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= psy7372
(352 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1KXU|A Chain A, Cyclin H, A Positive Regulatory Subunit Of Cdk Activating
Kinase
Length = 333
Score = 233 bits (595), Expect = 1e-61, Method: Compositional matrix adjust.
Identities = 125/268 (46%), Positives = 177/268 (66%), Gaps = 5/268 (1%)
Query: 37 SVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSP 96
S E +L LR AN+ F + A FL EE L ++Y+ +L +FC F P
Sbjct: 24 SSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKP 83
Query: 97 PMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGD- 155
MP+ V+GTA Y KRFYLNNSVM+YHP+ I++TC +LACKV+EFN+S QFV N++
Sbjct: 84 AMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESP 143
Query: 156 --QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQ-LRDPDRLRPGIDE 212
Q+KA + IL ELLL+QQL +HL VHNPYRP EGFLID+KTR L +P+ LR D+
Sbjct: 144 LGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEILRKTADD 203
Query: 213 FLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVR 272
FL+++ LTDA LL++PSQIAL A+L SAS+ +++Y++++L+ + L L++ ++
Sbjct: 204 FLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKENRTCLSQLLDIMK 263
Query: 273 KIRTLVSKPIESPSREMFKQLEKRLEKC 300
+R LV K E P E L+++LE+C
Sbjct: 264 SMRNLVKK-YEPPRSEEVAVLKQKLERC 290
>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2
Length = 323
Score = 232 bits (591), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 124/268 (46%), Positives = 177/268 (66%), Gaps = 5/268 (1%)
Query: 37 SVEAELIALREAANQNFILEHRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSP 96
S E +L LR AN+ F + A FL EE L ++Y+ +L +FC F P
Sbjct: 14 SSEEQLARLRADANRKFRCKAVANGKVLPNDPVFLEPHEEMTLCKYYEKRLLEFCSVFKP 73
Query: 97 PMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKGD- 155
MP+ V+GTA Y KRFYLNNSVM+YHP+ I++TC +LACKV+EFN+S QFV N++
Sbjct: 74 AMPRSVVGTACMYFKRFYLNNSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESP 133
Query: 156 --QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQ-LRDPDRLRPGIDE 212
Q+KA + IL ELLL+QQL +HL VHNPYRP EGFLID+KTR L +P+ LR D+
Sbjct: 134 LGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLIDLKTRYPILENPEILRKTADD 193
Query: 213 FLDKMFLTDACLLFSPSQIALAAVLQSASKLQENLDAYVTQTLLGQHANVRLVDLIEAVR 272
FL+++ LTDA LL++PSQIAL A+L SAS+ +++Y++++L+ + L L++ ++
Sbjct: 194 FLNRIALTDAYLLYTPSQIALTAILSSASRAGITMESYLSESLMLKENRTCLSQLLDIMK 253
Query: 273 KIRTLVSKPIESPSREMFKQLEKRLEKC 300
+R LV K E P E L+++L++C
Sbjct: 254 SMRNLVKK-YEPPRSEEVAVLKQKLDRC 280
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC
Length = 285
Score = 64.7 bits (156), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 49/148 (33%), Positives = 70/148 (47%), Gaps = 19/148 (12%)
Query: 102 VIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLS-----ISQFVSNIKGDQ 156
VI TA Y KRFY S+ P + TCV+LA KVEEF + I+ S +K
Sbjct: 63 VIATATVYFKRFYARYSLKSIDPVLMAPTCVFLASKVEEFGVVSNTRLIAAATSVLKTRF 122
