pdb|2I3O|D Chain D, Crystal Structure Of Gamma-Glutamyl Transferase Related
           Protein From Thermoplasma Acidophilum
          Length = 516

 Score = 30.0 bits (66), Expect = 0.89,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 32/61 (52%)

Query: 72  VQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRRVVTEPSHCFV 131
           +   +P S G T++E     E+   ++R     + +D  E  EE  +KRR +T+PS+  +
Sbjct: 248 IYETSPNSQGITVIEWIRGXESHGYDSRTXWEAKIEDIFETXEEAYDKRRKITDPSYXNI 307

Query: 132 A 132
           A
Sbjct: 308 A 308


>pdb|3UQI|A Chain A, Crystallographic Structure Of Fkbp12 From Aedes Aegypti
 pdb|2LPV|A Chain A, Solution Structure Of Fkbp12 From Aedes Aegypti
          Length = 108

 Score = 30.0 bits (66), Expect = 0.94,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 11/94 (11%)

Query: 58  KAATYKVIHCTGHLVQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVG 117
           KA    V+H TG L       ++G      +   +       RG  I+  D+   +  VG
Sbjct: 18  KAGQVAVVHYTGTL-------ADGKVFDSSRTRGKPFRFTVGRGEVIRGWDEGVAQMSVG 70

Query: 118 EKRRVVTEPSHCFVAIGEPIPHPAN----YDVPL 147
           ++ ++V  P + + + G P   P N    +DV L
Sbjct: 71  QRAKLVCSPDYAYGSRGHPGVIPPNATLTFDVEL 104


>pdb|4DJ3|A Chain A, Unwinding The Differences Of The Mammalian Period Clock
           Proteins From Crystal Structure To Cellular Function
 pdb|4DJ3|B Chain B, Unwinding The Differences Of The Mammalian Period Clock
           Proteins From Crystal Structure To Cellular Function
          Length = 317

 Score = 29.6 bits (65), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 6/72 (8%)

Query: 125 EPSHCFVAIGEPIPHPANYDVPL----SQTFLTKHSLDMKFTYADETMEDFLGFNPDIFI 180
           EP  C + + E I H + Y+ P      + F T H+    F   DE     LG+ P   I
Sbjct: 148 EPEPCCLTLVEKI-H-SGYEAPRIPVDKRIFTTTHTPGCVFLEVDERAVPLLGYLPQDLI 205

Query: 181 AKSVFDFHHAQD 192
             S+  + H +D
Sbjct: 206 GTSILTYLHPED 217


>pdb|3PVA|A Chain A, Penicillin V Acylase From B. Sphaericus
 pdb|3PVA|B Chain B, Penicillin V Acylase From B. Sphaericus
 pdb|3PVA|C Chain C, Penicillin V Acylase From B. Sphaericus
 pdb|3PVA|D Chain D, Penicillin V Acylase From B. Sphaericus
 pdb|3PVA|E Chain E, Penicillin V Acylase From B. Sphaericus
 pdb|3PVA|F Chain F, Penicillin V Acylase From B. Sphaericus
 pdb|3PVA|G Chain G, Penicillin V Acylase From B. Sphaericus
 pdb|3PVA|H Chain H, Penicillin V Acylase From B. Sphaericus
          Length = 335

 Score = 29.3 bits (64), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 118 EKRRVVTEPSHCFVAIGEP-IPHPANYDVPLSQTFLTKHSLDMKF-TYADETMEDFLGFN 175
           EK  VV   S+ FV +G   I  P  YD    +  +        F TYADE  +   G N
Sbjct: 42  EKENVVINNSYAFVGMGSTDITSPVLYDGVNEKGLMGAMLYYATFATYADEPKKGTTGIN 101

Query: 176 PDIFIAK 182
           P   I++
Sbjct: 102 PVYVISQ 108


>pdb|1PBK|A Chain A, Homologous Domain Of Human Fkbp25
          Length = 116

 Score = 28.9 bits (63), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 64  VIHC--TGHLVQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRR 121
           V+HC  TG L       +N  T  + + N +  S     G  I+  D++      GEK R
Sbjct: 22  VVHCWYTGTLQDGTVFDTNIQTSAKKKKNAKPLSFKVGVGKVIRGWDEALLTMSKGEKAR 81

