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= 029886
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EV1|A Chain A, Anabaena Tic22 (Protein Transport)
Length = 252
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 47/212 (22%), Positives = 94/212 (44%), Gaps = 42/212 (19%)
Query: 1 MSAEAIEERLAGVPVYALSNCNEEFVLVS--------GAKTGKSLGLMCFKKEDAEALLH 52
+S + I+E+L VP+Y ++ NE+ + +S G K G S+ +++A+A ++
Sbjct: 2 LSEQQIKEKLDSVPIYLVT--NEKGLPLSRPLPNAPNGQKAGGSITGAYMSRQEAQAFIN 59
Query: 53 QM---KSMDPAMRK--EGSRVVPVPLNKVFQL------KVNGVAFRLIPESTQVKNALRE 101
++ K+ DP M++ + +V VPL ++Q N + F P ++K A+
Sbjct: 60 ELRNAKNKDPKMQEIVKSLQVTAVPLGVIYQQLQQTKKDPNRLLFAFKPVDQEIKGAMDL 119
Query: 102 MEKAGFSDDAFAGVPVFQ---------------------EDLEKSLRRASSDQNKLNPAF 140
+ ++G + F VP+F L S + A ++ P
Sbjct: 120 LRQSGQQVNQFKSVPMFAVRFAPDQGYVPIKVGTGNEQVVPLFLSKQDAQGLLGQVKPKH 179
Query: 141 RMGDIQVAVFEEIIKGMKESTTSAWNDVVFIP 172
DIQV + +++ +++ + N VV +P
Sbjct: 180 PKADIQVLDIDGVLQTLQDKNDTWLNQVVLVP 211
>pdb|2TMK|A Chain A, Yeast Thymidylate Kinase Complexed With 3'-Azido-3'-
Deoxythymidine Monophosphate (Azt-Mp)
pdb|2TMK|B Chain B, Yeast Thymidylate Kinase Complexed With 3'-Azido-3'-
Deoxythymidine Monophosphate (Azt-Mp)
pdb|1TMK|A Chain A, Yeast Thymidylate Kinase Complexed With Thymidine
Monophosphate (Dtmp)
pdb|1TMK|B Chain B, Yeast Thymidylate Kinase Complexed With Thymidine
Monophosphate (Dtmp)
pdb|3TMK|A Chain A, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|B Chain B, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|C Chain C, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|D Chain D, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|E Chain E, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|F Chain F, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|G Chain G, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
pdb|3TMK|H Chain H, Crystal Structure Of Yeast Thymidylate Kinase Complexed
With The Bisubstrate Inhibitor Tp5a At 2.0 A Resolution:
Implications For Catalysis And Azt Activation
Length = 216
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 103 EKAGFSDDAFAGVPVFQEDLEKSLRRASSDQNKLNPAFRMGDIQVAVFEEIIKGMKESTT 162
EK+GF D+ + V FQE ++++ + L+ R GD + + + KG++E
Sbjct: 142 EKSGFGDERYETVK-FQEKVKQTFMKL------LDKEIRKGDESITIVDVTNKGIQEVEA 194
Query: 163 SAW 165
W
Sbjct: 195 LIW 197
>pdb|3NZM|A Chain A, Crystal Structure Of Dnae Intein With N-Extein In Redox
Trap
Length = 168
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 70 PVPLNKVFQLKVNGVAFRLIPESTQVKNALREMEKAGFSDDAFAGVPVFQEDLEK-SLRR 128
P+P+ K+ ++N + + PE A+ + G + V + +LE S+ R
Sbjct: 24 PLPIGKIVSEEINCSVYSVDPEGRVYTQAIAQWHDRGEQE-------VLEYELEDGSVIR 76
Query: 129 ASSDQNKLNPAFRMGDIQVAVFEEI 153
A+SD F D Q+ EEI
Sbjct: 77 ATSDHR-----FLTTDYQLLAIEEI 96
>pdb|1ZDE|A Chain A, 1.95 Angstrom Crystal Structure Of A Dnae Intein Precursor
From Synechocystis Sp. Pcc 6803
Length = 177
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 70 PVPLNKVFQLKVNGVAFRLIPESTQVKNALREMEKAGFSDDAFAGVPVFQEDLEK-SLRR 128
P+P+ K+ ++N + + PE A+ + G + V + +LE S+ R
Sbjct: 25 PLPIGKIVSEEINCSVYSVDPEGRVYTQAIAQWHDRGEQE-------VLEYELEDGSVIR 77
Query: 129 ASSDQNKLNPAFRMGDIQVAVFEEI 153
A+SD F D Q+ EEI
Sbjct: 78 ATSDHR-----FLTTDYQLLAIEEI 97
>pdb|1ZD7|A Chain A, 1.7 Angstrom Crystal Structure Of Post-splicing Form Of A
Dnae Intein From Synechocystis Sp. Pcc 6803
pdb|1ZD7|B Chain B, 1.7 Angstrom Crystal Structure Of Post-splicing Form Of A
Dnae Intein From Synechocystis Sp. Pcc 6803
Length = 159
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 70 PVPLNKVFQLKVNGVAFRLIPESTQVKNALREMEKAGFSDDAFAGVPVFQEDLEK-SLRR 128
P+P+ K+ ++N + + PE A+ + G + V + +LE S+ R
Sbjct: 15 PLPIGKIVSEEINCSVYSVDPEGRVYTQAIAQWHDRGEQE-------VLEYELEDGSVIR 67
Query: 129 ASSDQNKLNPAFRMGDIQVAVFEEI 153
A+SD F D Q+ EEI
Sbjct: 68 ATSDHR-----FLTTDYQLLAIEEI 87
>pdb|3IBV|A Chain A, Karyopherin Cytosolic State
pdb|3IBV|B Chain B, Karyopherin Cytosolic State
pdb|3ICQ|T Chain T, Karyopherin Nuclear State
pdb|3ICQ|U Chain U, Karyopherin Nuclear State
Length = 980
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 109 DDAFAGVPVFQEDLEKSLRRASSDQNKLNPAFRMGDIQVAVFEEIIKGMKESTTSAWND 167
D+ V F DL SLR+ SS + +L+ + + + ++ E IIK MK + W+D
Sbjct: 346 DETSTAVFPFLSDLLVSLRKESSSK-ELSASLK--EFLKSLLEAIIKKMKYDESQEWDD 401
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
0.316 0.131 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,115,325
Number of Sequences: 62578
Number of extensions: 190217
Number of successful extensions: 450
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 450
Number of HSP's gapped (non-prelim): 13
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)