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= 025029
(259 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VR6|G Chain G, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae
V1-atpase [bv1]
Length = 217
Score = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 67/207 (32%), Positives = 107/207 (51%), Gaps = 7/207 (3%)
Query: 6 RLTVVPTVTMLGVMKSRLVGATRGHALLKKKSDALTVQFRQILKNIVTTKESMGEVMKDS 65
RL V PT L +K +L ATRGH LLK K D L QF +++ ++++ + + +
Sbjct: 9 RLNVNPTRMELTRLKKQLTTATRGHKLLKDKQDELMRQFILLIRKNNELRQAIEKETQTA 68
Query: 66 SFALIEAKYVAGEN-IKHIVLENVQNASIKVRSRQENIAGVKIPKFEYFTDGETKNDLT- 123
+ AK E I ++ +N SI V + NI VK+P + D ET N+
Sbjct: 69 MKDFVLAKSTVEEAFIDELLALPAENVSISVVEK--NIMSVKVPLMNFQYD-ETLNETPL 125
Query: 124 --GLARGGQQVQQCRAAYVKAIELLVELASLQTSFLTLDEAIKTTNRRVNALENVVKPRL 181
G ++ + + + + L++LA ++ + + E I+ T RRVNALE + P+L
Sbjct: 126 EYGYLHSNAELDRSIDGFTQLLPKLLKLAEVEKTCQLMAEEIEKTRRRVNALEYMTIPQL 185
Query: 182 ENTITYIKGELDELEREDFFRLKKIQG 208
E TI YIK +L+E ER + RL K++
Sbjct: 186 EETIYYIKMKLEENERAEVTRLIKVKN 212
>pdb|3AON|A Chain A, Crystal Structure Of The Central Axis (Ntpd-Ntpg) In The
Catalytic Portion Of Enterococcus Hirae V-Type Sodium
Atpase
pdb|3VR4|G Chain G, Crystal Structure Of Enterococcus Hirae V1-atpase [ev1]
pdb|3VR5|G Chain G, Crystal Structure Of Nucleotide-free Enterococcus Hirae
V1-atpase [ev1(l)]
Length = 217
Score = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 68/209 (32%), Positives = 106/209 (50%), Gaps = 11/209 (5%)
Query: 6 RLTVVPTVTMLGVMKSRLVGATRGHALLKKKSDALTVQFRQILKNIVTTKESMGEVMKDS 65
RL V PT L +K +L ATRGH LLK K D L QF +++ ++++ + + +
Sbjct: 9 RLNVNPTRXELTRLKKQLTTATRGHKLLKDKQDELXRQFILLIRKNNELRQAIEKETQTA 68
Query: 66 SFALIEAKYVAGEN-IKHIVLENVQNASIKVRSRQENIAGVKIP--KFEYFTDGETKNDL 122
+ AK E I ++ +N SI V + NI VK+P F+Y ET N+
Sbjct: 69 XKDFVLAKSTVEEAFIDELLALPAENVSISVVEK--NIXSVKVPLXNFQY---DETLNET 123
Query: 123 T---GLARGGQQVQQCRAAYVKAIELLVELASLQTSFLTLDEAIKTTNRRVNALENVVKP 179
G ++ + + + + L++LA ++ + E I+ T RRVNALE P
Sbjct: 124 PLEYGYLHSNAELDRSIDGFTQLLPKLLKLAEVEKTCQLXAEEIEKTRRRVNALEYXTIP 183
Query: 180 RLENTITYIKGELDELEREDFFRLKKIQG 208
+LE TI YIK +L+E ER + RL K++
Sbjct: 184 QLEETIYYIKXKLEENERAEVTRLIKVKN 212
>pdb|3A5C|G Chain G, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|O Chain O, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|G Chain G, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|O Chain O, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3J0J|G Chain G, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
Length = 223
