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= psy1168
(229 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC
Length = 285
Score = 292 bits (748), Expect = 1e-79, Method: Compositional matrix adjust.
Identities = 133/188 (70%), Positives = 161/188 (85%)
Query: 17 QWVLDRQDLIRERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRF 76
QW+LD+QDL++ER+ DL LS+EEY K+ IFF N IQ LGE LKLRQQVIATATVYFKRF
Sbjct: 15 QWILDKQDLLKERQKDLKFLSEEEYWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRF 74
Query: 77 YARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRT 136
YAR SLK IDP+L+APTCVFLASKVEEFGV+S++RL++ +V+K + +YA+ +EFPYR
Sbjct: 75 YARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNTRLIAAATSVLKTRFSYAFPKEFPYRM 134
Query: 137 NHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLY 196
NHILECEFYLLE +DCCLIVY PYRPLLQ VQD+G ED LL LAWR++ND+ RTD+CLLY
Sbjct: 135 NHILECEFYLLELMDCCLIVYHPYRPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDLCLLY 194
Query: 197 PPYQIAIG 204
PP+ IA+
Sbjct: 195 PPFMIALA 202
>pdb|1ZP2|A Chain A, Structure Of The Mediator Subunit Cyclin C
Length = 235
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 56/172 (32%), Positives = 88/172 (51%), Gaps = 10/172 (5%)
Query: 32 DLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKRFY-ARNSLKCIDPLLL 90
DL L K I+ +Q G++L+LRQ+V+ATA V +R+ +N K L
Sbjct: 15 DLESLEPTCLSKDTIYQWKVVQTFGDRLRLRQRVLATAIVLLRRYMLKKNEEKGFSLEAL 74
Query: 91 APTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENL 150
TC++L+ KVEE V + + C N+ N ++ + ++I E EF ++ L
Sbjct: 75 VATCIYLSCKVEECPV----HIRTIC-----NEANDLWSLKVKLSRSNISEIEFEIISVL 125
Query: 151 DCCLIVYQPYRPLLQLVQDIGHEDQLLALAWRVINDSLRTDVCLLYPPYQIA 202
D LIV+ PY L Q D + L AW ++NDS + +CL+ P+Q+A
Sbjct: 126 DAFLIVHHPYTSLEQAFHDGIINQKQLEFAWSIVNDSYASSLCLMAHPHQLA 177
>pdb|1KXU|A Chain A, Cyclin H, A Positive Regulatory Subunit Of Cdk Activating
Kinase
Length = 333
Score = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 53/148 (35%), Positives = 70/148 (47%), Gaps = 17/148 (11%)
Query: 63 QQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKN 122
+ V+ TA +YFKRFY NS+ P ++ TC FLA KV+EF V S V N
Sbjct: 87 RSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQ--------FVGN 138
Query: 123 KLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIG-------HEDQ 175
QE ILE E L++ L+ LIV+ PYRP + D+ + +
Sbjct: 139 LRESPLGQE--KALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEI 196
Query: 176 LLALAWRVINDSLRTDVCLLYPPYQIAI 203
L A +N TD LLY P QIA+
Sbjct: 197 LRKTADDFLNRIALTDAYLLYTPSQIAL 224
>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2
Length = 323
Score = 68.6 bits (166), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 53/148 (35%), Positives = 70/148 (47%), Gaps = 17/148 (11%)
Query: 63 QQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKN 122
+ V+ TA +YFKRFY NS+ P ++ TC FLA KV+EF V S V N
Sbjct: 77 RSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQ--------FVGN 128
Query: 123 KLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIG-------HEDQ 175
QE ILE E L++ L+ LIV+ PYRP + D+ + +
Sbjct: 129 LRESPLGQE--KALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEI 186
Query: 176 LLALAWRVINDSLRTDVCLLYPPYQIAI 203
