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= psy11662
(346 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XFI|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At2g17340
pdb|2Q40|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At2g17340
Length = 367
Score = 136 bits (342), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 69/144 (47%), Positives = 100/144 (69%), Gaps = 1/144 (0%)
Query: 200 KAAIFVDNSGIDIVLGILPFARELLRRGTKVILCANSAPALNDVTYSELVVLLRQAATVC 259
KA IFVDNSG DI+LGILPFARELLRRG +V+L AN P++ND+T +EL +L Q
Sbjct: 214 KAVIFVDNSGADIILGILPFARELLRRGAQVVLAANELPSINDITCTELTEILSQLKDEN 273
Query: 260 HIIANALSSGRLVAMETAQAGPCLDLSRLGRDLATELSSIDLIVLEGMGRTVHTNLNAKF 319
+ +S L+A + P +DLSR+ ++LA S DL+++EGMGR + TNL A+F
Sbjct: 274 GQLLGVDTSKLLIA-NSGNDLPVIDLSRVSQELAYLSSDADLVIVEGMGRGIETNLYAQF 332
Query: 320 TCESLKLAVIKNRWLAQRLGGQMF 343
C+SLK+ ++K+ +A+ LGG+++
Sbjct: 333 KCDSLKIGMVKHLEVAEFLGGRLY 356
>pdb|2ZO6|A Chain A, Crystal Structure Of Kusabira-Cyan (Kcy), A Cyan-Emitting
Gfp-Like Protein
Length = 252
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 1/87 (1%)
Query: 44 KFREKYFAERAIASQPHSTTGEERATKFREKYVSRLHHLKQHPLLFCFDYDFSAYGNLTV 103
+ + KYF + ++ + GE + K+ L K PL F FD + + N +
Sbjct: 38 EMKMKYFMDGSVNGHEFTVEGEGTGKPYEGKHKITLDVTKGGPLPFAFDLLSTVFXNRCL 97
Query: 104 RSLLDTIEHYLKEFDFPDPYLEFVKFE 130
D I Y K+ FP Y KFE
Sbjct: 98 TKYPDDIPDYFKQC-FPGGYSWERKFE 123
>pdb|2ZO7|A Chain A, Crystal Structure Of A Kusabira-Cyan Mutant (Kcy-R1), A
CyanGREEN- Emitting Gfp-Like Protein
Length = 222
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 27/128 (21%), Positives = 46/128 (35%), Gaps = 14/128 (10%)
Query: 44 KFREKYFAERAIASQPHSTTGEERATKFREKYVSRLHHLKQHPLLFCFDYDFSAYGNLTV 103
+ + +Y+ + ++ + GE + K L K PL F FD + + N +
Sbjct: 11 EMKMRYYMDGSVNGHEFTVEGEGTGRPYEGKQKITLDVTKGGPLPFAFDLLSTVFXNRAL 70
Query: 104 RSLLDTIEHYLKE-----------FDFPDPYLEFVKFETKYIADCLDF---IAANLINSI 149
D I Y K+ F+F D L K E +C + I +S
Sbjct: 71 TKYPDDIPDYFKQCFPGGYSWERKFEFEDGGLAIAKAEISLKGNCFEHKSTIEGTFPDSS 130
Query: 150 ECMDGKSI 157
M K++
Sbjct: 131 PIMQNKTL 138
>pdb|2XVT|A Chain A, Structure Of The Extracellular Domain Of Human Ramp2
pdb|2XVT|B Chain B, Structure Of The Extracellular Domain Of Human Ramp2
pdb|2XVT|C Chain C, Structure Of The Extracellular Domain Of Human Ramp2
pdb|2XVT|D Chain D, Structure Of The Extracellular Domain Of Human Ramp2
pdb|2XVT|E Chain E, Structure Of The Extracellular Domain Of Human Ramp2
pdb|2XVT|F Chain F, Structure Of The Extracellular Domain Of Human Ramp2
Length = 94
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 105 SLLDTIEHYLKEFD--FPDPYLEFVKFETKYI--ADC 137
+L D +EH+ + FD FP+P E + FET I A+C
Sbjct: 50 TLRDCLEHFAELFDLGFPNPLAERIIFETHQIHFANC 86
>pdb|3AQF|A Chain A, Crystal Structure Of The Human CrlrRAMP2 EXTRACELLULAR
COMPLEX
pdb|3AQE|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
Ramp2
pdb|3AQE|B Chain B, Crystal Structure Of The Extracellular Domain Of Human
