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= 038028
(337 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 = 141 bits (356), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 142/248 (57%), Gaps = 22/248 (8%)
Query: 70 PKPLNIEEEQSMRVFYENKLREVCSAF--YFPNKIQATALLYFKRFYLQWSVMEHHPKNI 127
P L EE ++ +YE +L E CS F P + TA +YFKRFYL SVME+HP+ I
Sbjct: 55 PVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHPRII 114
Query: 128 MLTCVYAACKIEENHVSA-------EELGKGISQDHQMILNYEMIVYQALEFDLIVYPPY 180
MLTC + ACK++E +VS+ E G + + IL YE+++ Q L F LIV+ PY
Sbjct: 115 MLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIVHNPY 174
Query: 181 RPLEGFINDMED-FCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLA 239
RP EGF+ D++ + ++N E+ L +TA +++I LTDA LL+ P Q+ A
Sbjct: 175 RPFEGFLIDLKTRYPILENPEI-----LRKTADDFLNRIALTDAYLLYTPSQI------A 223
Query: 240 LAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKH 299
L A+ +S + + ESYLS L + + +S L + + ++ + V KY+ P +++
Sbjct: 224 LTAILSSAS-RAGITMESYLSESLMLKENRTCLSQLLDIMKSMRNLVKKYEPPRSEEVAV 282
Query: 300 INRKLKSC 307
+ +KL+ C
Sbjct: 283 LKQKLERC 290
>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2
Length = 323
Score = 140 bits (354), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 141/248 (56%), Gaps = 22/248 (8%)
Query: 70 PKPLNIEEEQSMRVFYENKLREVCSAF--YFPNKIQATALLYFKRFYLQWSVMEHHPKNI 127
P L EE ++ +YE +L E CS F P + TA +YFKRFYL SVME+HP+ I
Sbjct: 45 PVFLEPHEEMTLCKYYEKRLLEFCSVFKPAMPRSVVGTACMYFKRFYLNNSVMEYHPRII 104
Query: 128 MLTCVYAACKIEENHVSA-------EELGKGISQDHQMILNYEMIVYQALEFDLIVYPPY 180
MLTC + ACK++E +VS+ E G + + IL YE+++ Q L F LIV+ PY
Sbjct: 105 MLTCAFLACKVDEFNVSSPQFVGNLRESPLGQEKALEQILEYELLLIQQLNFHLIVHNPY 164
Query: 181 RPLEGFINDMED-FCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLFPPGQVLSVIQLA 239
RP EGF+ D++ + ++N E+ L +TA +++I LTDA LL+ P Q+ A
Sbjct: 165 RPFEGFLIDLKTRYPILENPEI-----LRKTADDFLNRIALTDAYLLYTPSQI------A 213
Query: 240 LAALRNSNKVQRVVNYESYLSSILSRQNSGHIISDLTENLDTIDSWVMKYKFPSEKDMKH 299
L A+ +S + + ESYLS L + + +S L + + ++ + V KY+ P +++
Sbjct: 214 LTAILSSAS-RAGITMESYLSESLMLKENRTCLSQLLDIMKSMRNLVKKYEPPRSEEVAV 272
Query: 300 INRKLKSC 307
+ +KL C
Sbjct: 273 LKQKLDRC 280
>pdb|3RGF|B Chain B, Crystal Structure Of Human Cdk8CYCC
Length = 285
Score = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 59/204 (28%), Positives = 90/204 (44%), Gaps = 34/204 (16%)
Query: 65 EKHSRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHP 124
E+ K L+ EE +++F+ N ++ + ++ ATA +YFKRFY ++S+ P
Sbjct: 26 ERQKDLKFLSEEEYWKLQIFFTNVIQALGEHLKLRQQVIATATVYFKRFYARYSLKSIDP 85
Query: 125 KNIMLTCVYAACKIEENHVSAE-----------------ELGKGISQDHQMILNYEMIVY 167
+ TCV+ A K+EE V + K IL E +
Sbjct: 86 VLMAPTCVFLASKVEEFGVVSNTRLIAAATSVLKTRFSYAFPKEFPYRMNHILECEFYLL 145
Query: 168 QALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAKLEVDKIMLTDAPLLF 227
+ ++ LIVY PYRPL ++ DM G+ ML L A V+ TD LL+
Sbjct: 146 ELMDCCLIVYHPYRPLLQYVQDM--------GQEDMLLPL---AWRIVNDTYRTDLCLLY 194
Query: 228 PPGQVLSVIQLALAALRNSNKVQR 251
PP +ALA L + VQ+
Sbjct: 195 PP------FMIALACLHVACVVQQ 212
>pdb|2I53|A Chain A, Crystal Structure Of Cyclin K
Length = 258
