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= psy11273
(730 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 355 bits (910), Expect = 6e-98, Method: Compositional matrix adjust.
Identities = 162/247 (65%), Positives = 199/247 (80%)
Query: 11 SPDRWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMH 70
+ RW+FT+EQLENTPSR+CG +A+KELSCRQQAANLIQ+MGQRL V+QL INTAIVYMH
Sbjct: 1 ASSRWFFTREQLENTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMH 60
Query: 71 RFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQ 130
RFY+ HSFT+F++N I++ ALFLAAKVEEQ RKLEHVI+VA CL +P LD + +AY
Sbjct: 61 RFYMHHSFTKFNKNIISSTALFLAAKVEEQARKLEHVIKVAHACLHPLEPLLDTKCDAYL 120
Query: 131 EQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTM 190
+Q +E+V+ E ++LQTLGF++ IEHPHT VVKC LVRASKDLAQTSYFMA+NSLHLTT
Sbjct: 121 QQTRELVILETIMLQTLGFEITIEHPHTDVVKCTQLVRASKDLAQTSYFMATNSLHLTTF 180
Query: 191 CLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVXXXXXXXXXXXFLAIFDK 250
CLQY+ TV+AC CIHLACKW+NWEIP S +G+ W+ Y+D V FL I +K
Sbjct: 181 CLQYKPTVIACVCIHLACKWSNWEIPVSTDGKHWWEYVDPTVTLELLDELTHEFLQILEK 240
Query: 251 CPSKLKK 257
P++LKK
Sbjct: 241 TPNRLKK 247
>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 = 344 bits (883), Expect = 8e-95, Method: Compositional matrix adjust.
Identities = 162/251 (64%), Positives = 197/251 (78%)
Query: 7 QGSHSPDRWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAI 66
Q ++ RWYFT+EQLEN+PSR+ G D +KELS RQQAANL+QDMGQRL V+QL INTAI
Sbjct: 1 QRKNNNKRWYFTREQLENSPSRRFGLDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAI 60
Query: 67 VYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRS 126
VYMHRFY+ SFT+FHRNS+A AALFLAAKVEEQP+KLEHVI+VA CL + D RS
Sbjct: 61 VYMHRFYMIQSFTRFHRNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLPDTRS 120
Query: 127 EAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLH 186
EAY +Q Q++V+ E+++LQTLGF++ I+HPHT+VVKC LVRASKDLAQTSYFMA+NSLH
Sbjct: 121 EAYLQQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLH 180
Query: 187 LTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVXXXXXXXXXXXFLA 246
LTT LQY VVAC CIHLACKW+NWEIP S +G+ W+ Y+D V FL
Sbjct: 181 LTTFSLQYTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDATVTLELLDELTHEFLQ 240
Query: 247 IFDKCPSKLKK 257
I +K P++LK+
Sbjct: 241 ILEKTPNRLKR 251
>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 = 338 bits (867), Expect = 6e-93, Method: Compositional matrix adjust.
Identities = 160/244 (65%), Positives = 192/244 (78%)
Query: 14 RWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFY 73
RWYFT+EQLEN+PSR+ G D +KELS RQQAANL+QDMGQRL V+QL INTAIVYMHRFY
Sbjct: 11 RWYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFY 70
Query: 74 VFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQA 133
+ SFTQF NS+A AALFLAAKVEEQP+KLEHVI+VA CL + D RSEAY +Q
Sbjct: 71 MIQSFTQFPGNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLPDTRSEAYLQQV 130
Query: 134 QEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQ 193
Q++V+ E+++LQTLGF++ I+HPHT+VVKC LVRASKDLAQTSYFMA+NSLHLTT LQ
Sbjct: 131 QDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQ 190
Query: 194 YRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVXXXXXXXXXXXFLAIFDKCPS 253
Y VVAC CIHLACKW+NWEIP S +G+ W+ Y+D V FL I +K P+
Sbjct: 191 YTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDATVTLELLDELTHEFLQILEKTPN 250
Query: 254 KLKK 257
+LK+
Sbjct: 251 RLKR 254
>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 = 337 bits (864), Expect = 1e-92, Method: Compositional matrix adjust.
