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= psy10860
(91 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z2W|A Chain A, Crystal Structure Of Mouse Vps29 Complexed With Mn2+
pdb|1Z2W|B Chain B, Crystal Structure Of Mouse Vps29 Complexed With Mn2+
pdb|1Z2X|A Chain A, Crystal Structure Of Mouse Vps29
pdb|1Z2X|B Chain B, Crystal Structure Of Mouse Vps29
pdb|3PSN|A Chain A, Crystal Structure Of Mouse Vps29 Complexed With Mn2+
pdb|3PSN|B Chain B, Crystal Structure Of Mouse Vps29 Complexed With Mn2+
pdb|3PSO|A Chain A, Crystal Structure Of Mouse Vps29 Complexed With Zn2+
pdb|3PSO|B Chain B, Crystal Structure Of Mouse Vps29 Complexed With Zn2+
Length = 192
Score = 139 bits (351), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 63/76 (82%), Positives = 70/76 (92%)
Query: 5 SYPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENK 64
+YPE+KVVTVGQF+IGL HGH +IPWGD +LALLQRQ DVDILISGHTHKFEA+EHENK
Sbjct: 78 NYPEQKVVTVGQFKIGLIHGHQVIPWGDMASLALLQRQFDVDILISGHTHKFEAFEHENK 137
Query: 65 FYINPGSATGAFNPLE 80
FYINPGSATGA+N LE
Sbjct: 138 FYINPGSATGAYNALE 153
>pdb|1W24|A Chain A, Crystal Structure Of Human Vps29
Length = 182
Score = 139 bits (350), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 63/76 (82%), Positives = 70/76 (92%)
Query: 5 SYPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENK 64
+YPE+KVVTVGQF+IGL HGH +IPWGD +LALLQRQ DVDILISGHTHKFEA+EHENK
Sbjct: 68 NYPEQKVVTVGQFKIGLIHGHQVIPWGDMASLALLQRQFDVDILISGHTHKFEAFEHENK 127
Query: 65 FYINPGSATGAFNPLE 80
FYINPGSATGA+N LE
Sbjct: 128 FYINPGSATGAYNALE 143
>pdb|2R17|A Chain A, Functional Architecture Of The Retromer Cargo-Recognition
Complex
pdb|2R17|B Chain B, Functional Architecture Of The Retromer Cargo-Recognition
Complex
Length = 183
Score = 139 bits (349), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 63/76 (82%), Positives = 70/76 (92%)
Query: 5 SYPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENK 64
+YPE+KVVTVGQF+IGL HGH +IPWGD +LALLQRQ DVDILISGHTHKFEA+EHENK
Sbjct: 69 NYPEQKVVTVGQFKIGLIHGHQVIPWGDXASLALLQRQFDVDILISGHTHKFEAFEHENK 128
Query: 65 FYINPGSATGAFNPLE 80
FYINPGSATGA+N LE
Sbjct: 129 FYINPGSATGAYNALE 144
>pdb|2A22|A Chain A, Structure Of Vacuolar Protein Sorting 29 From
Cryptosporidium Parvum
pdb|2A22|B Chain B, Structure Of Vacuolar Protein Sorting 29 From
Cryptosporidium Parvum
Length = 215
Score = 98.6 bits (244), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 40/76 (52%), Positives = 56/76 (73%)
Query: 6 YPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENKF 65
+PE VV +G+F+IGL HG+ ++PW DP +L QR+LD DIL++GHTHK +E K
Sbjct: 103 FPEYVVVQIGEFKIGLMHGNQVLPWDDPGSLEQWQRRLDCDILVTGHTHKLRVFEKNGKL 162
Query: 66 YINPGSATGAFNPLEP 81
++NPG+ATGAF+ L P
Sbjct: 163 FLNPGTATGAFSALTP 178
>pdb|2KKN|A Chain A, Solution Nmr Structure Of Themotoga Maritima Protein
Tm1076: Northeast Structural Genomics Consortium Target
Vt57
Length = 178
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 39/80 (48%), Gaps = 13/80 (16%)
Query: 7 PEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDV-----DILISGHTHKFEAYEH 61
P KV+ V IG+CHG WG P L R L V +++ GHTH+ E
Sbjct: 93 PFSKVLLVEGVTIGMCHG-----WGAPWDLK--DRLLKVFNEKPQVILFGHTHEPEDTVK 145
Query: 62 ENKFYINPGS-ATGAFNPLE 80
++NPGS A G++ LE
Sbjct: 146 AGVRFLNPGSLAEGSYAVLE 165
>pdb|1SU1|A Chain A, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
pdb|1SU1|B Chain B, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
pdb|1SU1|C Chain C, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
pdb|1SU1|D Chain D, Structural And Biochemical Characterization Of Yfce, A
