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= psy13101
(420 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OLM|E Chain E, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 119 bits (298), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 61/195 (31%), Positives = 108/195 (55%), Gaps = 4/195 (2%)
Query: 169 DGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGF 228
+ +L+ + +RK+ ++D I+ ++ P V++ Y +G D + P++ +G +D KG
Sbjct: 53 EAMLRKHVEFRKQKDIDNIIS-WQPPEVIQQYLSGGMCGYDLDGCPVWYDIIGPLDAKGL 111
Query: 229 LKTVGEDGLLKLAMHVCEEGLALTEEYTRKYSRPITTWSLLIDLEGLNMRHLWRPGVKAL 288
L + + LL+ M CE L T K R + T +++ D EGL ++HLW+P V+A
Sbjct: 112 LFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAY 171
Query: 289 LRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDETTRSKFLVYAGNDYQSAGGL 348
+ + E NYPETL R+ +++AP++FP+ + L+ F+ E TR K +V N + L
Sbjct: 172 GEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEV---L 228
Query: 349 IDYIEQQYIPDFLGG 363
+ +I +P GG
Sbjct: 229 LKHISPDQVPVEYGG 243
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 68/122 (55%), Gaps = 2/122 (1%)
Query: 56 LGDLTPMQESKLIQFKKQF-GYLQKGKLPSDSTLLRFLKSKDFNLEKGRESLSQSLTWRK 114
+GDL+P Q+ L +F++ L P D LLR+L+++ F+L+K L + + +RK
Sbjct: 5 VGDLSPRQKEALAKFRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAMLRKHVEFRK 64
Query: 115 RHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGFLKTVGEDGLLKL 174
+ ++D I+ ++ P V++ Y +G D + P++ +G +D KG L + + LL+
Sbjct: 65 QKDIDNII-SWQPPEVIQQYLSGGMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRT 123
Query: 175 SL 176
+
Sbjct: 124 KM 125
>pdb|1OLM|A Chain A, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
pdb|1OLM|C Chain C, Supernatant Protein Factor In Complex With
Rrr-Alpha-Tocopherylquinone: A Link Between Oxidized
Vitamin E And Cholesterol Biosynthesis
Length = 403
Score = 119 bits (297), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 61/195 (31%), Positives = 108/195 (55%), Gaps = 4/195 (2%)
Query: 169 DGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGF 228
+ +L+ + +RK+ ++D I+ ++ P V++ Y +G D + P++ +G +D KG
Sbjct: 53 EAMLRKHVEFRKQKDIDNIIS-WQPPEVIQQYLSGGMCGYDLDGCPVWYDIIGPLDAKGL 111
Query: 229 LKTVGEDGLLKLAMHVCEEGLALTEEYTRKYSRPITTWSLLIDLEGLNMRHLWRPGVKAL 288
L + + LL+ M CE L T K R + T +++ D EGL ++HLW+P V+A
Sbjct: 112 LFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAY 171
Query: 289 LRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDETTRSKFLVYAGNDYQSAGGL 348
+ + E NYPETL R+ +++AP++FP+ + L+ F+ E TR K +V N + L
Sbjct: 172 GEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEV---L 228
Query: 349 IDYIEQQYIPDFLGG 363
+ +I +P GG
Sbjct: 229 LKHISPDQVPVEYGG 243
Score = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 68/122 (55%), Gaps = 2/122 (1%)
Query: 56 LGDLTPMQESKLIQFKKQF-GYLQKGKLPSDSTLLRFLKSKDFNLEKGRESLSQSLTWRK 114
+GDL+P Q+ L +F++ L P D LLR+L+++ F+L+K L + + +RK
