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= 048606
(276 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3V70|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 1
pdb|3V70|B Chain B, Crystal Structure Of Human Gtpase Imap Family Member 1
Length = 247
Score = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 40/136 (29%), Positives = 77/136 (56%), Gaps = 5/136 (3%)
Query: 1 SRFSQEEEAAVHHLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILK 60
RF+ +++ AV ++ +FG+ + +M++VFT +DL +L DY+ + L+E++
Sbjct: 116 GRFTAQDQQAVRQVRDMFGEDVLKWMVIVFTRKEDLAGG--SLHDYVSNTENRALRELVA 173
Query: 61 LCDHRCVLFDNKTKYKVKRTEQVQQLLSLVNAVNVKNGGQPYTNEFFAELKVESKLKETT 120
C R FDN+ + ++ QV QLL +V + +++ G Y+NE + EL +
Sbjct: 174 ECGGRVCAFDNRATGR-EQEAQVVQLLGMVEGLVLEHKGAHYSNEVY-ELAQVLRWAGPE 231
Query: 121 TKLEQQLAEEQAARLK 136
+L +++AE AAR++
Sbjct: 232 ERL-RRVAERVAARVQ 246
>pdb|2XTO|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
pdb|2XTO|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
Length = 240
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 58/108 (53%), Gaps = 3/108 (2%)
Query: 1 SRFSQEEEAAVHHLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILK 60
R++ +++ A ++ +FG+ + IV+FT +DL N +L DY+ K L +++
Sbjct: 96 GRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDL--NGGSLMDYMHDSDNKALSKLVA 153
Query: 61 LCDHRCVLFDNKTKYKVKRTEQVQQLLSLVNAVNVKNGGQPYTNEFFA 108
C R F+N+ + + +QV++L+ + + ++ G YTN ++
Sbjct: 154 ACGGRICAFNNRAE-GSNQDDQVKELMDCIEDLLMEKNGDHYTNGLYS 200
>pdb|3P1J|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|B Chain B, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|C Chain C, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|D Chain D, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
Length = 209
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 58/108 (53%), Gaps = 3/108 (2%)
Query: 1 SRFSQEEEAAVHHLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILK 60
R++ +++ A ++ +FG+ + IV+FT +DL N +L DY+ K L +++
Sbjct: 99 GRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDL--NGGSLMDYMHDSDNKALSKLVA 156
Query: 61 LCDHRCVLFDNKTKYKVKRTEQVQQLLSLVNAVNVKNGGQPYTNEFFA 108
C R F+N+ + + +QV++L+ + + ++ G YTN ++
Sbjct: 157 ACGGRICAFNNRAE-GSNQDDQVKELMDCIEDLLMEKNGDHYTNGLYS 203
>pdb|2XTM|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTM|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTN|A Chain A, Crystal Structure Of Gtp-Bound Human Gimap2, Amino Acid
Residues 1-234
Length = 234
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 58/108 (53%), Gaps = 3/108 (2%)
Query: 1 SRFSQEEEAAVHHLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILK 60
R++ +++ A ++ +FG+ + IV+FT +DL N +L DY+ K L +++
Sbjct: 116 GRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDL--NGGSLMDYMHDSDNKALSKLVA 173
Query: 61 LCDHRCVLFDNKTKYKVKRTEQVQQLLSLVNAVNVKNGGQPYTNEFFA 108
C R F+N+ + + +QV++L+ + + ++ G YTN ++
Sbjct: 174 ACGGRICAFNNRAE-GSNQDDQVKELMDCIEDLLMEKNGDHYTNGLYS 220
>pdb|2XTP|A Chain A, Crystal Structure Of Nucleotide-Free Human Gimap2, Amino
Acid Residues 1-260
Length = 260
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 55/108 (50%), Gaps = 3/108 (2%)
Query: 1 SRFSQEEEAAVHHLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILK 60
R++ +++ A ++ +FG+ + IV+FT +DL N +L DY K L +++
Sbjct: 116 GRYTSQDQQAAQRVKEIFGEDAXGHTIVLFTHKEDL--NGGSLXDYXHDSDNKALSKLVA 173
Query: 61 LCDHRCVLFDNKTKYKVKRTEQVQQLLSLVNAVNVKNGGQPYTNEFFA 108
C R F+N+ + + +QV++L + + + G YTN ++
Sbjct: 174 ACGGRICAFNNRAE-GSNQDDQVKELXDCIEDLLXEKNGDHYTNGLYS 220
>pdb|3LXX|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 4
Length = 239
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 53/107 (49%), Gaps = 4/107 (3%)
Query: 1 SRFSQEEEAAVHHLQTLFGKKIFDYMIVVFTGGDDLEDNEKTLEDYLGLECPKPLKEILK 60
R+++EE A + FG++ + I++FT DDL D L DYL E P+ ++++
Sbjct: 123 GRYTEEEHKATEKILKXFGERARSFXILIFTRKDDLGDT--NLHDYL-REAPEDIQDLXD 179
Query: 61 LCDHRCVLFDNKTKYKVKRTEQVQQLLSLVNAVNVKNGGQPYTNEFF 107
+ R +NK ++ Q QLL L+ V +N YTN +
Sbjct: 180 IFGDRYCALNNKAT-GAEQEAQRAQLLGLIQRVVRENKEGCYTNRXY 225
>pdb|3ISM|C Chain C, Crystal Structure Of The EndogENDOGI COMPLEX: MECHANISM OF
ENDOG Inhibition
Length = 359
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 38/142 (26%), Positives = 59/142 (41%), Gaps = 18/142 (12%)
Query: 103 TNEFFAELKVESKLKE---------TTTKLEQQLAEEQAARLKGEEAAQLAQRKSNDEIR 153
T F A LKV + L+E T +L+ + AA L GE A L + +E R
Sbjct: 164 TAPFAASLKVRAALEEQASLDQDGPATPTTPGELSADDAAALSGEFEATLTKENPLEEYR 223
Query: 154 KLKENLKRAQREIEDQMHESNEYQIKRIT----EMVESNLKETTTRLE-QQLAEEQVARL 208
L + + + D +H+++ +K+I E++ L + T E Q A E +
Sbjct: 224 TLMKRFVLTKIIVPDSVHQAS---VKKIAAAAREIIWKLLFDGTPSAEDQNKAAELLQEY 280
Query: 209 KGEEVAQVAQRKSNDKIHKLRD 230
KG + N I LRD
Sbjct: 281 KG-DAGFYGPDDYNSWIFNLRD 301
>pdb|2DFS|A Chain A, 3-D Structure Of Myosin-V Inhibited State
pdb|2DFS|M Chain M, 3-D Structure Of Myosin-V Inhibited State
Length = 1080
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 49/93 (52%), Gaps = 7/93 (7%)
Query: 116 LKETTTKLEQQLAEEQAARLKGEEAAQLAQRKSNDEIRKLKEN---LKRAQREIEDQMHE 172
L+E KL ++L + Q + EE A + ++ + +LKE LK + E+ ++H+
Sbjct: 989 LQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHD 1048
Query: 173 SNEYQIKRITEMVESNLKETTTRLEQQLAEEQV 205
Q K ITE +E L E T +LE L +E++
Sbjct: 1049 ----QAKEITETMEKKLVEETKQLELDLNDERL 1077
>pdb|2VUG|A Chain A, The Structure Of An Archaeal Homodimeric Rna Ligase
pdb|2VUG|B Chain B, The Structure Of An Archaeal Homodimeric Rna Ligase
Length = 389
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 5/72 (6%)
Query: 183 EMVESNLKETTTRLEQQLAEEQVARLKGEEVAQVAQRKSNDKIHKLRDNLESAQRETEDQ 242
E+ +RL LAE+ R+KGEE +VA+ + + +++ E E+
Sbjct: 268 ELPPGYFTSRISRLAFYLAEK---RIKGEEFERVAKELGSALLQPFVESIFDV--EQEED 322
Query: 243 MHESYEDQIKRI 254
+HE ++ ++KRI
Sbjct: 323 IHELFKVRVKRI 334
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
0.313 0.129 0.344
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,133,680
Number of Sequences: 62578
Number of extensions: 267967
Number of successful extensions: 1063
Number of sequences better than 100.0: 109
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 98
Number of HSP's that attempted gapping in prelim test: 986
Number of HSP's gapped (non-prelim): 162
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)