Score = 78.2 bits (191), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 67/207 (32%), Positives = 109/207 (52%), Gaps = 18/207 (8%)
Query: 9 VVPTVTMLGVMKSRLVGATRGHALLKKKSDALTVQFRQILKNIVTTKESMGEVMKDSSFA 68
V PT L + +L A +G LLKKK DAL +F +++ + ++++ + K++ A
Sbjct: 4 VSPTRMNLLQRRGQLRLAQKGVDLLKKKRDALVAEFFGLVREAMEARKALDQAAKEAYAA 63
Query: 69 LIE------AKYVAGENIKHIVLENVQNASIKVRSRQENIAGVKIPKFEY-FTDGETKND 121
L+ + VAG + LE V+ + EN+ G K+P+ + F DG
Sbjct: 64 LLLAQAFDGPEVVAGAALGVPPLEGVE-------AEVENVWGSKVPRLKATFPDGAL--- 113
Query: 122 LTGLARGGQQVQQCRAAYVKAIELLVELASLQTSFLTLDEAIKTTNRRVNALENVVKPRL 181
L+ + ++ RA + + E L+ +A+ +T + E IK T RRVNALE VV P +
Sbjct: 114 LSPVGTPAYTLEASRA-FRRYAEALIRVANTETRLKKIGEEIKKTTRRVNALEQVVIPGI 172
Query: 182 ENTITYIKGELDELEREDFFRLKKIQG 208
I +I+ L++ ERED FRLK+I+G
Sbjct: 173 RAQIRFIQQVLEQREREDTFRLKRIKG 199
>pdb|1W98|B Chain B, The Structural Basis Of Cdk2 Activation By Cyclin E
Length = 283
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 73 KYVAG-ENIKHIVLENVQNASIKVRSRQENIAGVKIPKFEYFTDGETKND 121
+Y+A EN+ +L+ + +S+ + ++ E I K+ +F Y TDG D
Sbjct: 80 RYMATQENVVKTLLQLIGISSLFIAAKLEEIYPPKLHQFAYVTDGACSGD 129
>pdb|3OQO|A Chain A, Ccpa-Hpr-Ser46p-Syn Cre
pdb|3OQO|C Chain C, Ccpa-Hpr-Ser46p-Syn Cre
Length = 339
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 185 ITYIKGELDELEREDFFRLKKIQGYKKREIERQLASSKQFVEE 227
I ++ G + E R KK+QGYK+ E L ++QFV E
Sbjct: 180 IAFVSGPM----AEPINRSKKLQGYKRALEEANLPFNEQFVAE 218
>pdb|3OQM|A Chain A, Structure Of Ccpa-Hpr-Ser46p-Acka2 Complex
pdb|3OQM|C Chain C, Structure Of Ccpa-Hpr-Ser46p-Acka2 Complex
pdb|3OQN|A Chain A, Structure Of Ccpa-Hpr-Ser46-P-Gntr-Down Cre
pdb|3OQN|C Chain C, Structure Of Ccpa-Hpr-Ser46-P-Gntr-Down Cre
Length = 339
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 185 ITYIKGELDELEREDFFRLKKIQGYKKREIERQLASSKQFVEE 227
I ++ G + E R KK+QGYK+ E L ++QFV E
Sbjct: 180 IAFVSGPM----AEPINRSKKLQGYKRALEEANLPFNEQFVAE 218
>pdb|2FEP|A Chain A, Structure Of Truncated Ccpa In Complex With P-Ser-Hpr And
Sulfate Ions
Length = 289
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 185 ITYIKGELDELEREDFFRLKKIQGYKKREIERQLASSKQFVEE 227
I ++ G + E R KK+QGYK+ E L ++QFV E
Sbjct: 136 IAFVSGPM----AEPINRSKKLQGYKRALEEANLPFNEQFVAE 174
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
0.315 0.131 0.341
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,165,483
Number of Sequences: 62578
Number of extensions: 222793
Number of successful extensions: 779
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 767
Number of HSP's gapped (non-prelim): 25
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
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: 50 (23.9 bits)