Sbjct: 5 VGDLSPRQKEALAKFRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAMLRKHVEFRK 64
Query: 115 RHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGFLKTVGEDGLLKL 174
+ ++D I+ ++ P V++ Y +G D + P++ +G +D KG L + + LL+
Sbjct: 65 QKDIDNII-SWQPPEVIQQYLSGGMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRT 123
Query: 175 SL 176
+
Sbjct: 124 KM 125
>pdb|1O6U|A Chain A, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|C Chain C, The Crystal Structure Of Human Supernatant Protein Factor
pdb|1O6U|E Chain E, The Crystal Structure Of Human Supernatant Protein Factor
Length = 403
Score = 113 bits (282), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 60/195 (30%), Positives = 104/195 (53%), Gaps = 4/195 (2%)
Query: 169 DGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGF 228
+ L+ + +RK+ ++D I+ ++ P V++ Y +G D + P++ +G +D KG
Sbjct: 53 EAXLRKHVEFRKQKDIDNIIS-WQPPEVIQQYLSGGXCGYDLDGCPVWYDIIGPLDAKGL 111
Query: 229 LKTVGEDGLLKLAMHVCEEGLALTEEYTRKYSRPITTWSLLIDLEGLNMRHLWRPGVKAL 288
L + + LL+ CE L T K R + T +++ D EGL ++HLW+P V+A
Sbjct: 112 LFSASKQDLLRTKXRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAY 171
Query: 289 LRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDETTRSKFLVYAGNDYQSAGGL 348
+ E NYPETL R+ +++AP++FP+ + L+ F+ E TR K V N + L
Sbjct: 172 GEFLCXFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIXVLGANWKEV---L 228
Query: 349 IDYIEQQYIPDFLGG 363
+ +I +P GG
Sbjct: 229 LKHISPDQVPVEYGG 243
Score = 61.6 bits (148), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 67/119 (56%), Gaps = 2/119 (1%)
Query: 56 LGDLTPMQESKLIQFKKQF-GYLQKGKLPSDSTLLRFLKSKDFNLEKGRESLSQSLTWRK 114
+GDL+P Q+ L +F++ L P D LLR+L+++ F+L+K L + + +RK
Sbjct: 5 VGDLSPRQKEALAKFRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAXLRKHVEFRK 64
Query: 115 RHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGFLKTVGEDGLLK 173
+ ++D I+ ++ P V++ Y +G D + P++ +G +D KG L + + LL+
Sbjct: 65 QKDIDNII-SWQPPEVIQQYLSGGXCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLR 122
>pdb|1AUA|A Chain A, Phosphatidylinositol Transfer Protein Sec14p From
Saccharomyces Cerevisiae
Length = 296
Score = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 78/317 (24%), Positives = 128/317 (40%), Gaps = 79/317 (24%)
Query: 57 GDLTPMQESKLIQFKK---QFGYLQKGKLPSDSTLLRFLKSKDFNLEKGRESLSQSLTWR 113
G+L QE L + +K G++++ DSTLLRFL+++ F+++ +E WR
Sbjct: 24 GNLDSAQEKALAELRKLLEDAGFIERL---DDSTLLRFLRARKFDVQLAKEMFENCEKWR 80
Query: 114 KRHNVDQILQ--QYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGFLKTVGEDGL 171
K + D ILQ Y+ P++ ++ +H D++ RP+Y +LG +++ K E+ +
Sbjct: 81 KDYGTDTILQDFHYDEKPLIAKFYPQYYHKTDKDGRPVYFEELGAVNLHEMNKVTSEERM 140
Query: 172 LKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGFLKT 231
LK +L W V QY P C R L +MD+K
Sbjct: 141 LK-NLVWEYESVV-----QYRLP------------ACSRAAGHLVETSCTIMDLK----- 177
Query: 232 VGEDGLLKLAMHVCEEGLALTEEYTRKYSRPITTWSLLIDLEGLNMRHLWRPGVKALLRI 291