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 36/161 (22%), Positives = 74/161 (45%), Gaps = 23/161 (14%)
Query: 104 ATALLYFKRFYLQWSVMEHHPKNIM-LTCVYAACKIEENHVSAEEL---GKGISQDHQM- 158
AT ++YF RFY+ + + P+ + C++ A K+EE +++ + + D Q
Sbjct: 63 ATGIIYFHRFYM-FHSFKQFPRYVTGACCLFLAGKVEETPKKCKDIIKTARSLLNDVQFG 121
Query: 159 ---------ILNYEMIVYQALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHE 209
++ E I+ Q ++FDL V PY+ L + ++ G+ ++ L +
Sbjct: 122 QFGDDPKEEVMVLERILLQTIKFDLQVEHPYQFLLKYAKQLK-------GDKNKIQKLVQ 174
Query: 210 TAKLEVDKIMLTDAPLLFPPGQVLSVIQLALAALRNSNKVQ 250
A V+ + T L + P ++++V + LA ++Q
Sbjct: 175 MAWTFVNDSLCTTLSLQWEP-EIIAVAVMYLAGRLCKFEIQ 214
>pdb|1ZP2|A Chain A, Structure Of The Mediator Subunit Cyclin C
Length = 235
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 21/104 (20%)
Query: 101 KIQATALLYFKRFYLQWSVMEHHPKNIML-----TCVYAACKIEENHVSAE--------- 146
++ ATA++ +R+ L+ ++ K L TC+Y +CK+EE V
Sbjct: 47 RVLATAIVLLRRYMLK----KNEEKGFSLEALVATCIYLSCKVEECPVHIRTICNEANDL 102
Query: 147 -ELGKGISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGFIND 189
L +S+ + + +E+I L+ LIV+ PY LE +D
Sbjct: 103 WSLKVKLSRSNISEIEFEII--SVLDAFLIVHHPYTSLEQAFHD 144
>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 = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 77/193 (39%), Gaps = 33/193 (17%)
Query: 68 SRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNI 127
SR L+ ++E S R N L+++ TA++Y RFY+ S H ++
Sbjct: 21 SRRFGLDPDKELSYRQQAANLLQDMGQRLNVSQLTINTAIVYMHRFYMIQSFTRFHRNSV 80
Query: 128 MLTCVYAACKIEENHVSAEELGK------------------GISQDHQMILNYEMIVYQA 169
++ A K+EE E + K Q Q ++ E I+ Q
Sbjct: 81 APAALFLAAKVEEQPKKLEHVIKVAHTCLHPQESLPDTRSEAYLQQVQDLVILESIILQT 140
Query: 170 LEFDLIVYPPYRPLEGFINDMEDFCQVKNGEL-QMLKDLHETAK-LEVDKIMLTDAPLLF 227
L F+L + P+ + VK +L + KDL +T+ + + + LT L +
Sbjct: 141 LGFELTIDHPHTHV------------VKCTQLVRASKDLAQTSYFMATNSLHLTTFSLQY 188
Query: 228 PPGQVLSV-IQLA 239
P V V I LA
Sbjct: 189 TPPVVACVCIHLA 201
>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 = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 42/195 (21%), Positives = 79/195 (40%), Gaps = 33/195 (16%)
Query: 68 SRPKPLNIEEEQSMRVFYENKLREVCSAFYFPNKIQATALLYFKRFYLQWSVMEHHPKNI 127
SR + ++E S R N ++E+ TA++Y RFY+ S + + I
Sbjct: 17 SRRCGVEADKELSCRQQAANLIQEMGQRLNVSQLTINTAIVYMHRFYMHHSFTKFNKNII 76
Query: 128 MLTCVYAACKIEENHVSAEELGKG-------------------ISQDHQMILNYEMIVYQ 168
T ++ A K+EE E + K + Q ++++ E I+ Q
Sbjct: 77 SSTALFLAAKVEEQARKLEHVIKVAHACLHPLEPLLDTKCDAYLQQTRELVI-LETIMLQ 135
Query: 169 ALEFDLIVYPPYRPLEGFINDMEDFCQVKNGELQMLKDLHETAK-LEVDKIMLTDAPLLF 227
L F++ + P+ D+ Q+ KDL +T+ + + + LT L +
Sbjct: 136 TLGFEITIEHPH-------TDVVKCTQLVRAS----KDLAQTSYFMATNSLHLTTFCLQY 184
Query: 228 PPGQVLSVIQLALAA 242
P V++ + + LA
Sbjct: 185 KPT-VIACVCIHLAC 198
>pdb|3AIO|A Chain A, R267k Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIO|B Chain B, R267k Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIO|C Chain C, R267k Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIO|D Chain D, R267k Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
Length = 323
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 152 ISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGF 186
