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= 021552
(311 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I53|A Chain A, Crystal Structure Of Cyclin K
Length = 258
Score = 117 bits (294), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 80/250 (32%), Positives = 126/250 (50%), Gaps = 21/250 (8%)
Query: 9 FYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYC 68
+Y + L +PS+ +G+D ATE R G I + G L L +ATG + FHRFY
Sbjct: 15 WYWDKKDLAHTPSQLEGLDPATEARYRREGARFIFDVGTRLGLHYDTLATGIIYFHRFYM 74
Query: 69 KRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFS 128
SF +F + A ++LA K+EE+P+K + +I + R L F
Sbjct: 75 FHSFKQFPRYVTGACCLFLAGKVEETPKKCKDII------KTARSLLNDVQFGQFG---D 125
Query: 129 ELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETP----LELRQEAWNLANDSLR 184
+ K E+ ER +L+ + F VEHP++F+ Y L+ +L Q AW NDSL
Sbjct: 126 DPKEEVMVLERILLQTIKFDLQVEHPYQFLLKYAKQLKGDKNKIQKLVQMAWTFVNDSLC 185
Query: 185 TTLCVRFKSEVVACGVVYAAAR--RFQIPLPENPP----WWKAF--DAEKSGIDEVCRVL 236
TTL ++++ E++A V+Y A R +F+I + P WW+ F D ++++C +
Sbjct: 186 TTLSLQWEPEIIAVAVMYLAGRLCKFEIQEWTSKPMYRRWWEQFVQDVPVDVLEDICHQI 245
Query: 237 AHLYSLPKAK 246
LYS K +
Sbjct: 246 LDLYSQGKQQ 255
>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 = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 72/220 (32%), Positives = 119/220 (54%), Gaps = 8/220 (3%)
Query: 9 FYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYC 68
+Y T EQL++SPSR+ G+D E + R +L+Q+ G L + Q + T V HRFY
Sbjct: 9 WYFTREQLENSPSRRFGLDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYM 68
Query: 69 KRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFS 128
+SF RF VA ++++LA+K+EE P+K VI V H +E LP D S+ +
Sbjct: 69 IQSFTRFHRNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLP----DTRSEAYL 124
Query: 129 ELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLR-TTL 187
+ ++ E IL+ +GF ++HPH + + +L Q ++ +A +SL TT
Sbjct: 125 QQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTF 184
Query: 188 CVRFKSEVVACGVVYAAAR--RFQIPLP-ENPPWWKAFDA 224
+++ VVAC ++ A + ++IP+ + WW+ DA
Sbjct: 185 SLQYTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDA 224
>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 = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 72/220 (32%), Positives = 119/220 (54%), Gaps = 8/220 (3%)
Query: 9 FYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYC 68
+Y T EQL++SPSR+ G+D E + R +L+Q+ G L + Q + T V HRFY
Sbjct: 12 WYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYM 71
Query: 69 KRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFS 128
+SF RF VA ++++LA+K+EE P+K VI V H +E LP D S+ +
Sbjct: 72 IQSFTRFPGNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLP----DTRSEAYL 127
Query: 129 ELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLR-TTL 187
+ ++ E IL+ +GF ++HPH + + +L Q ++ +A +SL TT
Sbjct: 128 QQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTF 187
Query: 188 CVRFKSEVVACGVVYAAAR--RFQIPLP-ENPPWWKAFDA 224
+++ VVAC ++ A + ++IP+ + WW+ DA
Sbjct: 188 SLQYTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDA 227
>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 = 115 bits (289), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 70/223 (31%), Positives = 120/223 (53%), Gaps = 8/223 (3%)
Query: 5 AIDNFYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFH 64
A ++ T EQL+++PSR+ G++ E + R +LIQE G L + Q + T V H
Sbjct: 1 ASSRWFFTREQLENTPSRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMH 60
Query: 65 RFYCKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFS 124
RFY SF +F+ I+++++++LA+K+EE RK VI V H C P+ LD