Query: 157 QKA--------SDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLRDPDRLRP 208
A + IL E L++ + L V++PYRP+ ++ D+ D L P
Sbjct: 123 SYAFPKEFPYRMNHILECEFYLLELMDCCLIVYHPYRPLLQYVQDMGQE------DMLLP 176
Query: 209 GIDEFLDKMFLTDACLLFSPSQIALAAV 236
++ + TD CLL+ P IALA +
Sbjct: 177 LAWRIVNDTYRTDLCLLYPPFMIALACL 204
>pdb|1ZP2|A Chain A, Structure Of The Mediator Subunit Cyclin C
Length = 235
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 68/149 (45%), Gaps = 21/149 (14%)
Query: 102 VIGTAFHYLKRFYLN-NSVMDYHPKEILVTCVYLACKVEEFNLSISQFVS--------NI 152
V+ TA L+R+ L N + + ++ TC+YL+CKVEE + I + +
Sbjct: 48 VLATAIVLLRRYMLKKNEEKGFSLEALVATCIYLSCKVEECPVHIRTICNEANDLWSLKV 107
Query: 153 KGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVE-GFLIDIKTRSQLRDPDRLRPGID 211
K + S+I E ++ L L VH+PY +E F I + QL +
Sbjct: 108 KLSRSNISEI----EFEIISVLDAFLIVHHPYTSLEQAFHDGIINQKQLEFAWSI----- 158
Query: 212 EFLDKMFLTDACLLFSPSQIALAAVLQSA 240
++ + + CL+ P Q+A AA+L S
Sbjct: 159 --VNDSYASSLCLMAHPHQLAYAALLISC 185
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 38/157 (24%), Positives = 70/157 (44%), Gaps = 27/157 (17%)
Query: 98 MPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVS------- 150
+ ++ I TA Y+ RFY+++S ++ I T ++LA KVEE + +
Sbjct: 47 VSQLTINTAIVYMHRFYMHHSFTKFNKNIISSTALFLAAKVEEQARKLEHVIKVAHACLH 106
Query: 151 ------NIKGD---QQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLR 201
+ K D QQ +IL E +++Q L + +T+ +P+ D+ +QL
Sbjct: 107 PLEPLLDTKCDAYLQQTRELVIL--ETIMLQTLGFEITIEHPH-------TDVVKCTQLV 157
Query: 202 DPDRLRPGIDEFL--DKMFLTDACLLFSPSQIALAAV 236
+ F+ + + LT CL + P+ IA +
Sbjct: 158 RASKDLAQTSYFMATNSLHLTTFCLQYKPTVIACVCI 194
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 18/40 (45%)
Query: 107 FHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
F +L + Y P I C++LACK + + +S
Sbjct: 169 FMATNSLHLTTFCLQYKPTVIACVCIHLACKWSNWEIPVS 208
>pdb|2I53|A Chain A, Crystal Structure Of Cyclin K
Length = 258
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 41/157 (26%), Positives = 70/157 (44%), Gaps = 24/157 (15%)
Query: 102 VIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSISQFVSNIK-------- 153
+ T Y RFY+ +S + C++LA KVEE + +
Sbjct: 61 TLATGIIYFHRFYMFHSFKQFPRYVTGACCLFLAGKVEETPKKCKDIIKTARSLLNDVQF 120
Query: 154 ---GDQQKASDIILNNELLLMQQLKYHLTVHNPYRPVEGFLIDIKTRSQLR-DPDRLRPG 209
GD K ++L E +L+Q +K+ L V +PY+ FL +K QL+ D ++++
Sbjct: 121 GQFGDDPKEEVMVL--ERILLQTIKFDLQVEHPYQ----FL--LKYAKQLKGDKNKIQKL 172
Query: 210 ID---EFLDKMFLTDACLLFSPSQIALAAVLQSASKL 243
+ F++ T L + P IA+ AV+ A +L
Sbjct: 173 VQMAWTFVNDSLCTTLSLQWEPEIIAV-AVMYLAGRL 208
>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 = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 54/116 (46%), Gaps = 18/116 (15%)
Query: 87 LRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
L+D +R + + ++ I TA Y+ RFY+ S +H + ++LA KVEE +
Sbjct: 42 LQDMGQRLN--VSQLTINTAIVYMHRFYMIQSFTRFHRNSVAPAALFLAAKVEEQPKKLE 99