G++++ Y+ V + +R
Sbjct: 178 ----------------GISISSAYS----------------------------VMSYVRE 193
Query: 292 IEIVETN-YPETLGRVLIIRAPRVFPILWTLVSTFIDETTRSKFLVYAGNDYQSAGGLID 350
+ N YPE +G+ II AP F + L F+D T SK + G+ YQ L+
Sbjct: 194 ASYISQNYYPERMGKFYIINAPFGFSTAFRLFKPFLDPVTVSKIFI-LGSSYQKE--LLK 250
Query: 351 YIEQQYIPDFLGGPCET 367
I + +P GG E
Sbjct: 251 QIPAENLPVKFGGKSEV 267
>pdb|3Q8G|A Chain A, Resurrection Of A Functional Phosphatidylinositol Transfer
Protein From A Pseudo-Sec14 Scaffold By Directed
Evolution
Length = 320
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 74/315 (23%), Positives = 123/315 (39%), Gaps = 77/315 (24%)
Query: 57 GDLTPMQESKLIQFKKQFGYLQKGKLPSDSTLLRFLKSKDFNLEKGRESLSQSLTWRKRH 116
G+LT QE L+QF+ + DSTLLRFL+++ F++ E ++ WR+ +
Sbjct: 33 GNLTKEQEEALLQFRSILLEKNYKERLDDSTLLRFLRARKFDINASVEMFVETERWREEY 92
Query: 117 NVDQILQQYEAPPVVR--------AYFTGTWHHCDREMRPLYLFKLGVMDVKGFLKTVGE 168
+ I++ YE + +HH D++ RPLY +LG +++K K E
Sbjct: 93 GANTIIEDYENNKEAEDKERIKLAKMYPQYYHHVDKDGRPLYFAELGGINLKKMYKITTE 152
Query: 169 DGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGF 228
+L+ ++++YE R C R L V+D+KG
Sbjct: 153 KQMLR------------NLVKEYELFATYRV------PACSRRAGYLIETSCTVLDLKGI 194
Query: 229 LKTVGEDGLLKLAMHVCEEGLALTEEYTRKYSRPITTWSLLIDLEGLNMRHLWRPGVKAL 288
L A HV S + D
Sbjct: 195 --------SLSNAYHVL---------------------SYIKD----------------- 208
Query: 289 LRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDETTRSKFLVYAGNDYQSAGGL 348
+ +I + YPE +G+ II +P F ++ +V F+D T SK + G+ Y+ L
Sbjct: 209 --VADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVSKIFI-LGSSYKKE--L 263
Query: 349 IDYIEQQYIPDFLGG 363
+ I + +P GG
Sbjct: 264 LKQIPIENLPVKYGG 278
>pdb|3B74|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylethanolamine
pdb|3B7N|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylinositol
pdb|3B7Q|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylcholine
pdb|3B7Q|B Chain B, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylcholine
pdb|3B7Z|A Chain A, Crystal Structure Of Yeast Sec14 Homolog Sfh1 In Complex
With Phosphatidylcholine Or Phosphatidylinositol
Length = 320
Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 74/315 (23%), Positives = 123/315 (39%), Gaps = 77/315 (24%)
Query: 57 GDLTPMQESKLIQFKKQFGYLQKGKLPSDSTLLRFLKSKDFNLEKGRESLSQSLTWRKRH 116
G+LT QE L+QF+ + DSTLLRFL+++ F++ E ++ WR+ +
Sbjct: 33 GNLTKEQEEALLQFRSILLEKNYKERLDDSTLLRFLRARKFDINASVEMFVETERWREEY 92
Query: 117 NVDQILQQYEAPPVVR--------AYFTGTWHHCDREMRPLYLFKLGVMDVKGFLKTVGE 168
+ I++ YE + +HH D++ RPLY +LG +++K K E
Sbjct: 93 GANTIIEDYENNKEAEDKERIKLAKMYPQYYHHVDKDGRPLYFEELGGINLKKMYKITTE 152
Query: 169 DGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVKGF 228
+L+ ++++YE R C R L V+D+KG
Sbjct: 153 KQMLR------------NLVKEYELFATYRV------PACSRRAGYLIETSCTVLDLKGI 194
Query: 229 LKTVGEDGLLKLAMHVCEEGLALTEEYTRKYSRPITTWSLLIDLEGLNMRHLWRPGVKAL 288