Identities = 159/244 (65%), Positives = 192/244 (78%)
Query: 14 RWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFY 73
RWYFT+EQLEN+PSR+ G D +KELS RQQAANL+QDMGQRL V+QL INTAIVYMHRFY
Sbjct: 11 RWYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFY 70
Query: 74 VFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQA 133
+ SFT+F NS+A AALFLAAKVEEQP+KLEHVI+VA CL + D RSEAY +Q
Sbjct: 71 MIQSFTRFPGNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLPDTRSEAYLQQV 130
Query: 134 QEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQ 193
Q++V+ E+++LQTLGF++ I+HPHT+VVKC LVRASKDLAQTSYFMA+NSLHLTT LQ
Sbjct: 131 QDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQ 190
Query: 194 YRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVXXXXXXXXXXXFLAIFDKCPS 253
Y VVAC CIHLACKW+NWEIP S +G+ W+ Y+D V FL I +K P+
Sbjct: 191 YTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDATVTLELLDELTHEFLQILEKTPN 250
Query: 254 KLKK 257
+LK+
Sbjct: 251 RLKR 254
>pdb|3TNH|B Chain B, Cdk9CYCLIN T IN COMPLEX WITH CAN508
pdb|3TNI|B Chain B, Structure Of Cdk9CYCLIN T F241L
Length = 259
Score = 337 bits (863), Expect = 2e-92, Method: Compositional matrix adjust.
Identities = 159/244 (65%), Positives = 191/244 (78%)
Query: 14 RWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFY 73
RWYFT+EQLEN+PSR+ G D +KELS RQQAANL+QDMGQRL V+QL INTAIVYMHRFY
Sbjct: 11 RWYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFY 70
Query: 74 VFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQA 133
+ SFTQF NS+A AALFLAAKVEEQP+KLEHVI+VA CL + D RSEAY +Q
Sbjct: 71 MIQSFTQFPGNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLPDTRSEAYLQQV 130
Query: 134 QEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQ 193
Q++V+ E+++LQTLGF++ I+HPHT+VVKC LVRASKDLAQTSYFMA+NSLHLTT LQ
Sbjct: 131 QDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQ 190
Query: 194 YRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVXXXXXXXXXXXFLAIFDKCPS 253
Y VVAC CIHLACKW+NWEIP S +G+ W+ Y+D V L I +K P+
Sbjct: 191 YTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDATVTLELLDELTHELLQILEKTPN 250
Query: 254 KLKK 257
+LK+
Sbjct: 251 RLKR 254
>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 = 332 bits (852), Expect = 3e-91, Method: Compositional matrix adjust.
Identities = 157/244 (64%), Positives = 190/244 (77%)
Query: 14 RWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLCINTAIVYMHRFY 73
RWYFT+EQLEN+PSR+ G D +KELS RQQAANL+QDMGQRL V+QL INTAIVYMHRFY
Sbjct: 12 RWYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFY 71
Query: 74 VFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPPLDPRSEAYQEQA 133
+ SFT+F NS+A AALFLAAKVE QP+KLEHVI+VA CL + D RSEAY +Q
Sbjct: 72 MIQSFTRFPGNSVAPAALFLAAKVEGQPKKLEHVIKVAHTCLHPQESLPDTRSEAYLQQV 131
Query: 134 QEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSYFMASNSLHLTTMCLQ 193
Q++V+ E+++LQTLGF++ I+HPHT+VVKC LVRASKDLAQTSYFMA+NSLHLTT LQ
Sbjct: 132 QDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQ 191
Query: 194 YRSTVVACFCIHLACKWANWEIPQSNEGRKWFWYIDKEVXXXXXXXXXXXFLAIFDKCPS 253
Y VVAC CIHLACKW+NWEIP S +G+ W+ Y+D V L I +K P+
Sbjct: 192 YTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDATVTLELLDELTHELLQILEKTPN 251
Query: 254 KLKK 257
+LK+
Sbjct: 252 RLKR 255
>pdb|2I53|A Chain A, Crystal Structure Of Cyclin K
Length = 258
Score = 130 bits (326), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 78/234 (33%), Positives = 126/234 (53%), Gaps = 19/234 (8%)
Query: 2 STNTTQGSHSPDRWYFTKEQLENTPSRKCGYDAEKELSCRQQAANLIQDMGQRLQVTQLC 61
S + H+ WY+ K+ L +TPS+ G D E R++ A I D+G RL +
