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= psy10825
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 171 bits (433), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 75/92 (81%), Positives = 81/92 (88%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWI 80
D APPIIGYLPFEVLGTSGYDYYHVDDL+++ CHE LMQ G+G SCYYRFLTKGQQWI
Sbjct: 267 DHRAPPIIGYLPFEVLGTSGYDYYHVDDLENLAKCHEHLMQYGKGKSCYYRFLTKGQQWI 326
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNV 112
WLQT +YITYHQWNS+PEFIVCTH VVSY V
Sbjct: 327 WLQTHYYITYHQWNSRPEFIVCTHTVVSYAEV 358
>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 = 68.9 bits (167), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 33/82 (40%), Positives = 51/82 (62%)
Query: 27 IIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQTRF 86
++GY P E+LG S Y+YYH D D + H + KG+ T+ YR L K ++W++T+
Sbjct: 27 LMGYEPEELLGRSIYEYYHALDSDHLTKTHHDMFTKGQVTTGQYRMLAKRGGYVWVETQA 86
Query: 87 YITYHQWNSKPEFIVCTHRVVS 108
+ Y+ NS+P+ IVC + VVS
Sbjct: 87 TVIYNTKNSQPQCIVCVNYVVS 108
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 68.2 bits (165), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 38/95 (40%), Positives = 57/95 (60%), Gaps = 4/95 (4%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEG--TSCYYRFLTKGQQ 78
D A I+ YLP E+LGTS Y+Y+H DD+ + CH ++Q E T+C Y+F K
Sbjct: 294 DQRATAILAYLPQELLGTSCYEYFHQDDIGHLAECHRQVLQTREKITTNC-YKFKIKDGS 352
Query: 79 WIWLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
+I L++R++ + W + E+IV T+ VV NVL
Sbjct: 353 FITLRSRWFSFMNPWTKEVEYIVSTNTVV-LANVL 386
>pdb|1P97|A Chain A, Nmr Structure Of The C-Terminal Pas Domain Of Hif2a
Length = 114
Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 55/96 (57%)
Query: 15 MNSTIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLT 74
M T D +IGY P E+LG S Y++YH D +++ H+ L KG+ S YR L
Sbjct: 16 MKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVVSGQYRMLA 75
Query: 75 KGQQWIWLQTRFYITYHQWNSKPEFIVCTHRVVSYV 110
K ++WL+T+ + Y+ N +P+ I+C + V+S +
Sbjct: 76 KHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEI 111
>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 = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 55/96 (57%)
Query: 15 MNSTIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLT 74
M T D +IGY P E+LG S Y++YH D +++ H+ L KG+ S YR L
Sbjct: 19 MKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVVSGQYRMLA 78
Query: 75 KGQQWIWLQTRFYITYHQWNSKPEFIVCTHRVVSYV 110
K ++WL+T+ + Y+ N +P+ I+C + V+S +
Sbjct: 79 KHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEI 114
>pdb|2A24|A Chain A, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
Length = 107
Score = 67.0 bits (162), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 55/96 (57%)
Query: 15 MNSTIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLT 74
M T D +IGY P E+LG S Y++YH D +++ H+ L KG+ S YR L
Sbjct: 11 MKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVVSGQYRMLA 70
Query: 75 KGQQWIWLQTRFYITYHQWNSKPEFIVCTHRVVSYV 110
K ++WL+T+ + Y+ N +P+ I+C + V+S +
Sbjct: 71 KHGGYVWLETQGTVIYNPRNLQPQCIMCVNYVLSEI 106
>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 = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 50/91 (54%), Gaps = 5/91 (5%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCY-----YRFLTK 75
D A +GYLP +++G S D+YH +DL + +E +M+KG+ YRFL +
Sbjct: 174 DSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTAGASFCSKPYRFLIQ 233
Query: 76 GQQWIWLQTRFYITYHQWNSKPEFIVCTHRV 106
++ L+T + + W+ K EF+V HRV
Sbjct: 234 NGCYVLLETEWTSFVNPWSRKLEFVVGHHRV 264
>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 = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 50/91 (54%), Gaps = 5/91 (5%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCY-----YRFLTK 75
D A +GYLP +++G S D+YH +DL + +E +M+KG+ YRFL +
Sbjct: 170 DSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTAGASFCSKPYRFLIQ 229
Query: 76 GQQWIWLQTRFYITYHQWNSKPEFIVCTHRV 106
++ L+T + + W+ K EF+V HRV
Sbjct: 230 NGCYVLLETEWTSFVNPWSRKLEFVVGHHRV 260
>pdb|3GEC|A Chain A, Crystal Structure Of A Tandem Pas Domain Fragment Of
Drosophila Period
Length = 312
Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 50/91 (54%), Gaps = 5/91 (5%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCY-----YRFLTK 75
D A +GYLP +++G S D+YH +DL + +E +M+KG+ YRFL +
Sbjct: 179 DSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTAGASFCSKPYRFLIQ 238
Query: 76 GQQWIWLQTRFYITYHQWNSKPEFIVCTHRV 106
++ L+T + + W+ K EF+V HRV
Sbjct: 239 NGCYVLLETEWTSFVNPWSRKLEFVVGHHRV 269
>pdb|2KDK|A Chain A, Structure Of Human Circadian Clock Protein Bmal2
C-Terminal Pas Domain
Length = 121
Score = 55.5 bits (132), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 59/109 (54%), Gaps = 3/109 (2%)
Query: 2 VGFKPVTFCMSDLMNSTIY--DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEAL 59
+ KP F +N D A I+GYLP E+LGTS Y+Y+H DD +++ H+A+
Sbjct: 8 INVKPTEFITRFAVNGKFVYVDQRATAILGYLPQELLGTSCYEYFHQDDHNNLTDKHKAV 67
Query: 60 MQKGEGT-SCYYRFLTKGQQWIWLQTRFYITYHQWNSKPEFIVCTHRVV 107
+Q E + Y+F K ++ L+++++ + + E+IV + +V
Sbjct: 68 LQSKEKILTDSYKFRAKDGSFVTLKSQWFSFTNPDTKELEYIVSVNTLV 116
>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 = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 18 TIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKG 76
T D +GY P E+LG + ++ H +D + + +++ KG+ S +RF +K
Sbjct: 23 TFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKN 82
Query: 77 QQWIWLQTRFYITYHQWNSKPEFIVCTH 104
Q+W+W++T + + ++ + E+I+CT+
Sbjct: 83 QEWLWMRTSSFTFQNPYSDEIEYIICTN 110
>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 = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 18 TIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKG 76
T D +GY P E+LG + ++ H +D + + +++ KG+ S +RF +K
Sbjct: 20 TFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKN 79
Query: 77 QQWIWLQTRFYITYHQWNSKPEFIVCTH 104
Q+W+W++T + + ++ + E+I+CT+
Sbjct: 80 QEWLWMRTSSFTFQNPYSDEIEYIICTN 107
>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 = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 18 TIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKG 76
T D +GY P E+LG + ++ H +D + + +++ KG+ S +RF +K
Sbjct: 25 TFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKN 84
Query: 77 QQWIWLQTRFYITYHQWNSKPEFIVCTH 104
Q+W+W++T + + ++ + E+I+CT+
Sbjct: 85 QEWLWMRTSSFTFQNPYSDEIEYIICTN 112
>pdb|2A24|B Chain B, Haddock Structure Of Hif-2aARNT PAS-B Heterodimer
Length = 108
Score = 50.4 bits (119), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 50/88 (56%), Gaps = 1/88 (1%)
Query: 18 TIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKG 76
T D +GY P E+LG + ++ H +D + + +++ KG+ S +RF +K
Sbjct: 17 TFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKN 76
Query: 77 QQWIWLQTRFYITYHQWNSKPEFIVCTH 104
Q+W+W++T + + ++ + E+I+CT+
Sbjct: 77 QEWLWMRTSSFTFQNPYSDEIEYIICTN 104
>pdb|2B02|A Chain A, Crystal Structure Of Arnt Pas-B Domain
Length = 119
Score = 49.3 bits (116), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 49/88 (55%), Gaps = 1/88 (1%)
Query: 18 TIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKG 76
T D +GY P E+LG + ++ H +D + + +++ KG+ S +RF +K
Sbjct: 23 TFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVXFRFRSKN 82
Query: 77 QQWIWLQTRFYITYHQWNSKPEFIVCTH 104
Q+W+W +T + + ++ + E+I+CT+
Sbjct: 83 QEWLWXRTSSFTFQNPYSDEIEYIICTN 110
>pdb|2K7S|A Chain A, Human Arnt C-Terminal Pas Domain, 3 Residue Ib Slip
Length = 119
Score = 49.3 bits (116), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 48/88 (54%), Gaps = 1/88 (1%)
Query: 18 TIYDLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKG 76
T D +GY P E+LG + ++ H +D + + +++ KG+ S +RF +K
Sbjct: 23 TFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKN 82
Query: 77 QQWIWLQTRFYITYHQWNSKPEFIVCTH 104
Q+W+W++T + ++ + E I+CT+
Sbjct: 83 QEWLWMRTSSQTAQNPYSDEIETIICTN 110
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 47/89 (52%), Gaps = 3/89 (3%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYY---RFLTKGQ 77
D A P++GYLP +++GTS Y H +D +V H+ +++ + RF T+
Sbjct: 190 DERAVPLLGYLPQDLIGTSILTYLHPEDRPLMVAIHQKVLKYAGHPPFEHSPVRFCTQNG 249
Query: 78 QWIWLQTRFYITYHQWNSKPEFIVCTHRV 106
+++ L + + + W+ K FI+ H+V
Sbjct: 250 EYVILDSSWSSFVNPWSRKVSFIIGRHKV 278