Query: 122 VVTEPSHCFVAIGEP 136
           +  EP   +   G+P
Sbjct: 82  LEIEPEWAYGKKGQP 96


>pdb|2Z71|A Chain A, Structure Of Truncated Mutant Cys1gly Of Penicillin V
           Acylase From Bacillus Sphaericus Co-Crystallized With
           Penicillin V
 pdb|2Z71|C Chain C, Structure Of Truncated Mutant Cys1gly Of Penicillin V
           Acylase From Bacillus Sphaericus Co-Crystallized With
           Penicillin V
          Length = 335

 Score = 28.9 bits (63), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 118 EKRRVVTEPSHCFVAIGEP-IPHPANYDVPLSQTFLTKHSLDMKF-TYADETMEDFLGFN 175
           EK  VV   S+ FV +G   I  P  YD    +  +        F TYADE  +   G N
Sbjct: 42  EKENVVINNSYAFVGMGSTDITSPVLYDGVNEKGLMGAMLYYATFATYADEPKKGTRGIN 101

Query: 176 PDIFIAK 182
           P   I++
Sbjct: 102 PVYVISQ 108


>pdb|2QUY|A Chain A, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2QUY|B Chain B, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2QUY|C Chain C, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2QUY|D Chain D, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2QUY|E Chain E, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2QUY|F Chain F, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2QUY|G Chain G, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2QUY|H Chain H, Truncated Mutant Asn175ala Of Penicillin V Acylase From
           Bacillus Sphaericus
          Length = 335

 Score = 28.9 bits (63), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 118 EKRRVVTEPSHCFVAIGEP-IPHPANYDVPLSQTFLTKHSLDMKF-TYADETMEDFLGFN 175
           EK  VV   S+ FV +G   I  P  YD    +  +        F TYADE  +   G N
Sbjct: 42  EKENVVINNSYAFVGMGSTDITSPVLYDGVNEKGLMGAMLYYATFATYADEPKKGTRGIN 101

Query: 176 PDIFIAK 182
           P   I++
Sbjct: 102 PVYVISQ 108


>pdb|2IWM|A Chain A, Precursor Mutant Cys1ser Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2IWM|B Chain B, Precursor Mutant Cys1ser Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2IWM|C Chain C, Precursor Mutant Cys1ser Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|2IWM|D Chain D, Precursor Mutant Cys1ser Of Penicillin V Acylase From
           Bacillus Sphaericus
 pdb|3MJI|A Chain A, Activation Of Catalytic Cysteine Without A Base In A
           Mutant Penicillin Acylase Precursor
 pdb|3MJI|B Chain B, Activation Of Catalytic Cysteine Without A Base In A
           Mutant Penicillin Acylase Precursor
 pdb|3MJI|C Chain C, Activation Of Catalytic Cysteine Without A Base In A
           Mutant Penicillin Acylase Precursor
 pdb|3MJI|D Chain D, Activation Of Catalytic Cysteine Without A Base In A
           Mutant Penicillin Acylase Precursor
          Length = 338

 Score = 28.9 bits (63), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 2/67 (2%)

Query: 118 EKRRVVTEPSHCFVAIGEP-IPHPANYDVPLSQTFLTKHSLDMKF-TYADETMEDFLGFN 175
           EK  VV   S+ FV +G   I  P  YD    +  +        F TYADE  +   G N
Sbjct: 45  EKENVVINNSYAFVGMGSTDITSPVLYDGVNEKGLMGAMLYYATFATYADEPKKGTRGIN 104

Query: 176 PDIFIAK 182
           P   I++
Sbjct: 105 PVYVISQ 111


>pdb|4DJ2|A Chain A, Unwinding The Differences Of The Mammalian Period Clock
           Proteins From Crystal Structure To Cellular Function
 pdb|4DJ2|B Chain B, Unwinding The Differences Of The Mammalian Period Clock
           Proteins From Crystal Structure To Cellular Function
 pdb|4DJ2|C Chain C, Unwinding The Differences Of The Mammalian Period Clock
           Proteins From Crystal Structure To Cellular Function
 pdb|4DJ2|D Chain D, Unwinding The Differences Of The Mammalian Period Clock
           Proteins From Crystal Structure To Cellular Function
          Length = 320