Query: 147 QFV---------------SNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPV 187
+ + + Q+ D+++ E +++Q L + LT+ +P+ V
Sbjct: 100 HVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVI-LESIILQTLGFELTIDHPHTHV 154
>pdb|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E
Length = 283
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 63/132 (47%), Gaps = 11/132 (8%)
Query: 127 ILVTCVYLACKVEE-FNLSISQFVSNIKGDQQKASDIILNNELLLMQQLKYHL------T 179
I ++ +++A K+EE + + QF G + D IL EL++M+ LK+ L +
Sbjct: 96 IGISSLFIAAKLEEIYPPKLHQFAYVTDG--ACSGDEILTMELMIMKALKWRLSPLTIVS 153
Query: 180 VHNPYRPVEGFLIDIKTRSQLRDPDRLRPGIDEFLDKMFLTDACLLFSPSQIALAAVLQ- 238
N Y V +L D+ + P ++ I E LD L CL F +A +A+
Sbjct: 154 WLNVYMQV-AYLNDLHEVLLPQYPQQIFIQIAELLDLCVLDVDCLEFPYGILAASALYHF 212
Query: 239 SASKLQENLDAY 250
S+S+L + + Y
Sbjct: 213 SSSELMQKVSGY 224
>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 = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 18/116 (15%)
Query: 87 LRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
L+D +R + + ++ I TA Y+ RFY+ S + + ++LA KVEE +
Sbjct: 45 LQDMGQRLN--VSQLTINTAIVYMHRFYMIQSFTQFPGNSVAPAALFLAAKVEEQPKKLE 102
Query: 147 QFV---------------SNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPV 187
+ + + Q+ D+++ E +++Q L + LT+ +P+ V
Sbjct: 103 HVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVI-LESIILQTLGFELTIDHPHTHV 157
>pdb|3TNH|B Chain B, Cdk9CYCLIN T IN COMPLEX WITH CAN508
pdb|3TNI|B Chain B, Structure Of Cdk9CYCLIN T F241L
Length = 259
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 18/116 (15%)
Query: 87 LRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
L+D +R + + ++ I TA Y+ RFY+ S + + ++LA KVEE +
Sbjct: 45 LQDMGQRLN--VSQLTINTAIVYMHRFYMIQSFTQFPGNSVAPAALFLAAKVEEQPKKLE 102
Query: 147 QFV---------------SNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPV 187
+ + + Q+ D+++ E +++Q L + LT+ +P+ V
Sbjct: 103 HVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVI-LESIILQTLGFELTIDHPHTHV 157
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 37/103 (35%), Gaps = 13/103 (12%)
Query: 57 HRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTA---------- 106
H E + SE +L ++ V++ LQ F P VV T
Sbjct: 113 HPQESLPDTRSEAYLQQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQ 172
Query: 107 ---FHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
F +L + Y P + C++LACK + + +S
Sbjct: 173 TSYFMATNSLHLTTFSLQYTPPVVACVCIHLACKWSNWEIPVS 215
>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 = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 18/116 (15%)
Query: 87 LRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
L+D +R + + ++ I TA Y+ RFY+ S + + ++LA KVEE +
Sbjct: 45 LQDMGQRLN--VSQLTINTAIVYMHRFYMIQSFTRFPGNSVAPAALFLAAKVEEQPKKLE 102
Query: 147 QFV---------------SNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPV 187
+ + + Q+ D+++ E +++Q L + LT+ +P+ V
Sbjct: 103 HVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVI-LESIILQTLGFELTIDHPHTHV 157