>pdb|3GDI|A Chain A, Mammalian Clock Protein Mper2 - Crystal Struture Of A Pas
Domain Fragment
pdb|3GDI|B Chain B, Mammalian Clock Protein Mper2 - Crystal Struture Of A Pas
Domain Fragment
Length = 309
Score = 43.5 bits (101), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 50/110 (45%), Gaps = 4/110 (3%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCY--YRFLTKGQQ 78
D A P++GYLP +++ T H D ++ H+ ++Q G Y RF T+ +
Sbjct: 181 DERAVPLLGYLPQDLIETPVLVQLHPSDRPLMLAIHKKILQAGGQPFDYSPIRFRTRNGE 240
Query: 79 WIWLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQVPDSEEQSN 128
+I L T + + W+ K FI+ H+V V L D P E+
Sbjct: 241 YITLDTSWSSFINPWSRKISFIIGRHKV--RVGPLNEDVFAAPPCPEEKT 288
>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 = 42.7 bits (99), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 43/88 (48%), Gaps = 2/88 (2%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGT--SCYYRFLTKGQQ 78
D A P++GYLP ++LG + H +D ++ H+ ++Q RF + +
Sbjct: 192 DERAAPLLGYLPQDLLGAPVLLFLHPEDRPLMLAIHKKILQLAGQPFDHSPIRFCARNGE 251
Query: 79 WIWLQTRFYITYHQWNSKPEFIVCTHRV 106
++ + T + H W+ K F++ H+V
Sbjct: 252 YVTMDTSWAGFVHPWSRKVAFVLGRHKV 279
>pdb|1IMJ|A Chain A, Crystal Structure Of The Human Ccg1/tafii250-interacting
Factor B (cib)
Length = 210
Score = 30.4 bits (67), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 10/80 (12%)
Query: 1 MVGFKPVTFCMSDLMNSTIYDLV-APPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEAL 59
+ GF PV +D +N+ Y V P +I Y + +G + ++ H+ L + H L
Sbjct: 128 LPGFVPVAPICTDKINAANYASVKTPALIVYGDQDPMGQTSFE--HLKQLPN----HRVL 181
Query: 60 MQKGEGTSCYYRFLTKGQQW 79
+ KG G CY L K ++W
Sbjct: 182 IMKGAGHPCY---LDKPEEW 198
>pdb|3MR0|A Chain A, Crystal Structure Of Sensory Box Histidine KinaseRESPONSE
REGULATOR From Burkholderia Thailandensis E264
pdb|3MR0|B Chain B, Crystal Structure Of Sensory Box Histidine KinaseRESPONSE
REGULATOR From Burkholderia Thailandensis E264
Length = 142
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 47/107 (43%), Gaps = 16/107 (14%)
Query: 27 IIGY----LPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWL 82
I GY LP E+ G + H DD V+ +A ++ + YR T+ + W+
Sbjct: 41 IXGYEDHELPDEITGHR--ESIHPDDRARVLAALKAHLEHRDTYDVEYRVRTRSGDFRWI 98
Query: 83 QTRFYITYHQWNSKPEFIVCTHRVVSYVNVL---RRDNNQVPDSEEQ 126
Q+R WNS E +R V ++ + +RD + + S E+
Sbjct: 99 QSRGQAL---WNSAGE----PYRXVGWIXDVTDRKRDEDALRVSREE 138
>pdb|2QMA|A Chain A, Crystal Structure Of Glutamate Decarboxylase Domain Of
Diaminobutyrate-Pyruvate Transaminase And
L-2,4-Diaminobutyrate Decarboxylase From Vibrio
Parahaemolyticus
pdb|2QMA|B Chain B, Crystal Structure Of Glutamate Decarboxylase Domain Of
Diaminobutyrate-Pyruvate Transaminase And
L-2,4-Diaminobutyrate Decarboxylase From Vibrio
Parahaemolyticus
Length = 497
Score = 26.9 bits (58), Expect = 4.1, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 29 GYLPFEVLGTSG-YDYYHVDDLDSV 52
G +PF ++GT+G D+ +DDLD +
Sbjct: 256 GLIPFAIVGTAGTTDHGAIDDLDFI 280
>pdb|3NQK|A Chain A, Crystal Structure Of A Structural Genomics, Unknown
Function (Bacova_03322) From Bacteroides Ovatus At 2.61
A Resolution
pdb|3SOT|A Chain A, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|B Chain B, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|C Chain C, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|D Chain D, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|E Chain E, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
pdb|3SOT|F Chain F, Crystal Structure Of A Multidomain Protein Including
Duf1735 (Bacova_03322) From Bacteroides Ovatus At 2.80 A
Resolution
Length = 319
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 95 SKPEFIVCTHRVVSYVNVLRRDNNQVPDSEEQ 126
S E I +RV +LR N Q+PD ++Q
Sbjct: 285 SGTEVIPIKYRVAGSXTLLRNINTQIPDEDQQ 316
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 0.137 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,923,827
Number of Sequences: 62578
Number of extensions: 203946
Number of successful extensions: 368
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 335
Number of HSP's gapped (non-prelim): 23
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)