Sbjct: 61 RFYMHHSFTKFNKNIISSTALFLAAKVEEQARKLEHVIKVAH--ACLHPLEPL--LDTKC 116
Query: 125 KKFSELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLR 184
+ + E+ E +L+ +GF +EHPH + + +L Q ++ +A +SL
Sbjct: 117 DAYLQQTRELVILETIMLQTLGFEITIEHPHTDVVKCTQLVRASKDLAQTSYFMATNSLH 176
Query: 185 -TTLCVRFKSEVVACGVVYAAAR--RFQIPLP-ENPPWWKAFD 223
TT C+++K V+AC ++ A + ++IP+ + WW+ D
Sbjct: 177 LTTFCLQYKPTVIACVCIHLACKWSNWEIPVSTDGKHWWEYVD 219
>pdb|3TNH|B Chain B, Cdk9CYCLIN T IN COMPLEX WITH CAN508
pdb|3TNI|B Chain B, Structure Of Cdk9CYCLIN T F241L
Length = 259
Score = 114 bits (286), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 71/220 (32%), Positives = 119/220 (54%), Gaps = 8/220 (3%)
Query: 9 FYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYC 68
+Y T EQL++SPSR+ G+D E + R +L+Q+ G L + Q + T V HRFY
Sbjct: 12 WYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYM 71
Query: 69 KRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFS 128
+SF +F VA ++++LA+K+EE P+K VI V H +E LP D S+ +
Sbjct: 72 IQSFTQFPGNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLP----DTRSEAYL 127
Query: 129 ELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLR-TTL 187
+ ++ E IL+ +GF ++HPH + + +L Q ++ +A +SL TT
Sbjct: 128 QQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTF 187
Query: 188 CVRFKSEVVACGVVYAAAR--RFQIPLP-ENPPWWKAFDA 224
+++ VVAC ++ A + ++IP+ + WW+ DA
Sbjct: 188 SLQYTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDA 227
>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 = 114 bits (285), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 71/220 (32%), Positives = 119/220 (54%), Gaps = 8/220 (3%)
Query: 9 FYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYC 68
+Y T EQL++SPSR+ G+D E + R +L+Q+ G L + Q + T V HRFY
Sbjct: 12 WYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYM 71
Query: 69 KRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFS 128
+SF +F VA ++++LA+K+EE P+K VI V H +E LP D S+ +
Sbjct: 72 IQSFTQFPGNSVAPAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLP----DTRSEAYL 127
Query: 129 ELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLR-TTL 187
+ ++ E IL+ +GF ++HPH + + +L Q ++ +A +SL TT
Sbjct: 128 QQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTF 187
Query: 188 CVRFKSEVVACGVVYAAAR--RFQIPLP-ENPPWWKAFDA 224
+++ VVAC ++ A + ++IP+ + WW+ DA
Sbjct: 188 SLQYTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDA 227
>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 = 114 bits (284), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 71/220 (32%), Positives = 118/220 (53%), Gaps = 8/220 (3%)
Query: 9 FYLTDEQLKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFYC 68
+Y T EQL++SPSR+ G+D E + R +L+Q+ G L + Q + T V HRFY
Sbjct: 13 WYFTREQLENSPSRRFGVDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYM 72
Query: 69 KRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKFS 128
+SF RF VA ++++LA+K+E P+K VI V H +E LP D S+ +
Sbjct: 73 IQSFTRFPGNSVAPAALFLAAKVEGQPKKLEHVIKVAHTCLHPQESLP----DTRSEAYL 128
Query: 129 ELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLR-TTL 187
+ ++ E IL+ +GF ++HPH + + +L Q ++ +A +SL TT
Sbjct: 129 QQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQTSYFMATNSLHLTTF 188
Query: 188 CVRFKSEVVACGVVYAAAR--RFQIPLP-ENPPWWKAFDA 224
+++ VVAC ++ A + ++IP+ + WW+ DA
Sbjct: 189 SLQYTPPVVACVCIHLACKWSNWEIPVSTDGKHWWEYVDA 228
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC
Length = 285
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 62/233 (26%), Positives = 104/233 (44%), Gaps = 10/233 (4%)
Query: 10 YLTDEQ--LKDSPSRKDGIDEATETTLRIYGCDLIQESGILLKLPQAVMATGQVLFHRFY 67