 Score = 28.9 bits (63), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 20/47 (42%)

Query: 146 PLSQTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQD 192
           P  + F T+H+    F   DE     LG+ P   +   V  F H +D
Sbjct: 173 PDKRIFTTRHTPSCLFQDVDERAAPLLGYLPQDLLGAPVLLFLHPED 219


>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
           An Electron Microscopy Single Particle Reconstruction
 pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
           An Electron Microscopy Single Particle Reconstruction
          Length = 844

 Score = 28.5 bits (62), Expect = 2.8,   Method: Composition-based stats.
 Identities = 13/40 (32%), Positives = 19/40 (47%)

Query: 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHH 189
           T L+ + L       D +    L  NPD+F++ SV D  H
Sbjct: 517 TVLSHNDLPANLEILDISRNQLLAPNPDVFVSLSVLDITH 556


>pdb|3KZ7|A Chain A, C-Terminal Domain Of Murine Fkbp25 Rapamycin Complex
          Length = 119

 Score = 27.7 bits (60), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 64  VIHC--TGHLVQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRR 121
           V+HC  TG L       +N  T  + + N +  S     G  I+  D++      GEK R
Sbjct: 25  VVHCWYTGTLPDGTVFDTNIQTSSKKKKNAKPLSFKVGVGKVIRGWDEALLTMSKGEKAR 84

Query: 122 VVTEPSHCFVAIGEP 136
           +  EP   +   G+P
Sbjct: 85  LEIEPEWAYGKKGQP 99


>pdb|1A0E|A Chain A, Xylose Isomerase From Thermotoga Neapolitana
 pdb|1A0E|D Chain D, Xylose Isomerase From Thermotoga Neapolitana
          Length = 443

 Score = 27.7 bits (60), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 15/29 (51%)

Query: 135 EPIPHPANYDVPLSQTFLTKHSLDMKFTY 163
           EP  H  ++DV  +  FL  H LD  F +
Sbjct: 236 EPTKHQYDFDVATAYAFLKSHGLDEYFKF 264


>pdb|1HX8|A Chain A, Crystal Structure Of N-Terminal Domain Of Drosophila Ap180
 pdb|1HX8|B Chain B, Crystal Structure Of N-Terminal Domain Of Drosophila Ap180
          Length = 299

 Score = 27.3 bits (59), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 24/90 (26%), Positives = 34/90 (37%), Gaps = 12/90 (13%)

Query: 113 EEEVGEKRRVVTEPSHCFVAIGEPIPHPANYDVPLSQ---------TFLTKHSLDMKFTY 163
           EE +G K++ +    HC       IPH AN  +  SQ         + +T H L     Y
Sbjct: 34  EECIGPKKKHLDYLVHCANEPNVSIPHLANLLIERSQNANWVVVYKSLITTHHL---MAY 90

Query: 164 ADETMEDFLGFNPDIFIAKSVFDFHHAQDS 193
            +E    +L  +   F   S  D    QD 
Sbjct: 91  GNERFMQYLASSNSTFNLSSFLDKGTVQDG 120


>pdb|2GTH|A Chain A, Crystal Structure Of The Wildtype Mhv Coronavirus
           Non-Structural Protein Nsp15
          Length = 370

 Score = 27.3 bits (59), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 4/62 (6%)

Query: 125 EPSHCFVAIGEP----IPHPANYDVPLSQTFLTKHSLDMKFTYADETMEDFLGFNPDIFI 180
           EPSH     G P    +   +  +     T  T+  L   FT   E  +DF+  + D+FI
Sbjct: 192 EPSHYRSPQGNPGGNRVGDLSGNEALARGTIFTQSRLLSSFTPRSEMEKDFMDLDDDVFI 251

Query: 181 AK 182
           AK
Sbjct: 252 AK 253


  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    0.131    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,235,627
Number of Sequences: 62578
Number of extensions: 244641
Number of successful extensions: 643
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 611
Number of HSP's gapped (non-prelim): 42
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
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: 49 (23.5 bits)