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= 024892
(261 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WSS|S Chain S, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|W Chain W, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
Length = 190
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 39/170 (22%), Positives = 78/170 (45%), Gaps = 6/170 (3%)
Query: 54 YAIALVDLAKANNTLESTSADVEKIEKIFSEKQIHEFFVNPTIDIEKKREMVDEICKSSA 113
YA AL A N LE ++ ++ +I E + +NP + K + + +
Sbjct: 18 YATALYSAASKQNKLEQVEKELLRVGQILKEPKXAASLLNPYVKRSVKVKSLSDXTAKEK 77
Query: 114 LQPLTGNFLNILIDAKRVDVVKDIVKEFEEVYNKMTNTEMAVVSSVVKLESEHLAQIAKQ 173
PLT N +N+L + R+ ++ F + V++ L+ L ++ K
Sbjct: 78 FSPLTSNLINLLAENGRLTNTPAVISAFSTXXSVHRGEVPCTVTTASALDETTLTEL-KT 136
Query: 174 VQK--LTGAKNVRIKTVIDPSLVAGFTIRYGKWGSKLIDMSVKKQLEEIA 221
V K L+ + ++++ IDPS+ G +R G+ K +D S K ++++++
Sbjct: 137 VLKSFLSKGQVLKLEVKIDPSIXGGXIVRIGE---KYVDXSAKTKIQKLS 183
>pdb|2BO5|A Chain A, Bovine Oligomycin Sensitivity Conferral Protein N-Terminal
Domain
pdb|2JMX|A Chain A, Oscp-Nt (1-120) In Complex With N-Terminal (1-25) Alpha
Subunit From F1-Atpase
pdb|4B2Q|W Chain W, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|WW Chain w, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 120
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/88 (23%), Positives = 40/88 (45%)
Query: 54 YAIALVDLAKANNTLESTSADVEKIEKIFSEKQIHEFFVNPTIDIEKKREMVDEICKSSA 113
YA AL A N LE ++ ++ +I E ++ +NP + K + + ++
Sbjct: 18 YATALYSAASKQNKLEQVEKELLRVGQILKEPKMAASLLNPYVKRSVKVKSLSDMTAKEK 77
Query: 114 LQPLTGNFLNILIDAKRVDVVKDIVKEF 141
PLT N +N+L + R+ ++ F
Sbjct: 78 FSPLTSNLINLLAENGRLTNTPAVISAF 105
>pdb|4FQX|D Chain D, Crystal Structure Of Hla-Dm Bound To Hla-Dr1
pdb|4GBX|D Chain D, Crystal Structure Of An Immune Complex At Ph 6.5
Length = 199
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 135 KDIVKEFEEVYNKMTNTEMAVVSSVVKLESEHLAQIAKQVQKL-TGAKNVRIKT 187
KD++ ++ NKM +E V++S+ + S+HL Q +Q+L G +N T
Sbjct: 30 KDLLTCWDPEENKMAPSEFGVLNSLANVLSQHLNQKDTLMQRLRNGLQNCATHT 83
>pdb|2BC4|B Chain B, Crystal Structure Of Hla-Dm
pdb|2BC4|D Chain D, Crystal Structure Of Hla-Dm
Length = 211
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 135 KDIVKEFEEVYNKMTNTEMAVVSSVVKLESEHLAQIAKQVQKL-TGAKNVRIKT 187
KD++ ++ NKM E V++S+ + S+HL Q +Q+L G +N T
Sbjct: 30 KDLLTCWDPEENKMAPCEFGVLNSLANVLSQHLNQKDTLMQRLRNGLQNCATHT 83
>pdb|4I0P|B Chain B, Hla-do In Complex With Hla-dm
pdb|4I0P|F Chain F, Hla-do In Complex With Hla-dm
Length = 191
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 135 KDIVKEFEEVYNKMTNTEMAVVSSVVKLESEHLAQIAKQVQKL-TGAKNVRIKT 187
KD++ ++ NKM E V++S+ + S+HL Q +Q+L G +N T
Sbjct: 28 KDLLTCWDPEENKMAPCEFGVLNSLANVLSQHLNQKDTLMQRLRNGLQNCATHT 81
>pdb|3C98|B Chain B, Revised Structure Of The Munc18a-Syntaxin1 Complex
Length = 279
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 49/97 (50%), Gaps = 12/97 (12%)
Query: 12 LQSNLFPSGRAASRNPLSATIPSGPRRRGAHGIRMSATVATSYAIALVDLAKANNTLEST 71
+Q L +GR + L + SG A GI M ++++ +A + +E+
Sbjct: 161 IQRQLEITGRTTTSEELEDMLESGNPAIFASGIIMDSSIS----------KQALSEIETR 210
Query: 72 SADVEKIEKIFSEKQIHEFFVNPTIDIEKKREMVDEI 108
+++ K+E S +++H+ F++ + +E + EM+D I
Sbjct: 211 HSEIIKLEN--SIRELHDMFMDMAMLVESQGEMIDRI 245
>pdb|1L4A|B Chain B, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 88
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 27/41 (65%), Gaps = 2/41 (4%)
Query: 68 LESTSADVEKIEKIFSEKQIHEFFVNPTIDIEKKREMVDEI 108
+E+ AD+ K+E S +++H+ F++ + +E + EM+D I
Sbjct: 21 IEARHADIMKLET--SIRELHDMFMDMAMLVESQGEMIDRI 59
>pdb|1UF2|A Chain A, The Atomic Structure Of Rice Dwarf Virus (Rdv)
pdb|1UF2|B Chain B, The Atomic Structure Of Rice Dwarf Virus (Rdv)
Length = 1019
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 39/85 (45%), Gaps = 3/85 (3%)
Query: 66 NTLESTSADVEKIEKIFSE-KQIHEFFVNPTIDIEKKREMVDEICKSSALQPLTGNFLNI 124
N L AD+ +E++F ++I V ID+ K + + S +P NFL
Sbjct: 684 NKLGRNPADIFHLEEVFKVIEEIVSVLVQQKIDVRKY--FTESMRSGSFSKPRWDNFLRR 741
Query: 125 LIDAKRVDVVKDIVKEFEEVYNKMT 149
+ + ++ I+ + + VYN MT
Sbjct: 742 PVAQRLPNLYSVIMTQADHVYNYMT 766
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 0.130 0.353
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,483,386
Number of Sequences: 62578
Number of extensions: 230494
Number of successful extensions: 765
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 756
Number of HSP's gapped (non-prelim): 30
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)