L A HV S + D
Sbjct: 195 --------SLSNAYHVL---------------------SYIKD----------------- 208
Query: 289 LRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDETTRSKFLVYAGNDYQSAGGL 348
+ +I + YPE +G+ II +P F ++ +V F+D T SK + G+ Y+ L
Sbjct: 209 --VADISQNYYPERMGKFYIIHSPFGFSTMFKMVKPFLDPVTVSKIFI-LGSSYKKE--L 263
Query: 349 IDYIEQQYIPDFLGG 363
+ I + +P GG
Sbjct: 264 LKQIPIENLPVKYGG 278
>pdb|4FMM|A Chain A, Dimeric Sec14 Family Homolog 3 From Saccharomyces
Cerevisiae Presents Some Novel Features Of Structure
That Lead To A Surprising "dimer- Monomer" State Change
Induced By Substrate Binding
pdb|4FMM|B Chain B, Dimeric Sec14 Family Homolog 3 From Saccharomyces
Cerevisiae Presents Some Novel Features Of Structure
That Lead To A Surprising "dimer- Monomer" State Change
Induced By Substrate Binding
Length = 360
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%)
Query: 283 PGVKALLRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDETTRSKFL 335
P + ++ I++T+YPE LG+ L+ P + L+ FID TR K +
Sbjct: 217 PPIGVGKEVLHILQTHYPERLGKALLTNIPWLAWTFLKLIHPFIDPLTREKLV 269
>pdb|1OIP|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-tocopherol Transfer Protein
pdb|1OIZ|A Chain A, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
pdb|1OIZ|B Chain B, The Molecular Basis Of Vitamin E Retention: Structure Of
Human Alpha-Tocopherol Transfer Protein
Length = 278
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/93 (20%), Positives = 42/93 (45%), Gaps = 8/93 (8%)
Query: 269 LIDLEGLNMRHLWRPGVKALLRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDE 328
+ DLEG H ++ +I ++ ++P + + +I P +F +++++ F+ E
Sbjct: 157 IFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSMIKPFLTE 216
Query: 329 TTRSKFLVYAGNDYQSAGGLIDYIEQQYIPDFL 361
+ + ++ N QS Q+ PD L
Sbjct: 217 KIKERIHMHGNNYKQSL--------LQHFPDIL 241
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 84 SDSTLLRFLKSKDFNLEKGRESLSQSLTWR 113
+DS LLRFL+++DF+L+ L WR
Sbjct: 48 TDSFLLRFLRARDFDLDLAWRLLKNYYKWR 77
>pdb|1R5L|A Chain A, Crystal Structure Of Human Alpha-tocopherol Transfer
Protein Bound To Its Ligand
Length = 262
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 19/93 (20%), Positives = 40/93 (43%), Gaps = 8/93 (8%)
Query: 269 LIDLEGLNMRHLWRPGVKALLRIIEIVETNYPETLGRVLIIRAPRVFPILWTLVSTFIDE 328
+ DLEG H ++ +I ++ ++P + + +I P +F +++ + F+ E
Sbjct: 141 IFDLEGWQFSHAFQITPSVAKKIAAVLTDSFPLKVRGIHLINEPVIFHAVFSXIKPFLTE 200
Query: 329 TTRSKFLVYAGNDYQSAGGLIDYIEQQYIPDFL 361
+ + + N QS Q+ PD L
Sbjct: 201 KIKERIHXHGNNYKQSL--------LQHFPDIL 225
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 84 SDSTLLRFLKSKDFNLEKGRESLSQSLTWR 113
+DS LLRFL+++DF+L+ L WR
Sbjct: 32 TDSFLLRFLRARDFDLDLAWRLLKNYYKWR 61
>pdb|1BI8|A Chain A, Mechanism Of G1 Cyclin Dependent Kinase Inhibition From
The Structures Cdk6-P19ink4d Inhibitor Complex
pdb|1BI8|C Chain C, Mechanism Of G1 Cyclin Dependent Kinase Inhibition From
