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= 023135
(287 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HL4|A Chain A, Crystal Structure Of A Mammalian Ctp:phosphocholine
Cytidylyltransferase With Cdp-Choline
pdb|3HL4|B Chain B, Crystal Structure Of A Mammalian Ctp:phosphocholine
Cytidylyltransferase With Cdp-Choline
Length = 236
Score = 224 bits (570), Expect = 6e-59, Method: Compositional matrix adjust.
Identities = 102/167 (61%), Positives = 131/167 (78%), Gaps = 2/167 (1%)
Query: 17 PRDRPVRVYADGIYDLFHFGHARALEQAKKLFPNTYLLVGCNNDEDTHKYKGKTVMTDKE 76
P +RPVRVYADGI+DLFH GHARAL QAK LFPNTYL+VG +DE TH +KG TVM + E
Sbjct: 72 PCERPVRVYADGIFDLFHSGHARALMQAKNLFPNTYLIVGVCSDELTHNFKGFTVMNENE 131
Query: 77 RYESLRHCRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLPYADATGSGKDVYEFVKSIG 136
RY++++HCR+VDEV+ +APW +T +FL +H+ID+VAHD +PY+ A DVY+ +K G
Sbjct: 132 RYDAVQHCRYVDEVVRNAPWTLTPEFLAEHRIDFVAHDDIPYSSA--GSDDVYKHIKEAG 189
Query: 137 KFKETKRTDGISTSDLIMRIVKDYNQYVTRNLDRGYTRKELGVSYVK 183
F T+RT+GISTSD+I RIV+DY+ Y RNL RGYT KEL VS++
Sbjct: 190 MFAPTQRTEGISTSDIITRIVRDYDVYARRNLQRGYTAKELNVSFIN 236
>pdb|3ELB|A Chain A, Human Ctp: Phosphoethanolamine Cytidylyltransferase In
Complex With Cmp
Length = 341
Score = 123 bits (308), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 61/136 (44%), Positives = 87/136 (63%), Gaps = 4/136 (2%)
Query: 20 RPVRVYADGIYDLFHFGHARALEQAKKLFPNTYLLVGCNNDEDTHKYKGKTVMTDKERYE 79
R VRV+ DG YD H+GH+ L QA+ YL+VG + DE+ K+KG V T +ERY+
Sbjct: 6 RAVRVWCDGCYDXVHYGHSNQLRQARAX--GDYLIVGVHTDEEIAKHKGPPVFTQEERYK 63
Query: 80 SLRHCRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLPYADATGSGKDVYEFVKSIGKFK 139
++ +WVDEV+P AP+V T + LDK+ D+ H + T G+D YE VK G+++
Sbjct: 64 XVQAIKWVDEVVPAAPYVTTLETLDKYNCDFCVHGND--ITLTVDGRDTYEEVKQAGRYR 121
Query: 140 ETKRTDGISTSDLIMR 155
E KRT G+ST+DL+ R
Sbjct: 122 ECKRTQGVSTTDLVGR 137
Score = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 48/156 (30%), Positives = 80/156 (51%), Gaps = 9/156 (5%)
Query: 13 SAEPPRDRPVRVYADGIYDLFHFGHARALEQAKKLFPNTYLLVGCNNDEDTHKYKGKT-- 70
S + P+ +Y G +DLFH GH LE+ +L Y++ G + D++ + YKGK
Sbjct: 190 SGKEPQPGETVIYVAGAFDLFHIGHVDFLEKVHRLAERPYIIAGLHFDQEVNHYKGKNYP 249
Query: 71 VMTDKERYESLRHCRWVDEVIPDAPWVVTQDFLDKHQIDYVAH---DSLPYADATGSGKD 127
+ ER S+ CR+V EV+ AP+ VT + L ++D V H + +P D G D
Sbjct: 250 IXNLHERTLSVLACRYVSEVVIGAPYAVTAELLSHFKVDLVCHGKTEIIPDRD----GSD 305
Query: 128 VYEFVKSIGKFKETKRTDGISTSDLIMRIVKDYNQY 163
Y+ K G F++ ++T ++ RI+ + +Y
Sbjct: 306 PYQEPKRRGIFRQIDSGSNLTTDLIVQRIITNRLEY 341
>pdb|1COZ|A Chain A, Ctp:glycerol-3-Phosphate Cytidylyltransferase From
Bacillus Subtilis
pdb|1COZ|B Chain B, Ctp:glycerol-3-Phosphate Cytidylyltransferase From
Bacillus Subtilis
pdb|1N1D|A Chain A, Glycerol-3-phosphate Cytidylyltransferase Complexed With
Cdp-glycerol
pdb|1N1D|B Chain B, Glycerol-3-phosphate Cytidylyltransferase Complexed With
Cdp-glycerol
pdb|1N1D|C Chain C, Glycerol-3-phosphate Cytidylyltransferase Complexed With
Cdp-glycerol
pdb|1N1D|D Chain D, Glycerol-3-phosphate Cytidylyltransferase Complexed With
Cdp-glycerol
Length = 129