+S+ + L Y++++Y A+ FDLI Y EGF
Sbjct: 182 LSKKENIKLKYQVLIYPAVSFDLITKSLYDNGEGF 216
>pdb|3AIN|A Chain A, R267g Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIN|B Chain B, R267g Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIN|C Chain C, R267g Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIN|D Chain D, R267g Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
Length = 323
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 152 ISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGF 186
+S+ + L Y++++Y A+ FDLI Y EGF
Sbjct: 182 LSKKENIKLKYQVLIYPAVSFDLITKSLYDNGEGF 216
>pdb|3AIK|A Chain A, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIK|B Chain B, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIK|C Chain C, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIK|D Chain D, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIL|A Chain A, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii Complexed With Paraoxon
pdb|3AIL|B Chain B, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii Complexed With Paraoxon
pdb|3AIL|C Chain C, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii Complexed With Paraoxon
pdb|3AIL|D Chain D, Crystal Structure Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii Complexed With Paraoxon
Length = 323
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 152 ISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGF 186
+S+ + L Y++++Y A+ FDLI Y EGF
Sbjct: 182 LSKKENIKLKYQVLIYPAVSFDLITKSLYDNGEGF 216
>pdb|3AIM|A Chain A, R267e Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIM|B Chain B, R267e Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIM|C Chain C, R267e Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
pdb|3AIM|D Chain D, R267e Mutant Of A Hsl-Like Carboxylesterase From
Sulfolobus Tokodaii
Length = 323
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 152 ISQDHQMILNYEMIVYQALEFDLIVYPPYRPLEGF 186
+S+ + L Y++++Y A+ FDLI Y EGF
Sbjct: 182 LSKKENIKLKYQVLIYPAVSFDLITKSLYDNGEGF 216
>pdb|2DPL|A Chain A, Crystal Structure Of The Gmp Synthase From Pyrococcus
Horikoshii Ot3
pdb|2DPL|B Chain B, Crystal Structure Of The Gmp Synthase From Pyrococcus
Horikoshii Ot3
pdb|3A4I|A Chain A, Crystal Structure Of Gmp Synthetase Ph1347 From Pyrococcus
Horikoshii Ot3
pdb|3A4I|B Chain B, Crystal Structure Of Gmp Synthetase Ph1347 From Pyrococcus
Horikoshii Ot3
Length = 308
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 22 EKYKASNRRAIQTLEKYGT-TQMEVDVDGSFS--YPEPQNNAKDNSEKHSRPKPLNIEEE 78
EK K R I+ E+ E + G+ + + E Q K + P+ LN++
Sbjct: 99 EKRKIIGRVFIEVFEEVAKKIGAEYLIQGTIAPDWIESQGKIKSHHNVGGLPEKLNLKLI 158
Query: 79 QSMRVFYENKLREVCSAFYFPNKI 102
+ +R Y++++RE+ P KI
Sbjct: 159 EPLRDLYKDEVRELAKFLGLPEKI 182
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
0.318 0.133 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,791,975
Number of Sequences: 62578
Number of extensions: 379402
Number of successful extensions: 882
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 860
Number of HSP's gapped (non-prelim): 23
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)