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= 036925
(639 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EZV|A Chain A, Structure Of The Yeast Cytochrome Bc1 Complex Co-
Crystallized With An Antibody Fv-Fragment
pdb|1KYO|A Chain A, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KYO|L Chain L, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
Length = 430
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 56/115 (48%), Gaps = 10/115 (8%)
Query: 59 HSPVAASSYINVAPNFSPTLKVSAIPPPLPQSSSKQVKPIWE--VPQTKRLPSLKSFQLT 116
+S VAA + ++ N S + S I LP S+ K + + + + Q L S +F+ T
Sbjct: 55 NSAVAAKEGLALSSNISRDFQ-SYIVSSLPGSTDKSLDFLNQSFIQQKANLLSSSNFEAT 113
Query: 117 KELVEQRVQD-------NIIIMTFGNYAFMDFILNWVQRLTDLGLSNILVGALDT 164
K+ V ++VQD N ++ + AF + L+ R T L N++V L++
Sbjct: 114 KKSVLKQVQDFEDNDHPNRVLEHLHSTAFQNTPLSLPTRGTLESLENLVVADLES 168
>pdb|1KB9|A Chain A, Yeast Cytochrome Bc1 Complex
pdb|1P84|A Chain A, Hdbt Inhibited Yeast Cytochrome Bc1 Complex
pdb|2IBZ|A Chain A, Yeast Cytochrome Bc1 Complex With Stigmatellin
pdb|3CX5|A Chain A, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core Interface
For Electron Transfer.
pdb|3CX5|L Chain L, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core Interface
For Electron Transfer.
pdb|3CXH|A Chain A, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome C
Bound And Definition Of A Minimal Core Interface For
Electron Transfer.
pdb|3CXH|L Chain L, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome C
Bound And Definition Of A Minimal Core Interface For
Electron Transfer
Length = 431
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 56/115 (48%), Gaps = 10/115 (8%)
Query: 59 HSPVAASSYINVAPNFSPTLKVSAIPPPLPQSSSKQVKPIWE--VPQTKRLPSLKSFQLT 116
+S VAA + ++ N S + S I LP S+ K + + + + Q L S +F+ T
Sbjct: 56 NSAVAAKEGLALSSNISRDFQ-SYIVSSLPGSTDKSLDFLNQSFIQQKANLLSSSNFEAT 114
Query: 117 KELVEQRVQD-------NIIIMTFGNYAFMDFILNWVQRLTDLGLSNILVGALDT 164
K+ V ++VQD N ++ + AF + L+ R T L N++V L++
Sbjct: 115 KKSVLKQVQDFEDNDHPNRVLEHLHSTAFQNTPLSLPTRGTLESLENLVVADLES 169
>pdb|2FLI|A Chain A, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|B Chain B, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|C Chain C, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|D Chain D, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|E Chain E, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|F Chain F, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|G Chain G, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|H Chain H, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|I Chain I, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|J Chain J, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|K Chain K, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
pdb|2FLI|L Chain L, The Crystal Structure Of D-Ribulose 5-Phosphate
3-Epimerase From Streptococus Pyogenes Complexed With
D-Xylitol 5- Phosphate
Length = 220
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 36/69 (52%), Gaps = 10/69 (14%)
Query: 126 DNIIIMT----FGNYAFMDFILNWVQRLT----DLGLS-NILV-GALDTKLVKALYWKGV 175
D ++IMT FG AF+ L V + + GLS +I V G +D K ++A Y G
Sbjct: 133 DQVLIMTVNPGFGGQAFIPECLEKVATVAKWRDEKGLSFDIEVDGGVDNKTIRACYEAGA 192
Query: 176 PVFDMGSHM 184
VF GS++
Sbjct: 193 NVFVAGSYL 201
>pdb|3E6G|A Chain A, Crystal Structure Of Xometc, A Cystathionine C-Lyase-Like
Protein From Xanthomonas Oryzae Pv.Oryzae
pdb|3E6G|B Chain B, Crystal Structure Of Xometc, A Cystathionine C-Lyase-Like
Protein From Xanthomonas Oryzae Pv.Oryzae
pdb|3E6G|C Chain C, Crystal Structure Of Xometc, A Cystathionine C-Lyase-Like
Protein From Xanthomonas Oryzae Pv.Oryzae
pdb|3E6G|D Chain D, Crystal Structure Of Xometc, A Cystathionine C-Lyase-Like
Protein From Xanthomonas Oryzae Pv.Oryzae
pdb|3NNP|A Chain A, Native Structure Of Xometc, A Cystathionine C-Lyase
Protein From Xanthomonas Oryzae Pv.Oryzae, At Ph 5.2
pdb|3NNP|B Chain B, Native Structure Of Xometc, A Cystathionine C-Lyase
Protein From Xanthomonas Oryzae Pv.Oryzae, At Ph 5.2
pdb|3NMY|A Chain A, Native Structure Of Xometc At Ph 9.0
pdb|3NMY|B Chain B, Native Structure Of Xometc At Ph 9.0
pdb|3NMY|C Chain C, Native Structure Of Xometc At Ph 9.0
pdb|3NMY|D Chain D, Native Structure Of Xometc At Ph 9.0
Length = 400
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 41/89 (46%), Gaps = 9/89 (10%)
Query: 177 VFDMGSHMSTMDVGWGSP--TFHKMGREKAIL----IDSVLPFGFEL-LMCDTDMVWLKN 229
+ D GSH+ MD +G F ++ R A L +D P F+ + DT MVW++
Sbjct: 101 LLDAGSHVVAMDDLYGGTFRLFERVRRRTAGLDFSFVDLTDPAAFKAAIRADTKMVWIET 160
Query: 230 PLPYFARYPD--ADILTSSDQVVPTVVDD 256
P + D A + + + TVVD+
Sbjct: 161 PTNPMLKLVDIAAIAVIARKHGLLTVVDN 189
>pdb|3PVL|A Chain A, Structure Of Myosin Viia Myth4-Ferm-Sh3 In Complex With
The Cen1 Of Sans
Length = 655
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 28/58 (48%), Gaps = 8/58 (13%)
Query: 233 YFARYPDADILTSSDQVVPTVVDDR-------LDIWQQVG-AAYNVGIFHWRPTESAK 282
YF Y IL +VPT + DR L+ W Q+ AA+ GI+ R T+S K
Sbjct: 402 YFVDYGSEMILERLLSLVPTYIPDREITPLKNLEKWAQLAIAAHKKGIYAQRRTDSQK 459
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
0.322 0.138 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,235,872
Number of Sequences: 62578
Number of extensions: 781285
Number of successful extensions: 1686
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1686
Number of HSP's gapped (non-prelim): 6
length of query: 639
length of database: 14,973,337
effective HSP length: 105
effective length of query: 534
effective length of database: 8,402,647
effective search space: 4487013498
effective search space used: 4487013498
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)