L A +N TD LLY P QIA+
Sbjct: 187 LRKTADDFLNRIALTDAYLLYTPSQIAL 214
>pdb|2I53|A Chain A, Crystal Structure Of Cyclin K
Length = 258
Score = 66.2 bits (160), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 56/193 (29%), Positives = 91/193 (47%), Gaps = 13/193 (6%)
Query: 18 WVLDRQDLIR--ERKHDLSILSDEEYQKIFIFFANFIQILGEQLKLRQQVIATATVYFKR 75
W D++DL + L ++ Y++ A FI +G +L L +AT +YF R
Sbjct: 15 WYWDKKDLAHTPSQLEGLDPATEARYRREG---ARFIFDVGTRLGLHYDTLATGIIYFHR 71
Query: 76 FYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPYR 135
FY +S K + C+FLA KVEE ++ T ++++ N + + + P
Sbjct: 72 FYMFHSFKQFPRYVTGACCLFLAGKVEE-TPKKCKDIIKTARSLL-NDVQFGQFGDDP-- 127
Query: 136 TNHILECEFYLLENLDCCLIVYQPYRPLL----QLVQDIGHEDQLLALAWRVINDSLRTD 191
++ E LL+ + L V PY+ LL QL D +L+ +AW +NDSL T
Sbjct: 128 KEEVMVLERILLQTIKFDLQVEHPYQFLLKYAKQLKGDKNKIQKLVQMAWTFVNDSLCTT 187
Query: 192 VCLLYPPYQIAIG 204
+ L + P IA+
Sbjct: 188 LSLQWEPEIIAVA 200
>pdb|2IVX|A Chain A, Crystal Structure Of Human Cyclin T2 At 1.8 A Resolution
(Casp Target)
pdb|2IVX|B Chain B, Crystal Structure Of Human Cyclin T2 At 1.8 A Resolution
(Casp Target)
Length = 257
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 45/161 (27%), Positives = 78/161 (48%), Gaps = 12/161 (7%)
Query: 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFG--- 105
AN IQ +G++L + Q I TA VY RFY +S + +++ T +FLA+KVEE
Sbjct: 35 ANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTALFLAAKVEEQARKL 94
Query: 106 ---VISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRP 162
+ + L + ++ K + AY Q+ T ++ E +L+ L + + P+
Sbjct: 95 EHVIKVAHACLHPLEPLLDTKCD-AYLQQ----TRELVILETIMLQTLGFEITIEHPHTD 149
Query: 163 LLQLVQDIGHEDQLLALAWRVINDSLR-TDVCLLYPPYQIA 202
+++ Q + L ++ + +SL T CL Y P IA
Sbjct: 150 VVKCTQLVRASKDLAQTSYFMATNSLHLTTFCLQYKPTVIA 190
>pdb|3TNH|B Chain B, Cdk9CYCLIN T IN COMPLEX WITH CAN508
pdb|3TNI|B Chain B, Structure Of Cdk9CYCLIN T F241L
Length = 259
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 72/160 (45%), Gaps = 10/160 (6%)
Query: 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEE----- 103
AN +Q +G++L + Q I TA VY RFY S +AP +FLA+KVEE
Sbjct: 42 ANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTQFPGNSVAPAALFLAAKVEEQPKKL 101
Query: 104 FGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPL 163
VI + Q + + + AY Q+ ++ E +L+ L L + P+ +
Sbjct: 102 EHVIKVAHTCLHPQESLPDTRSEAYLQQV----QDLVILESIILQTLGFELTIDHPHTHV 157
Query: 164 LQLVQDIGHEDQLLALAWRVINDSLR-TDVCLLYPPYQIA 202
++ Q + L ++ + +SL T L Y P +A
Sbjct: 158 VKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQYTPPVVA 197
>pdb|3MI9|B Chain B, Crystal Structure Of Hiv-1 Tat Complexed With Human P-Tefb
pdb|3MIA|B Chain B, Crystal Structure Of Hiv-1 Tat Complexed With Atp-Bound
Human P-Tefb
Length = 266
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 72/160 (45%), Gaps = 10/160 (6%)
Query: 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEE----- 103
AN +Q +G++L + Q I TA VY RFY S +AP +FLA+KVEE
Sbjct: 42 ANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTQFPGNSVAPAALFLAAKVEEQPKKL 101
Query: 104 FGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPL 163
VI + Q + + + AY Q+ ++ E +L+ L L + P+ +