Ramp2
pdb|3AQE|C Chain C, Crystal Structure Of The Extracellular Domain Of Human
Ramp2
pdb|3AQE|D Chain D, Crystal Structure Of The Extracellular Domain Of Human
Ramp2
pdb|3AQE|E Chain E, Crystal Structure Of The Extracellular Domain Of Human
Ramp2
pdb|3AQE|F Chain F, Crystal Structure Of The Extracellular Domain Of Human
Ramp2
Length = 91
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 4/37 (10%)
Query: 105 SLLDTIEHYLKEFD--FPDPYLEFVKFETKYI--ADC 137
+L D +EH+ + FD FP+P E + FET I A+C
Sbjct: 47 TLRDCLEHFAELFDLGFPNPLAERIIFETHQIHFANC 83
>pdb|3UBM|A Chain A, Formyl-Coa:oxalate Coa-Transferase From Acetobacter Aceti
pdb|3UBM|B Chain B, Formyl-Coa:oxalate Coa-Transferase From Acetobacter Aceti
pdb|3UBM|C Chain C, Formyl-Coa:oxalate Coa-Transferase From Acetobacter Aceti
pdb|3UBM|D Chain D, Formyl-Coa:oxalate Coa-Transferase From Acetobacter Aceti
Length = 456
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 193 NNGPPHSKAAIFVDNSGIDIVLGILP--FARELLRRGTKVILCANSA 237
NNGP S AA+ N+G +++G+L F RE +G K+ + A
Sbjct: 196 NNGPLVSAAALGDSNTGNHLLIGVLAALFGRERTGKGQKISVSMQDA 242
>pdb|4AIB|A Chain A, Crystal Structure Of Ornithine Decarboxylase From
Entamoeba Histolytica.
pdb|4AIB|B Chain B, Crystal Structure Of Ornithine Decarboxylase From
Entamoeba Histolytica.
pdb|4AIB|C Chain C, Crystal Structure Of Ornithine Decarboxylase From
Entamoeba Histolytica.
pdb|4AIB|D Chain D, Crystal Structure Of Ornithine Decarboxylase From
Entamoeba Histolytica
Length = 395
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 109 TIEHYLKEFDFPDPYLEFVKFETKYIADCLDFIAANLINSIECMDGKSIKATGG 162
TIE +KE +FP+ T++IA+ ++A+N + + + GK ++ G
Sbjct: 238 TIEKTIKELEFPE--------RTRFIAEPGRYMASNAFHLVSSLHGKRVRIQNG 283
>pdb|3LKK|A Chain A, Crystal Structure Of The Isopentenyl Phosphate Kinase
Substr Complex
pdb|3LKK|B Chain B, Crystal Structure Of The Isopentenyl Phosphate Kinase
Substr Complex
Length = 249
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/91 (23%), Positives = 40/91 (43%), Gaps = 1/91 (1%)
Query: 218 PFARELLRRGTKVILCANSAPALNDVTYSELVVLLRQAATVCHIIANALSSGRLVAMETA 277
PF +L+ G VI ++ +V +L + ++ S G + AME
Sbjct: 2 PFTMMILKIGGSVITDKSAYRTARTYAIRSIVKVLSGIEDLVCVVHGGGSFGHIKAMEFG 61
Query: 278 QAGPCLDLSRLGRDLA-TELSSIDLIVLEGM 307
GP S +G + ++ ++DL+V++ M
Sbjct: 62 LPGPKNPRSSIGYSIVHRDMENLDLMVIDAM 92
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
0.321 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,165,543
Number of Sequences: 62578
Number of extensions: 341317
Number of successful extensions: 801
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 796
Number of HSP's gapped (non-prelim): 12
length of query: 346
length of database: 14,973,337
effective HSP length: 100
effective length of query: 246
effective length of database: 8,715,537
effective search space: 2144022102
effective search space used: 2144022102
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: 52 (24.6 bits)