The Structures Cdk6-P19ink4d Inhibitor Complex
pdb|1BI7|A Chain A, Mechanism Of G1 Cyclin Dependent Kinase Inhibition From
The Structure Of The Cdk6-P16ink4a Tumor Suppressor
Complex
pdb|1BLX|A Chain A, P19ink4dCDK6 COMPLEX
pdb|1G3N|A Chain A, Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Complex
pdb|1G3N|E Chain E, Structure Of A P18(Ink4c)-Cdk6-K-Cyclin Ternary Complex
Length = 326
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 90 RFLKSKDFNLEKGRESLSQSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPL 149
RF+ K ++ G E + L+ + V + L+ +E P VVR + T DRE +
Sbjct: 38 RFVALKRVRVQTGEEGMP--LSTIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLT 95
Query: 150 YLFKLGVMDVKGFLKTVGEDGL 171
+F+ D+ +L V E G+
Sbjct: 96 LVFEHVDQDLTTYLDKVPEPGV 117
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 47/196 (23%), Positives = 80/196 (40%), Gaps = 20/196 (10%)
Query: 167 GEDGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVK 226
GE+G+ L+ + V + L+ +E P VVR + T DRE + +F+ D+
Sbjct: 50 GEEGM---PLSTIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLTLVFEHVDQDLT 106
Query: 227 GFLKTVGEDGL----LKLAMHVCEEGLALTEEY-----TRKYSRPITTWSLLIDLEGLNM 277
+L V E G+ +K M GL + K + T S I L +
Sbjct: 107 TYLDKVPEPGVPTETIKDMMFQLLRGLDFLHSHRVVHRDLKPQNILVTSSGQIKLADFGL 166
Query: 278 RHLWRPGVKALLRIIEIVETNYPETLGRVLIIRAPRVFPI-LWTLVSTFIDETTRSKFLV 336
++ + AL ++ + PE L +++ P+ LW++ F E R K L
Sbjct: 167 ARIYSFQM-ALTSVVVTLWYRAPEVL-----LQSSYATPVDLWSVGCIFA-EMFRRKPLF 219
Query: 337 YAGNDYQSAGGLIDYI 352
+D G ++D I
Sbjct: 220 RGSSDVDQLGKILDVI 235
>pdb|1JOW|B Chain B, Crystal Structure Of A Complex Of Human Cdk6 And A Viral
Cyclin
pdb|1XO2|B Chain B, Crystal Structure Of A Human Cyclin-Dependent Kinase 6
Complex With A Flavonol Inhibitor, Fisetin
pdb|2EUF|B Chain B, X-Ray Structure Of Human Cdk6-Vcyclin In Complex With The
Inhibitor Pd0332991
pdb|2F2C|B Chain B, X-Ray Structure Of Human Cdk6-Vcyclinwith The Inhibitor
Aminopurvalanol
Length = 308
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 90 RFLKSKDFNLEKGRESLSQSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPL 149
RF+ K ++ G E + L+ + V + L+ +E P VVR + T DRE +
Sbjct: 38 RFVALKRVRVQTGEEGMP--LSTIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLT 95
Query: 150 YLFKLGVMDVKGFLKTVGEDGL 171
+F+ D+ +L V E G+
Sbjct: 96 LVFEHVDQDLTTYLDKVPEPGV 117
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 47/196 (23%), Positives = 80/196 (40%), Gaps = 20/196 (10%)
Query: 167 GEDGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVK 226
GE+G+ L+ + V + L+ +E P VVR + T DRE + +F+ D+
Sbjct: 50 GEEGM---PLSTIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLTLVFEHVDQDLT 106
Query: 227 GFLKTVGEDGL----LKLAMHVCEEGLALTEEY-----TRKYSRPITTWSLLIDLEGLNM 277
+L V E G+ +K M GL + K + T S I L +
Sbjct: 107 TYLDKVPEPGVPTETIKDMMFQLLRGLDFLHSHRVVHRDLKPQNILVTSSGQIKLADFGL 166