++ D+Q LK+ + E L+I+ ++IQ G LKL Q V+AT V F RFY
Sbjct: 16 WILDKQDLLKERQKDLKFLSEEEYWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRFY 75
Query: 68 CKRSFARFDVKIVAASSVWLASKLEESPRKARQVIIVFHRMECRREGLPIEHLDLFSKKF 127
+ S D ++A + V+LASK+EE + +I L F K+F
Sbjct: 76 ARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNTRLIA-----AATSVLKTRFSYAFPKEF 130
Query: 128 SELKMEMSRTERHILKEMGFVCHVEHPHKFISNYLATLETPLELRQEAWNLANDSLRTTL 187
+ E ++L+ M V HP++ + Y+ + L AW + ND+ RT L
Sbjct: 131 PYRMNHILECEFYLLELMDCCLIVYHPYRPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDL 190
Query: 188 CVRFKSEVVACGVVYAAARRFQIPLPENPPWWKAFDAEKSGIDEVCRVLAHLY 240
C+ + ++A ++ A + + W+ + I E+ RV+ LY
Sbjct: 191 CLLYPPFMIALACLHVACV---VQQKDARQWFAELSVDMEKILEIIRVILKLY 240
>pdb|1ZP2|A Chain A, Structure Of The Mediator Subunit Cyclin C
Length = 235
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 71/155 (45%), Gaps = 15/155 (9%)
Query: 36 IYGCDLIQESGILLKLPQAVMATGQVLFHRFYCKRSFAR-FDVKIVAASSVWLASKLEES 94
IY ++Q G L+L Q V+AT VL R+ K++ + F ++ + A+ ++L+ K+EE
Sbjct: 29 IYQWKVVQTFGDRLRLRQRVLATAIVLLRRYMLKKNEEKGFSLEALVATCIYLSCKVEEC 88
Query: 95 PRKARQVIIVFHRMECRREGLPIEHLDLFSKKFSELKMEMSRTERHILKEMGFVCHVEHP 154
P R + C DL+S K + +S E I+ + V HP
Sbjct: 89 PVHIRTI--------CNEAN------DLWSLKVKLSRSNISEIEFEIISVLDAFLIVHHP 134
Query: 155 HKFISNYLATLETPLELRQEAWNLANDSLRTTLCV 189
+ + + + AW++ NDS ++LC+
Sbjct: 135 YTSLEQAFHDGIINQKQLEFAWSIVNDSYASSLCL 169
>pdb|2O36|A Chain A, Crystal Structure Of Engineered Thimet Oligopeptidase With
Neurolysin Specificity In Neurotensin Cleavage Site
Length = 674
Score = 30.8 bits (68), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 3/94 (3%)
Query: 87 LASKLEESPRKARQVIIVFHRMECRREGLPIE-HLDLFSKKFSELKMEMSR--TERHILK 143
LA KL+ + R VI+ R EC R GLP + + + ++ ++E +R ++++LK
Sbjct: 283 LAQKLKPLGEQERAVILELKRAECERRGLPFDGRIRAWDMRYYMNQVEETRYCVDQNLLK 342
Query: 144 EMGFVCHVEHPHKFISNYLATLETPLELRQEAWN 177
E V V H I L L E AW+
Sbjct: 343 EYFPVQVVTHGLLGIYQELLGLAFHHEEGASAWH 376
>pdb|1S4B|P Chain P, Crystal Structure Of Human Thimet Oligopeptidase
Length = 674
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 44/94 (46%), Gaps = 3/94 (3%)
Query: 87 LASKLEESPRKARQVIIVFHRMECRREGLPIE-HLDLFSKKFSELKMEMSR--TERHILK 143
LA KL+ + R VI+ R EC R GLP + + + ++ ++E +R ++++LK
Sbjct: 283 LAQKLKPLGEQERAVILELKRAECERRGLPFDGRIRAWDMRYYMNQVEETRYCVDQNLLK 342
Query: 144 EMGFVCHVEHPHKFISNYLATLETPLELRQEAWN 177
E V V H I L L E AW+
Sbjct: 343 EYFPVQVVTHGLLGIYQELLGLAFHHEEGASAWH 376
>pdb|3OL2|B Chain B, Receptor-Ligand Structure Of Human Semaphorin 4d With
Plexin B1
Length = 528
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 252 KDGTSFTFSSKTVDSQPQSTPKEVLQSSPQANNHTTFPIEALVPI 296
+DGT + V+S P + L + P ++HT P+ + VP+
Sbjct: 332 EDGTEVAYIEYDVNSDCAQLPVDTLDAYPCGSDHTPSPMASRVPL 376
>pdb|3D34|A Chain A, Structure Of The F-Spondin Domain Of Mindin
pdb|3D34|B Chain B, Structure Of The F-Spondin Domain Of Mindin
Length = 223
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 255 TSFTFSSKTVDSQPQSTPKEVLQSSPQ--ANNHTTFPIEALVPI 296
+ FTFSS + PQ T E+ SSP AN+ ++AL PI
Sbjct: 167 SGFTFSSPNFATIPQDTVTEITSSSPSHPANSFYYPRLKALPPI 210
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 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,202,314
Number of Sequences: 62578
Number of extensions: 364036
Number of successful extensions: 812
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 788
Number of HSP's gapped (non-prelim): 15
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
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: 51 (24.3 bits)