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 46/132 (34%), Positives = 69/132 (52%), Gaps = 14/132 (10%)
Query: 23 RVYADGIYDLFHFGHARALEQAKKLFPNTYLLVGCNNDEDTHKYKGKTVMTDKERYESLR 82
+V G +DL H+GH + LE+AK+L YL+V + DE + + K + + R L
Sbjct: 3 KVITYGTFDLLHWGHIKLLERAKQL--GDYLVVAISTDEFNLQKQKKAYHSYEHRKLILE 60
Query: 83 HCRWVDEVIPDAPWVV-TQDFLDKHQID-YVAHDSLPYADATGSGKDVYEFVKSIGKFKE 140
R+VDEVIP+ W QD +D H ID +V D GK ++F+K +
Sbjct: 61 TIRYVDEVIPEKNWEQKKQDIID-HNIDVFVMGDDW-------EGK--FDFLKDQCEVVY 110
Query: 141 TKRTDGISTSDL 152
RT+GIST+ +
Sbjct: 111 LPRTEGISTTKI 122
>pdb|2B7L|A Chain A, Crystal Structure Of Ctp:glycerol-3-Phosphate
Cytidylyltransferase From Staphylococcus Aureus
pdb|2B7L|B Chain B, Crystal Structure Of Ctp:glycerol-3-Phosphate
Cytidylyltransferase From Staphylococcus Aureus
pdb|2B7L|C Chain C, Crystal Structure Of Ctp:glycerol-3-Phosphate
Cytidylyltransferase From Staphylococcus Aureus
pdb|2B7L|D Chain D, Crystal Structure Of Ctp:glycerol-3-Phosphate
Cytidylyltransferase From Staphylococcus Aureus
Length = 132
Score = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 40/130 (30%), Positives = 63/130 (48%), Gaps = 10/130 (7%)
Query: 23 RVYADGIYDLFHFGHARALEQAKKLFPNTYLLVGCNNDEDTHKYKGKTVMTDKERYESLR 82
RV G YDL H+GH L +A+++ YL+V + DE K+ ++R L
Sbjct: 3 RVITYGTYDLLHYGHIELLRRAREM--GDYLIVALSTDEFNQIKHKKSYYDYEQRKMMLE 60
Query: 83 HCRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLPYADATGSGKDVYEFVKSIGKFKETK 142
R+VD VIP+ W +D ++K +D D G ++F+K + K
Sbjct: 61 SIRYVDLVIPEKGWGQKEDDVEKFDVDVFVMGH----DWEGE----FDFLKDKCEVIYLK 112
Query: 143 RTDGISTSDL 152
RT+GIST+ +
Sbjct: 113 RTEGISTTKI 122
>pdb|3GLV|A Chain A, Crystal Structure Of The Lipopolysaccharide Core
Biosynthesis Protein From Thermoplasma Volcanium Gss1
pdb|3GLV|B Chain B, Crystal Structure Of The Lipopolysaccharide Core
Biosynthesis Protein From Thermoplasma Volcanium Gss1
Length = 143
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 4/71 (5%)
Query: 22 VRVYADGIYDLFHFGHARALEQAKKLFPNTYLLVGCNNDEDTHKYKGKTVMTDK-ERYES 80
+RV A G++D+ H GH L+++KKL ++V ++ T + GK + D+ R
Sbjct: 3 IRVMATGVFDILHLGHIHYLKESKKLGDELVVVVARDS---TARNNGKIPIFDENSRLAL 59
Query: 81 LRHCRWVDEVI 91
+ + VD I
Sbjct: 60 ISELKVVDRAI 70
>pdb|3AVR|A Chain A, Catalytic Fragment Of UtxKDM6A BOUND WITH HISTONE H3K27ME3
PEPTIDE, N-Oxyalylglycine, And Ni(Ii)
pdb|3AVS|A Chain A, Catalytic Fragment Of UtxKDM6A BOUND WITH
N-Oxyalylglycine, And Ni(Ii)
Length = 531
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 84 CRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLP-YADATGSGKDVYEFVKSIG 136
C W V+P+ W V DF +K+ ++++ P D + VY F++ G
Sbjct: 294 CEWF--VVPEGYWGVLNDFCEKNNLNFLMGSWWPNLEDLYEANVPVYRFIQRPG 345
>pdb|3ZLI|A Chain A, Crystal Structure Of Jmjc Domain Of Human Histone
Demethylase Uty
pdb|3ZLI|B Chain B, Crystal Structure Of Jmjc Domain Of Human Histone
Demethylase Uty
Length = 478
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 84 CRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLP-YADATGSGKDVYEFVKSIG 136
C W V+P+ W V DF +K+ ++++ P D + VY F++ G
Sbjct: 235 CEWF--VVPEDYWGVLNDFCEKNNLNFLMSSWWPNLEDLYEANVPVYRFIQRPG 286