Query: 278 RHLWRPGVKALLRIIEIVETNYPETLGRVLIIRAPRVFPI-LWTLVSTFIDETTRSKFLV 336
++ + AL ++ + PE L +++ P+ LW++ F E R K L
Sbjct: 167 ARIYSFQM-ALTSVVVTLWYRAPEVL-----LQSSYATPVDLWSVGCIFA-EMFRRKPLF 219
Query: 337 YAGNDYQSAGGLIDYI 352
+D G ++D I
Sbjct: 220 RGSSDVDQLGKILDVI 235
>pdb|3NUP|A Chain A, Cdk6 (Monomeric) In Complex With Inhibitor
pdb|3NUX|A Chain A, Cdk6 (Monomeric) In Complex With Inhibitor
pdb|4AUA|A Chain A, Liganded X-ray Crystal Structure Of Cyclin Dependent
Kinase 6 (cdk6)
pdb|4EZ5|A Chain A, Cdk6 (monomeric) In Complex With Inhibitor
Length = 307
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 90 RFLKSKDFNLEKGRESLSQSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPL 149
RF+ K ++ G E + L+ + V + L+ +E P VVR + T DRE +
Sbjct: 38 RFVALKRVRVQTGEEGMP--LSTIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLT 95
Query: 150 YLFKLGVMDVKGFLKTVGEDGL 171
+F+ D+ +L V E G+
Sbjct: 96 LVFEHVDQDLTTYLDKVPEPGV 117
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 47/196 (23%), Positives = 80/196 (40%), Gaps = 20/196 (10%)
Query: 167 GEDGLLKLSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDREMRPLYLFKLGVMDVK 226
GE+G+ L+ + V + L+ +E P VVR + T DRE + +F+ D+
Sbjct: 50 GEEGM---PLSTIREVAVLRHLETFEHPNVVRLFDVCTVSRTDRETKLTLVFEHVDQDLT 106
Query: 227 GFLKTVGEDGL----LKLAMHVCEEGLALTEEY-----TRKYSRPITTWSLLIDLEGLNM 277
+L V E G+ +K M GL + K + T S I L +
Sbjct: 107 TYLDKVPEPGVPTETIKDMMFQLLRGLDFLHSHRVVHRDLKPQNILVTSSGQIKLADFGL 166
Query: 278 RHLWRPGVKALLRIIEIVETNYPETLGRVLIIRAPRVFPI-LWTLVSTFIDETTRSKFLV 336
++ + AL ++ + PE L +++ P+ LW++ F E R K L
Sbjct: 167 ARIYSFQM-ALTSVVVTLWYRAPEVL-----LQSSYATPVDLWSVGCIFA-EMFRRKPLF 219
Query: 337 YAGNDYQSAGGLIDYI 352
+D G ++D I
Sbjct: 220 RGSSDVDQLGKILDVI 235
>pdb|2X0L|B Chain B, Crystal Structure Of A Neuro-Specific Splicing Variant Of
Human Histone Lysine Demethylase Lsd1
Length = 133
Score = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 23/111 (20%), Positives = 58/111 (52%), Gaps = 6/111 (5%)
Query: 86 STLLRFLKSKDFNLEKGRESLSQSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDRE 145
+T+LR L + ++++ +++ Q+ + K +D ++ Y P V++ W ++
Sbjct: 25 TTVLRQLDMELVSVKRQIQNIKQTNSALKE-KLDGGIEPYRLPEVIQK-CNARWTTEEQL 82
Query: 146 MRPLYLFKLGVMDVKGFLKTVGEDGLLKLS---LTWRKRHNVDQILQQYEA 193
+ + K G D + +G ++++ + +R+R N+D++LQ++EA
Sbjct: 83 LAVQAIRKYG-RDFQAISDVIGNKSVVQVKNFFVNYRRRFNIDEVLQEWEA 132
>pdb|2V1D|B Chain B, Structural Basis Of Lsd1-Corest Selectivity In Histone H3
Recognition
pdb|2Y48|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With A N-
Terminal Snail Peptide
Length = 178
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 23/111 (20%), Positives = 58/111 (52%), Gaps = 6/111 (5%)
Query: 86 STLLRFLKSKDFNLEKGRESLSQSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDRE 145
+T+LR L + ++++ +++ Q+ + K +D ++ Y P V++ W ++
Sbjct: 28 TTVLRQLDMELVSVKRQIQNIKQTNSALK-EKLDGGIEPYRLPEVIQK-CNARWTTEEQL 85
Query: 146 MRPLYLFKLGVMDVKGFLKTVGEDGLLKLS---LTWRKRHNVDQILQQYEA 193
