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= 029598
(191 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2W96|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
pdb|2W99|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
pdb|2W9F|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
Length = 271
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 64/118 (54%), Gaps = 8/118 (6%)
Query: 1 MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSS 60
++P K + LL C+ VA+KM+ET L + +S +P+ + +MELL+++
Sbjct: 91 LEPVKKSRLQLLGATCMFVASKMKETIPLTAEKLCIYTDNS---IRPEELLQMELLLVNK 147
Query: 61 LKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVF-SHAAALIISTRTVIDFLACPPS 117
LKW L +TP DF+ +F+SK+ P+ + + HA + T + F++ PPS
Sbjct: 148 LKWNLAAMTPHDFIEHFLSKM----PEAEENKQIIRKHAQTFVALCATDVKFISNPPS 201
>pdb|2W9Z|A Chain A, Crystal Structure Of Cdk4 In Complex With A D-Type Cyclin
Length = 257
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 64/118 (54%), Gaps = 8/118 (6%)
Query: 1 MKPGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSS 60
++P K + LL C+ VA+KM+ET L + +S +P+ + +MELL+++
Sbjct: 77 LEPVKKSRLQLLGATCMFVASKMKETIPLTAEKLCIYTDNS---IRPEELLQMELLLVNK 133
Query: 61 LKWRLCTVTPFDFVHYFISKISCFNPQRDGFGSVF-SHAAALIISTRTVIDFLACPPS 117
LKW L +TP DF+ +F+SK+ P+ + + HA + T + F++ PPS
Sbjct: 134 LKWNLAAMTPHDFIEHFLSKM----PEAEENKQIIRKHAQTFVALCATDVKFISNPPS 187
>pdb|3G33|B Chain B, Crystal Structure Of Cdk4CYCLIN D3
pdb|3G33|D Chain D, Crystal Structure Of Cdk4CYCLIN D3
Length = 306
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 54/122 (44%), Gaps = 6/122 (4%)
Query: 3 PGKGWQWHLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLK 62
P + Q LL C+ +A+K+ ET+ + L + + P+ + E+LV+ LK
Sbjct: 107 PTRKAQLQLLGAVCMLLASKLRETTPLTIEKLCIY---TDHAVSPRQLRDWEVLVLGKLK 163
Query: 63 WRLCTVTPFDFVHYFISKISCFNPQRDGFGSVFSHAAALIISTRTVIDFLACPPSTIAAA 122
W L V DF+ + + ++S RD V HA + T F PPS IA
Sbjct: 164 WDLAAVIAHDFLAFILHRLSL---PRDRQALVKKHAQTFLALCATDYTFAMYPPSMIATG 220
Query: 123 VV 124
+
Sbjct: 221 SI 222
>pdb|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E
Length = 283
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 28/120 (23%), Positives = 55/120 (45%), Gaps = 9/120 (7%)
Query: 10 HLLSVACLAVAAKMEETSVPNLLDLQLIEPSSRFLFKPKTVHRMELLVMSSLKWRLCTVT 69
L+ ++ L +AAK+EE P L + + + MEL++M +LKWRL +T
Sbjct: 94 QLIGISSLFIAAKLEEIYPPKLHQFAYVTDGA---CSGDEILTMELMIMKALKWRLSPLT 150
Query: 70 PFDFVHYFISKISCFNPQRDGF-----GSVFSHAAALIISTRTVIDFLACPPSTIAAAVV 124
+++ ++ +++ N + +F A L+ +D L P +AA+ +
Sbjct: 151 IVSWLNVYM-QVAYLNDLHEVLLPQYPQQIFIQIAELLDLCVLDVDCLEFPYGILAASAL 209
>pdb|1RXT|A Chain A, Crystal Structure Of Human Myristoyl-Coa:protein N-
Myristoyltransferase.
pdb|1RXT|B Chain B, Crystal Structure Of Human Myristoyl-Coa:protein N-
Myristoyltransferase.
pdb|1RXT|C Chain C, Crystal Structure Of Human Myristoyl-Coa:protein N-
Myristoyltransferase.
pdb|1RXT|D Chain D, Crystal Structure Of Human Myristoyl-Coa:protein N-
Myristoyltransferase
Length = 496
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 97 HAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMV 149
H ++S+R ++ F+ S I A + ++ T+ + E N C HK+L V
Sbjct: 211 HCGVRVVSSRKLVGFI----SAIPANIHIYDTEKKMVEINFLCVHKKLRSKRV 259
>pdb|3IU1|A Chain A, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa
pdb|3IU1|B Chain B, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa
pdb|3IU2|A Chain A, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa And Inhibitor Ddd90096
pdb|3IU2|B Chain B, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa And Inhibitor Ddd90096
pdb|3IWE|A Chain A, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa And Inhibitor Ddd85646
pdb|3IWE|B Chain B, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa And Inhibitor Ddd85646
pdb|3JTK|A Chain A, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa And Inhibitor Ddd90055
pdb|3JTK|B Chain B, Crystal Structure Of Human Type-I N-Myristoyltransferase
With Bound Myristoyl-Coa And Inhibitor Ddd90055
Length = 383
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 4/53 (7%)
Query: 97 HAAALIISTRTVIDFLACPPSTIAAAVVLWATDHSVDEQNLGCFHKRLNKDMV 149
H ++S+R ++ F+ S I A + ++ T+ + E N C HK+L V
Sbjct: 98 HCGVRVVSSRKLVGFI----SAIPANIHIYDTEKKMVEINFLCVHKKLRSKRV 146
>pdb|3F5F|A Chain A, Crystal Structure Of Heparan Sulfate 2-O-Sulfotransferase
From Gallus Gallus As A Maltose Binding Protein Fusion
Length = 658
Score = 28.5 bits (62), Expect = 2.3, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 153 YNLIRKNRSQLLHINSVQKPEHVAVNDKLKVV 184
Y+L KNR +LHIN+ + +++ D+++ V
Sbjct: 396 YDLCAKNRYHVLHINTTKNNPVMSLQDQVRFV 427
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
0.325 0.136 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,484,491
Number of Sequences: 62578
Number of extensions: 192624
Number of successful extensions: 488
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 476
Number of HSP's gapped (non-prelim): 7
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)