Sbjct: 102 EHVIKVAHTCLHPQESLPDTRSEAYLQQ----VQDLVILESIILQTLGFELTIDHPHTHV 157
Query: 164 LQLVQDIGHEDQLLALAWRVINDSLR-TDVCLLYPPYQIA 202
++ Q + L ++ + +SL T L Y P +A
Sbjct: 158 VKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQYTPPVVA 197
>pdb|2W2H|A Chain A, Structural Basis Of Transcription Activation By The Cyclin
T1-Tat-Tar Rna Complex From Eiav
pdb|2W2H|B Chain B, Structural Basis Of Transcription Activation By The Cyclin
T1-Tat-Tar Rna Complex From Eiav
Length = 264
Score = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 72/160 (45%), Gaps = 10/160 (6%)
Query: 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEE----- 103
AN +Q +G++L + Q I TA VY RFY S +AP +FLA+KVEE
Sbjct: 39 ANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTRFHRNSVAPAALFLAAKVEEQPKKL 98
Query: 104 FGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPL 163
VI + Q + + + AY Q+ ++ E +L+ L L + P+ +
Sbjct: 99 EHVIKVAHTCLHPQESLPDTRSEAYLQQ----VQDLVILESIILQTLGFELTIDHPHTHV 154
Query: 164 LQLVQDIGHEDQLLALAWRVINDSLR-TDVCLLYPPYQIA 202
++ Q + L ++ + +SL T L Y P +A
Sbjct: 155 VKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQYTPPVVA 194
>pdb|2PK2|A Chain A, Cyclin Box Structure Of The P-Tefb Subunit Cyclin T1
Derived From A Fusion Complex With Eiav Tat
pdb|2PK2|B Chain B, Cyclin Box Structure Of The P-Tefb Subunit Cyclin T1
Derived From A Fusion Complex With Eiav Tat
pdb|2PK2|C Chain C, Cyclin Box Structure Of The P-Tefb Subunit Cyclin T1
Derived From A Fusion Complex With Eiav Tat
pdb|2PK2|D Chain D, Cyclin Box Structure Of The P-Tefb Subunit Cyclin T1
Derived From A Fusion Complex With Eiav Tat
Length = 358
Score = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 72/160 (45%), Gaps = 10/160 (6%)
Query: 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEE----- 103
AN +Q +G++L + Q I TA VY RFY S +AP +FLA+KVEE
Sbjct: 42 ANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTRFPGNSVAPAALFLAAKVEEQPKKL 101
Query: 104 FGVISSSRLLSTCQTVVKNKLNYAYAQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPL 163
VI + Q + + + AY Q+ ++ E +L+ L L + P+ +
Sbjct: 102 EHVIKVAHTCLHPQESLPDTRSEAYLQQV----QDLVILESIILQTLGFELTIDHPHTHV 157
Query: 164 LQLVQDIGHEDQLLALAWRVINDSLR-TDVCLLYPPYQIA 202
++ Q + L ++ + +SL T L Y P +A
Sbjct: 158 VKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQYTPPVVA 197
>pdb|3BLH|B Chain B, Crystal Structure Of Human Cdk9CYCLINT1
pdb|3BLQ|B Chain B, Crystal Structure Of Human Cdk9CYCLINT1 IN COMPLEX WITH
ATP
pdb|3BLR|B Chain B, Crystal Structure Of Human Cdk9CYCLINT1 IN COMPLEX WITH
Flavopiridol
pdb|3MY1|B Chain B, Structure Of Cdk9CYCLINT1 IN COMPLEX WITH DRB
pdb|3LQ5|B Chain B, Structure Of Cdk9CYCLINT IN COMPLEX WITH S-Cr8
pdb|3TN8|B Chain B, Cdk9CYCLIN T IN COMPLEX WITH CAN508
pdb|4EC8|B Chain B, Structure Of Full Length Cdk9 In Complex With Cyclint And
Drb
pdb|4EC9|B Chain B, Crystal Structure Of Full-Length Cdk9 In Complex With
Cyclin T
pdb|4BCF|B Chain B, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
pdb|4BCH|B Chain B, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
pdb|4BCI|B Chain B, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
pdb|4BCJ|B Chain B, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
Length = 260