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 37/103 (35%), Gaps = 13/103 (12%)
Query: 57 HRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTA---------- 106
H E + SE +L ++ V++ LQ F P VV T
Sbjct: 113 HPQESLPDTRSEAYLQQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQ 172
Query: 107 ---FHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
F +L + Y P + C++LACK + + +S
Sbjct: 173 TSYFMATNSLHLTTFSLQYTPPVVACVCIHLACKWSNWEIPVS 215
>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 = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 25/116 (21%), Positives = 52/116 (44%), Gaps = 18/116 (15%)
Query: 87 LRDFCKRFSPPMPKVVIGTAFHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
L+D +R + + ++ I TA Y+ RFY+ S + + ++LA KVE +
Sbjct: 46 LQDMGQRLN--VSQLTINTAIVYMHRFYMIQSFTRFPGNSVAPAALFLAAKVEGQPKKLE 103
Query: 147 QFV---------------SNIKGDQQKASDIILNNELLLMQQLKYHLTVHNPYRPV 187
+ + + Q+ D+++ E +++Q L + LT+ +P+ V
Sbjct: 104 HVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVI-LESIILQTLGFELTIDHPHTHV 158
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 37/103 (35%), Gaps = 13/103 (12%)
Query: 57 HRAELTDEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKVVIGTA---------- 106
H E + SE +L ++ V++ LQ F P VV T
Sbjct: 114 HPQESLPDTRSEAYLQQVQDLVILESIILQTLGFELTIDHPHTHVVKCTQLVRASKDLAQ 173
Query: 107 ---FHYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEFNLSIS 146
F +L + Y P + C++LACK + + +S
Sbjct: 174 TSYFMATNSLHLTTFSLQYTPPVVACVCIHLACKWSNWEIPVS 216
>pdb|2R7G|A Chain A, Structure Of The Retinoblastoma Protein Pocket Domain In
Complex With Adenovirus E1a Cr1 Domain
pdb|2R7G|C Chain C, Structure Of The Retinoblastoma Protein Pocket Domain In
Complex With Adenovirus E1a Cr1 Domain
Length = 347
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 60/141 (42%), Gaps = 20/141 (14%)
Query: 63 DEEASEHFLSASEERVLVRHYQLQLRDFCKRFSPPMPKV--VIGTAF-HYLKRFYLNNSV 119
D E LS ++V Y L+L C+R P++ +I T F H L+ Y +
Sbjct: 199 DREGKSTSLSLFYKKVYRLAY-LRLNTLCERLLSEHPELEHIIWTLFQHTLQNEY--ELM 255
Query: 120 MDYHPKEILVTCVYLACKVEEFNLSISQFVSNIKG--------------DQQKASDIILN 165
D H +I++ +Y CKV+ +L V+ K +++ II+
Sbjct: 256 RDRHLDQIMMCSMYGICKVKNIDLKFKIIVTAYKDLPHAVQETFKRVLIKEEEYDSIIVF 315
Query: 166 NELLLMQQLKYHLTVHNPYRP 186
+ MQ+LK ++ + RP
Sbjct: 316 YNSVFMQRLKTNILQYASTRP 336
>pdb|4ELJ|A Chain A, Crystal Structure Of The Inactive Retinoblastoma Protein
Phosphorylated At T373
Length = 656
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 52/119 (43%), Gaps = 19/119 (15%)
Query: 85 LQLRDFCKRFSPPMPKV--VIGTAF-HYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEF 141
L+L C+R P++ +I T F H L+ Y + D H +I++ +Y CKV+
Sbjct: 529 LRLNTLCERLLSEHPELEHIIWTLFQHTLQNEY--ELMRDRHLDQIMMCSMYGICKVKNI 586
Query: 142 NLSISQFVSNIKG--------------DQQKASDIILNNELLLMQQLKYHLTVHNPYRP 186
+L V+ K +++ II+ + MQ+LK ++ + RP
Sbjct: 587 DLKFKIIVTAYKDLPHAVQETFKRVLIKEEEYDSIIVFYNSVFMQRLKTNILQYASTRP 645