>pdb|1MD9|A Chain A, Crystal Structure Of Dhbe In Complex With Dhb And Amp
Length = 539
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 8/60 (13%)
Query: 196 LREKVKKHQEKIQIVAKTASMRRNEWVENADRLVAGFLEMFEERCHKMGTAIKDRIQERL 255
LR++ K+ ++I I E ADRL AGF K+G KDR+ +L
Sbjct: 31 LRDRAAKYGDRIAITCGNTHWSYRELDTRADRLAAGF--------QKLGIQQKDRVVVQL 82
>pdb|1MDB|A Chain A, Crystal Structure Of Dhbe In Complex With Dhb-adenylate
pdb|1MDF|A Chain A, Crystal Structure Of Dhbe In Absence Of Substrate
Length = 539
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 8/60 (13%)
Query: 196 LREKVKKHQEKIQIVAKTASMRRNEWVENADRLVAGFLEMFEERCHKMGTAIKDRIQERL 255
LR++ K+ ++I I E ADRL AGF K+G KDR+ +L
Sbjct: 31 LRDRAAKYGDRIAITCGNTHWSYRELDTRADRLAAGF--------QKLGIQQKDRVVVQL 82
>pdb|4EC8|A Chain A, Structure Of Full Length Cdk9 In Complex With Cyclint And
Drb
pdb|4EC9|A Chain A, Crystal Structure Of Full-Length Cdk9 In Complex With
Cyclin T
Length = 373
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 22 VRVYADGIYDLFHFGHARALEQAKKLFPNTY 52
V + DG+ L FG ARA AK PN Y
Sbjct: 156 VLITRDGVLKLADFGLARAFSLAKNSQPNRY 186
>pdb|2YEQ|A Chain A, Structure Of Phod
pdb|2YEQ|B Chain B, Structure Of Phod
Length = 527
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 36/95 (37%), Gaps = 16/95 (16%)
Query: 4 RKVVREGTNSAEPPRDRPVRVYADGI------YDLFHFGHARALEQAKKLFPN------- 50
RK+VR+GT A+P V V ADG+ Y F GH + K P
Sbjct: 57 RKIVRKGTEMAKPSLAHSVHVEADGLEPNKVYYYRFKTGHELSPVGKTKTLPAPGANVPQ 116
Query: 51 -TYLLVGCNNDEDTHKYKGKTVMTDKERYESLRHC 84
T+ C E H Y KE+ + + H
Sbjct: 117 MTFAFASCQQYE--HGYYTAYKHMAKEKLDLVFHL 149
>pdb|3BLH|A Chain A, Crystal Structure Of Human Cdk9CYCLINT1
pdb|3BLQ|A Chain A, Crystal Structure Of Human Cdk9CYCLINT1 IN COMPLEX WITH
ATP
pdb|3BLR|A Chain A, Crystal Structure Of Human Cdk9CYCLINT1 IN COMPLEX WITH
Flavopiridol
pdb|3MY1|A Chain A, Structure Of Cdk9CYCLINT1 IN COMPLEX WITH DRB
pdb|3LQ5|A Chain A, Structure Of Cdk9CYCLINT IN COMPLEX WITH S-Cr8
pdb|3TN8|A Chain A, Cdk9CYCLIN T IN COMPLEX WITH CAN508
pdb|3TNH|A Chain A, Cdk9CYCLIN T IN COMPLEX WITH CAN508
pdb|3TNI|A Chain A, Structure Of Cdk9CYCLIN T F241L
pdb|4BCH|A Chain A, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
pdb|4BCI|A Chain A, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
pdb|4BCJ|A Chain A, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
Length = 331
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 22 VRVYADGIYDLFHFGHARALEQAKKLFPNTY 52
V + DG+ L FG ARA AK PN Y
Sbjct: 156 VLITRDGVLKLADFGLARAFSLAKNSQPNRY 186
>pdb|4EYU|A Chain A, The Free Structure Of The Mouse C-Terminal Domain Of Kdm6b
pdb|4EYU|B Chain B, The Free Structure Of The Mouse C-Terminal Domain Of Kdm6b
pdb|4EZ4|A Chain A, Free Kdm6b Structure
pdb|4EZ4|B Chain B, Free Kdm6b Structure
pdb|4EZH|A Chain A, The Crystal Structure Of Kdm6b Bound With H3k27me3 Peptide
pdb|4EZH|B Chain B, The Crystal Structure Of Kdm6b Bound With H3k27me3 Peptide
Length = 486
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 84 CRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLPYA-DATGSGKDVYEFVKSIG 136
C W + + W F D+H +DY+ P D S VY FV+ G
Sbjct: 251 CEWF--AVHEHYWETISAFCDRHGVDYLTGSWWPILDDLYASNIPVYRFVQRPG 302