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 49/195 (25%), Positives = 84/195 (43%), Gaps = 15/195 (7%)
Query: 16 QQWVLDRQDLIRERKHDLSILSDEE--YQKIFIFFANFIQILGEQLKLRQQVIATATVYF 73
++W R+ L + D+E Y++ AN +Q +G++L + Q I TA VY
Sbjct: 11 KRWYFTREQLENSPSRRFGVDPDKELSYRQQA---ANLLQDMGQRLNVSQLTINTAIVYM 67
Query: 74 KRFYARNSLKCIDPLLLAPTCVFLASKVEE-----FGVISSSRLLSTCQTVVKNKLNYAY 128
RFY S +AP +FLA+KVE VI + Q + + + AY
Sbjct: 68 HRFYMIQSFTRFPGNSVAPAALFLAAKVEGQPKKLEHVIKVAHTCLHPQESLPDTRSEAY 127
Query: 129 AQEFPYRTNHILECEFYLLENLDCCLIVYQPYRPLLQLVQDIGHEDQLLALAWRVINDSL 188
Q+ ++ E +L+ L L + P+ +++ Q + L ++ + +SL
Sbjct: 128 LQQV----QDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSL 183
Query: 189 R-TDVCLLYPPYQIA 202
T L Y P +A
Sbjct: 184 HLTTFSLQYTPPVVA 198
>pdb|2W96|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
pdb|2W99|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
pdb|2W9F|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
Length = 271
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 35/64 (54%)
Query: 49 ANFIQILGEQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVIS 108
A ++ + E+ K ++V A Y RF + +K LL TC+F+ASK++E ++
Sbjct: 61 ATWMLEVCEEQKCEEEVFPLAMNYLDRFLSLEPVKKSRLQLLGATCMFVASKMKETIPLT 120
Query: 109 SSRL 112
+ +L
Sbjct: 121 AEKL 124
>pdb|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
Length = 257
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 31/56 (55%)
Query: 57 EQLKLRQQVIATATVYFKRFYARNSLKCIDPLLLAPTCVFLASKVEEFGVISSSRL 112
E+ K ++V A Y RF + +K LL TC+F+ASK++E +++ +L
Sbjct: 55 EEQKCEEEVFPLAMNYLDRFLSLEPVKKSRLQLLGATCMFVASKMKETIPLTAEKL 110
>pdb|1H4K|X Chain X, Sulfurtransferase From Azotobacter Vinelandii In Complex
With Hypophosphite
pdb|1H4M|X Chain X, Sulfurtransferase From Azotobacter Vinelandii In Complex
With Phosphate
Length = 271
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 97 LASKVEEFGVISSSRLLSTCQTVVKNKLNYAYAQEFPY 134
+A ++EE G+ +++ CQT ++ L Y A+ Y
Sbjct: 211 IAGRLEELGITPDKEIVTHCQTHHRSGLTYLIAKALGY 248
>pdb|1R8W|A Chain A, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R8W|B Chain B, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|A Chain A, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|B Chain B, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9E|A Chain A, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
pdb|1R9E|B Chain B, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
Length = 787
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 11 YPEWIQQWVLDRQDLIRERKHDLSILSDEEYQKIFIFF 48
+PE+ +W+ D D + +R D +S+E +K+ F
Sbjct: 86 FPEFSNKWLQDELDRLNKRTGDAFQISEESKEKLKDVF 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
0.327 0.142 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,443,007
Number of Sequences: 62578
Number of extensions: 232457
Number of successful extensions: 682
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 660
Number of HSP's gapped (non-prelim): 16
length of query: 229
length of database: 14,973,337
effective HSP length: 95
effective length of query: 134
effective length of database: 9,028,427
effective search space: 1209809218
effective search space used: 1209809218
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.9 bits)