>pdb|3L0B|A Chain A, Crystal Structure Of Scp1 Phosphatase D206a Mutant
Phosphory Intermediate
pdb|3L0B|B Chain B, Crystal Structure Of Scp1 Phosphatase D206a Mutant
Phosphory Intermediate
Length = 184
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 180 VHNPYRPVEG--FLIDIKTRSQLRDPDRL-RPGIDEFLDKMFLTDACLLFSPSQIALAAV 236
VH+ ++PV F+I ++ + L RP +DEFL +M C+LF+ S LA
Sbjct: 30 VHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTAS---LAKY 86
Query: 237 LQSASKLQENLDAY 250
+ L + A+
Sbjct: 87 ADPVADLLDKWGAF 100
>pdb|1N4M|A Chain A, Structure Of Rb Tumor Suppressor Bound To The
Transactivation Domain Of E2f-2
pdb|1N4M|B Chain B, Structure Of Rb Tumor Suppressor Bound To The
Transactivation Domain Of E2f-2
Length = 345
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 52/119 (43%), Gaps = 19/119 (15%)
Query: 85 LQLRDFCKRFSPPMPKV--VIGTAF-HYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEF 141
L+L C+R P++ +I T F H L+ Y + D H +I++ +Y CKV+
Sbjct: 220 LRLNTLCERLLSEHPELEHIIWTLFQHTLQNEY--ELMRDRHLDQIMMCSMYGICKVKNI 277
Query: 142 NLSISQFVSNIKG--------------DQQKASDIILNNELLLMQQLKYHLTVHNPYRP 186
+L V+ K +++ II+ + MQ+LK ++ + RP
Sbjct: 278 DLKFKIIVTAYKDLPHAVQETFKRVLIKEEEYDSIIVFYNSVFMQRLKTNILQYASTRP 336
>pdb|3L0Y|A Chain A, Crystal Structure Of Scp1 Phosphatase D98a Mutant
pdb|3L0Y|B Chain B, Crystal Structure Of Scp1 Phosphatase D98a Mutant
Length = 184
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 180 VHNPYRPVEG--FLIDIKTRSQLRDPDRL-RPGIDEFLDKMFLTDACLLFSPSQIALAAV 236
VH+ ++PV F+I ++ + L RP +DEFL +M C+LF+ S LA
Sbjct: 30 VHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTAS---LAKY 86
Query: 237 LQSASKLQENLDAY 250
+ L + A+
Sbjct: 87 ADPVADLLDKWGAF 100
>pdb|3L0C|A Chain A, Crystal Structure Of Scp1 Phosphatase D206a Mutant With
Trap Inorganic Phosphate
pdb|3L0C|B Chain B, Crystal Structure Of Scp1 Phosphatase D206a Mutant With
Trap Inorganic Phosphate
Length = 184
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 180 VHNPYRPVEG--FLIDIKTRSQLRDPDRL-RPGIDEFLDKMFLTDACLLFSPSQIALAAV 236
VH+ ++PV F+I ++ + L RP +DEFL +M C+LF+ S LA
Sbjct: 30 VHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTAS---LAKY 86
Query: 237 LQSASKLQENLDAY 250
+ L + A+
Sbjct: 87 ADPVADLLDKWGAF 100
>pdb|4ELL|A Chain A, Structure Of The Inactive Retinoblastoma Protein Pocket
Domain
pdb|4ELL|B Chain B, Structure Of The Inactive Retinoblastoma Protein Pocket
Domain
Length = 411
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 52/119 (43%), Gaps = 19/119 (15%)
Query: 85 LQLRDFCKRFSPPMPKV--VIGTAF-HYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEF 141
L+L C+R P++ +I T F H L+ Y + D H +I++ +Y CKV+
Sbjct: 284 LRLNTLCERLLSEHPELEHIIWTLFQHTLQNEY--ELMRDRHLDQIMMCSMYGICKVKNI 341
Query: 142 NLSISQFVSNIKG--------------DQQKASDIILNNELLLMQQLKYHLTVHNPYRP 186
+L V+ K +++ II+ + MQ+LK ++ + RP
Sbjct: 342 DLKFKIIVTAYKDLPHAVQETFKRVLIKEEEYDSIIVFYNSVFMQRLKTNILQYASTRP 400
>pdb|2GHQ|A Chain A, Ctd-Specific Phosphatase Scp1 In Complex With Peptide C-