>pdb|4BCF|A Chain A, Structure Of Cdk9 In Complex With Cyclin T And A
2-amino-4- Heteroaryl-pyrimidine Inhibitor
Length = 331
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 22 VRVYADGIYDLFHFGHARALEQAKKLFPNTY 52
V + DG+ L FG ARA AK PN Y
Sbjct: 156 VLITRDGVLKLADFGLARAFSLAKNSQPNRY 186
>pdb|1L3G|A Chain A, Nmr Structure Of The Dna-Binding Domain Of Cell Cycle
Protein, Mbp1(2-124) From Saccharomyces Cerevisiae
Length = 136
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 124 SGKDVYEFVKSIGKFKETKRTDGISTSDLI 153
SG DVYEF+ S G + K+ D ++ + ++
Sbjct: 10 SGVDVYEFIHSTGSIMKRKKDDWVNATHIL 39
>pdb|4ASK|A Chain A, Crystal Structure Of Jmjd3 With Gsk-J1
pdb|4ASK|B Chain B, Crystal Structure Of Jmjd3 With Gsk-J1
Length = 510
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 84 CRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLPYA-DATGSGKDVYEFVKSIG 136
C W + + W F D+H +DY+ P D S VY FV+ G
Sbjct: 269 CEWF--AVHEHYWETISAFCDRHGVDYLTGSWWPILDDLYASNIPVYRFVQRPG 320
>pdb|1MB1|A Chain A, Mbp1 From Saccharomyces Cerevisiae
Length = 130
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 124 SGKDVYEFVKSIGKFKETKRTDGISTSDLI 153
SG DVYEF+ S G + K+ D ++ + ++
Sbjct: 11 SGVDVYEFIHSTGSIMKRKKDDWVNATHIL 40
>pdb|3MI9|A Chain A, Crystal Structure Of Hiv-1 Tat Complexed With Human P-Tefb
pdb|3MIA|A Chain A, Crystal Structure Of Hiv-1 Tat Complexed With Atp-Bound
Human P-Tefb
Length = 351
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 16/31 (51%)
Query: 22 VRVYADGIYDLFHFGHARALEQAKKLFPNTY 52
V + DG+ L FG ARA AK PN Y
Sbjct: 155 VLITRDGVLKLADFGLARAFSLAKNSQPNRY 185
>pdb|2XUE|A Chain A, Crystal Structure Of Jmjd3
pdb|2XUE|B Chain B, Crystal Structure Of Jmjd3
Length = 509
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 84 CRWVDEVIPDAPWVVTQDFLDKHQIDYVAHDSLPYA-DATGSGKDVYEFVKSIG 136
C W + + W F D+H +DY+ P D S VY FV+ G
Sbjct: 268 CEWF--AVHEHYWETISAFCDRHGVDYLTGSWWPILDDLYASNIPVYRFVQRPG 319
>pdb|1BM8|A Chain A, Dna-Binding Domain Of Mbp1
Length = 99
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 124 SGKDVYEFVKSIGKFKETKRTDGISTSDLI 153
SG DVYEF+ S G + K+ D ++ + ++
Sbjct: 8 SGVDVYEFIHSTGSIMKRKKDDWVNATHIL 37
>pdb|2XXZ|A Chain A, Crystal Structure Of The Human Jmjd3 Jumonji Domain
pdb|2XXZ|B Chain B, Crystal Structure Of The Human Jmjd3 Jumonji Domain
Length = 332
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 96 WVVTQDFLDKHQIDYVAHDSLPYA-DATGSGKDVYEFVKSIG 136
W F D+H +DY+ P D S VY FV+ G
Sbjct: 245 WETISAFCDRHGVDYLTGSWWPILDDLYASNIPVYRFVQRPG 286
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 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,041,385
Number of Sequences: 62578
Number of extensions: 339830
Number of successful extensions: 981
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 958
Number of HSP's gapped (non-prelim): 25
length of query: 287
length of database: 14,973,337
effective HSP length: 98
effective length of query: 189
effective length of database: 8,840,693
effective search space: 1670890977
effective search space used: 1670890977
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)