Sbjct: 2 SVTSANLDHTKPCWYWDKKDLAHTPSQLEGLDPATEARYRREGARFIFDVGTRLGLHYDT 61
Query: 62 INTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFK---N 118
+ T I+Y HRFY+FHSF QF R LFLA KVEE P+K + +I+ A+ L
Sbjct: 62 LATGIIYFHRFYMFHSFKQFPRYVTGACCLFLAGKVEETPKKCKDIIKTARSLLNDVQFG 121
Query: 119 QPPLDPRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKD----LA 174
Q DP+ +E++V E +LLQT+ FD+ +EHP+ +++K ++ K+ L
Sbjct: 122 QFGDDPK--------EEVMVLERILLQTIKFDLQVEHPYQFLLKYAKQLKGDKNKIQKLV 173
Query: 175 QTSYFMASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEG---RKWF 225
Q ++ ++SL TT+ LQ+ ++A ++LA + +EI + R+W+
Sbjct: 174 QMAWTFVNDSL-CTTLSLQWEPEIIAVAVMYLAGRLCKFEIQEWTSKPMYRRWW 226
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC
Length = 285
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 61/232 (26%), Positives = 102/232 (43%), Gaps = 22/232 (9%)
Query: 1 MSTNTTQGSHSPDRWYFTKEQLENTPSRKCGYDAEKELSCRQQA-ANLIQDMGQRLQVTQ 59
M+ N Q SH +W K+ L + + +E+E Q N+IQ +G+ L++ Q
Sbjct: 3 MAGNFWQSSHYL-QWILDKQDLLKERQKDLKFLSEEEYWKLQIFFTNVIQALGEHLKLRQ 61
Query: 60 LCINTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQ 119
I TA VY RFY +S +A +FLA+KVEE + A + K +
Sbjct: 62 QVIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNTRLIAAATSVLKTR 121
Query: 120 PPLD-PRSEAYQEQAQEIVVNENVLLQTLGFDVGIEHPHTYVVKCCHLVRASKDLAQTSY 178
P+ Y + I+ E LL+ + + + HP+ L++ +D+ Q
Sbjct: 122 FSYAFPKEFPY--RMNHILECEFYLLELMDCCLIVYHPYR------PLLQYVQDMGQEDM 173
Query: 179 FM-----ASNSLHLTTMCLQYRSTVVACFCIHLACKWANWEIPQSNEGRKWF 225
+ N + T +CL Y ++A C+H+AC + Q + R+WF
Sbjct: 174 LLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVAC------VVQQKDARQWF 219
>pdb|1KXU|A Chain A, Cyclin H, A Positive Regulatory Subunit Of Cdk Activating
Kinase
Length = 333
Score = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 13/97 (13%)
Query: 62 INTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPP 121
+ TA +Y RFY+ +S ++H I FLA KV+ E + Q + P
Sbjct: 90 VGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVD------EFNVSSPQFVGNLRESP 143
Query: 122 LDPRSEAYQEQA-QEIVVNENVLLQTLGFDVGIEHPH 157
L QE+A ++I+ E +L+Q L F + + +P+
Sbjct: 144 LG------QEKALEQILEYELLLIQQLNFHLIVHNPY 174
>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2
Length = 323
Score = 37.4 bits (85), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 13/97 (13%)
Query: 62 INTAIVYMHRFYVFHSFTQFHRNSIATAALFLAAKVEEQPRKLEHVIRVAQLCLFKNQPP 121
+ TA +Y RFY+ +S ++H I FLA KV+ E + Q + P
Sbjct: 80 VGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVD------EFNVSSPQFVGNLRESP 133
Query: 122 LDPRSEAYQEQA-QEIVVNENVLLQTLGFDVGIEHPH 157
L QE+A ++I+ E +L+Q L F + + +P+
Sbjct: 134 LG------QEKALEQILEYELLLIQQLNFHLIVHNPY 164
>pdb|1ZP2|A Chain A, Structure Of The Mediator Subunit Cyclin C
Length = 235
Score = 33.1 bits (74), Expect = 0.54, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 47 LIQDMGQRLQVTQLCINTAIVYMHRFYVFHSFTQ-FHRNSIATAALFLAAKVEEQP 101
++Q G RL++ Q + TAIV + R+ + + + F ++ ++L+ KVEE P
Sbjct: 34 VVQTFGDRLRLRQRVLATAIVLLRRYMLKKNEEKGFSLEALVATCIYLSCKVEECP 89
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
0.315 0.129 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,096,289
Number of Sequences: 62578
Number of extensions: 568610
Number of successful extensions: 1154
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1139
Number of HSP's gapped (non-prelim): 13
length of query: 730
length of database: 14,973,337
effective HSP length: 106
effective length of query: 624
effective length of database: 8,340,069
effective search space: 5204203056
effective search space used: 5204203056
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)