Terminal Domain Of Rna Polymerase Ii
pdb|2GHQ|B Chain B, Ctd-Specific Phosphatase Scp1 In Complex With Peptide C-
Terminal Domain Of Rna Polymerase Ii
pdb|2GHT|A Chain A, Ctd-Specific Phosphatase Scp1 In Complex With Peptide From
C-Terminal Domain Of Rna Polymerase Ii
pdb|2GHT|B Chain B, Ctd-Specific Phosphatase Scp1 In Complex With Peptide From
C-Terminal Domain Of Rna Polymerase Ii
Length = 181
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 180 VHNPYRPVEG--FLIDIKTRSQLRDPDRL-RPGIDEFLDKMFLTDACLLFSPSQIALAAV 236
VH+ ++PV F+I ++ + L RP +DEFL +M C+LF+ S LA
Sbjct: 27 VHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTAS---LAKY 83
Query: 237 LQSASKLQENLDAY 250
+ L + A+
Sbjct: 84 ADPVADLLDKWGAF 97
>pdb|3POM|A Chain A, Crystal Structure Of The Unliganded Retinoblastoma Protein
Pocket Domain
pdb|3POM|B Chain B, Crystal Structure Of The Unliganded Retinoblastoma Protein
Pocket Domain
Length = 352
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 52/119 (43%), Gaps = 19/119 (15%)
Query: 85 LQLRDFCKRFSPPMPKV--VIGTAF-HYLKRFYLNNSVMDYHPKEILVTCVYLACKVEEF 141
L+L C+R P++ +I T F H L+ Y + D H +I++ +Y CKV+
Sbjct: 225 LRLNTLCERLLSEHPELEHIIWTLFQHTLQNEY--ELMRDRHLDQIMMCSMYGICKVKNI 282
Query: 142 NLSISQFVSNIKG--------------DQQKASDIILNNELLLMQQLKYHLTVHNPYRP 186
+L V+ K +++ II+ + MQ+LK ++ + RP
Sbjct: 283 DLKFKIIVTAYKDLPHAVQETFKRVLIKEEEYDSIIVFYNSVFMQRLKTNILQYASTRP 341
>pdb|3PGL|A Chain A, Crystal Structure Of Human Small C-Terminal Domain
Phosphatase 1 (Scp1) Bound To Rabeprazole
pdb|3PGL|B Chain B, Crystal Structure Of Human Small C-Terminal Domain
Phosphatase 1 (Scp1) Bound To Rabeprazole
Length = 180
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 180 VHNPYRPVEG--FLIDIKTRSQLRDPDRL-RPGIDEFLDKMFLTDACLLFSPSQIALAAV 236
VH+ ++PV F+I ++ + L RP +DEFL +M C+LF+ S LA
Sbjct: 26 VHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTAS---LAKY 82
Query: 237 LQSASKLQENLDAY 250
+ L + A+
Sbjct: 83 ADPVADLLDKWGAF 96
>pdb|1TA0|A Chain A, Three-Dimensional Structure Of A Rna-Polymerase Ii Binding
Protein With Associated Ligand
Length = 197
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 180 VHNPYRPVEG--FLIDIKTRSQLRDPDRL-RPGIDEFLDKMFLTDACLLFSPS 229
VH+ ++PV F+I ++ + L RP +DEFL +M C+LF+ S
Sbjct: 27 VHSSFKPVNNADFIIPVEIDGVVHQVYVLKRPHVDEFLQRMGELFECVLFTAS 79
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
0.320 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,559,448
Number of Sequences: 62578
Number of extensions: 361071
Number of successful extensions: 916
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 884
Number of HSP's gapped (non-prelim): 52
length of query: 352
length of database: 14,973,337
effective HSP length: 100
effective length of query: 252
effective length of database: 8,715,537
effective search space: 2196315324
effective search space used: 2196315324
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: 52 (24.6 bits)