+ + K G D + +G ++++ + +R+R N+D++LQ++EA
Sbjct: 86 LAVQAIRKYG-RDFQAISDVIGNKSVVQVKNFFVNYRRRFNIDEVLQEWEA 135
>pdb|4B6I|A Chain A, Crystal Structure Rap2b (Sma2266) From Serratia
Marcescens
pdb|4B6I|B Chain B, Crystal Structure Rap2b (Sma2266) From Serratia
Marcescens
pdb|4B6I|C Chain C, Crystal Structure Rap2b (Sma2266) From Serratia
Marcescens
pdb|4B6I|D Chain D, Crystal Structure Rap2b (Sma2266) From Serratia
Marcescens
Length = 102
Score = 28.5 bits (62), Expect = 8.0, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 54 RCLGDLTPMQESKLIQFKKQFGYLQKGKLPSDS 86
RC+G T + +K F+ YL+ KLP D+
Sbjct: 23 RCIGKSTDSERTKQDAFRSASAYLELSKLPMDA 55
>pdb|2CDE|B Chain B, Structure And Binding Kinetics Of Three Different Human
Cd1d-Alpha-Galactosylceramide Specific T Cell Receptors
- Inkt-Tcr
pdb|2CDE|D Chain D, Structure And Binding Kinetics Of Three Different Human
Cd1d-Alpha-Galactosylceramide Specific T Cell Receptors
- Inkt-Tcr
pdb|2CDE|F Chain F, Structure And Binding Kinetics Of Three Different Human
Cd1d-Alpha-Galactosylceramide Specific T Cell Receptors
- Inkt-Tcr
Length = 244
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 3/70 (4%)
Query: 61 PMQESKLIQFKKQFGYLQKGKLPSDSTLLRFLKSKDF--NLEKGRESLSQSLTWRKRHNV 118
P E LI + +KG L S+ST+ R ++++ F LE R S + N+
Sbjct: 39 PGMELHLIHYSYGVNSTEKGDLSSESTVSR-IRTEHFPLTLESARPSHTSQYLCASSENI 97
Query: 119 DQILQQYEAP 128
+QY P
Sbjct: 98 GTAYEQYFGP 107
>pdb|2IW5|B Chain B, Structural Basis For Corest-dependent Demethylation Of
Nucleosomes By The Human Lsd1 Histone Demethylase
pdb|2UXN|B Chain B, Structural Basis Of Histone Demethylation By Lsd1 Revealed
By Suicide Inactivation
pdb|2UXX|B Chain B, Human Lsd1 Histone Demethylase-Corest In Complex With An
Fad-Tranylcypromine Adduct
Length = 235
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 23/111 (20%), Positives = 58/111 (52%), Gaps = 6/111 (5%)
Query: 86 STLLRFLKSKDFNLEKGRESLSQSLTWRKRHNVDQILQQYEAPPVVRAYFTGTWHHCDRE 145
+T+LR L + ++++ +++ Q+ + K +D ++ Y P V++ W ++
Sbjct: 85 TTVLRQLDMELVSVKRQIQNIKQTNSALK-EKLDGGIEPYRLPEVIQK-CNARWTTEEQL 142
Query: 146 MRPLYLFKLGVMDVKGFLKTVGEDGLLKLS---LTWRKRHNVDQILQQYEA 193
+ + K G D + +G ++++ + +R+R N+D++LQ++EA
Sbjct: 143 LAVQAIRKYG-RDFQAISDVIGNKSVVQVKNFFVNYRRRFNIDEVLQEWEA 192
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
0.323 0.141 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,835,608
Number of Sequences: 62578
Number of extensions: 527085
Number of successful extensions: 1083
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1046
Number of HSP's gapped (non-prelim): 39
length of query: 420
length of database: 14,973,337
effective HSP length: 101
effective length of query: 319
effective length of database: 8,652,959
effective search space: 2760293921
effective search space used: 2760293921
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: 53 (25.0 bits)