Phosphoesterase From E. Coli
Length = 208
Score = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 8/69 (11%)
Query: 5 SYPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENK 64
+ P ++V+ Q R+ L HGH PE L L + D+L+ GHTH A +
Sbjct: 112 TAPWQQVLLEKQ-RLFLTHGHLF----GPENLPALNQN---DVLVYGHTHLPVAEQRGEI 163
Query: 65 FYINPGSAT 73
F+ NPGS +
Sbjct: 164 FHFNPGSVS 172
>pdb|3CK2|A Chain A, Crystal Structure Of Conserved Uncharacterized Protein
(Predicted Phosphoesterase Cog0622) From Streptococcus
Pneumoniae Tigr4
Length = 176
Score = 32.0 bits (71), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 32/68 (47%)
Query: 6 YPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENKF 65
YPE+ V +G +I HGH + + L ++ + I + GH H A+
Sbjct: 67 YPERLVTELGSTKIIQTHGHLFDINFNFQKLDYWAQEEEAAICLYGHLHVPSAWLEGKIL 126
Query: 66 YINPGSAT 73
++NPGS +
Sbjct: 127 FLNPGSIS 134
>pdb|2EQ6|A Chain A, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8
pdb|2EQ6|B Chain B, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8
pdb|2EQ8|A Chain A, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdp
pdb|2EQ8|B Chain B, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdp
pdb|2EQ8|D Chain D, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdp
pdb|2EQ8|E Chain E, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdp
pdb|2EQ9|A Chain A, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
pdb|2EQ9|B Chain B, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
pdb|2EQ9|D Chain D, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
pdb|2EQ9|E Chain E, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
pdb|2EQ9|G Chain G, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
pdb|2EQ9|H Chain H, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
pdb|2EQ9|J Chain J, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
pdb|2EQ9|K Chain K, Crystal Structure Of Lipoamide Dehydrogenase From Thermus
Thermophilus Hb8 With Psbdb
Length = 464
Score = 27.7 bits (60), Expect = 1.5, Method: Composition-based stats.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 26 DIIPWGDPEALALLQRQLD 44
+I+P GDPE ALL+R L+
Sbjct: 203 EILPQGDPETAALLRRALE 221
>pdb|1S3L|A Chain A, Structural And Functional Characterization Of A Novel
Archaeal Phosphodiesterase
pdb|1S3L|B Chain B, Structural And Functional Characterization Of A Novel
Archaeal Phosphodiesterase
pdb|1S3M|A Chain A, Structural And Functional Characterization Of A Novel
Archaeal Phosphodiesterase
pdb|1S3M|B Chain B, Structural And Functional Characterization Of A Novel
Archaeal Phosphodiesterase
pdb|1S3N|A Chain A, Structural And Functional Characterization Of A Novel
Archaeal Phosphodiesterase
pdb|1S3N|B Chain B, Structural And Functional Characterization Of A Novel
Archaeal Phosphodiesterase
Length = 190
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 6/63 (9%)
Query: 12 VTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENKFYINPGS 71
V + + + HGH L + + D++I GHTH+ E ++ INPG
Sbjct: 111 VEIDDLKFFITHGHH------QSVLEMAIKSGLYDVVIYGHTHERVFEEVDDVLVINPGE 164
Query: 72 ATG 74
G
Sbjct: 165 CCG 167
>pdb|2AHD|A Chain A, The Apo Structure Of Methanococcus Jannaschii
Phosphodiesterase Mj0936
pdb|2AHD|B Chain B, The Apo Structure Of Methanococcus Jannaschii
Phosphodiesterase Mj0936
pdb|2AHD|C Chain C, The Apo Structure Of Methanococcus Jannaschii
Phosphodiesterase Mj0936
pdb|2AHD|D Chain D, The Apo Structure Of Methanococcus Jannaschii
Phosphodiesterase Mj0936
Length = 165
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 6/63 (9%)
Query: 12 VTVGQFRIGLCHGHDIIPWGDPEALALLQRQLDVDILISGHTHKFEAYEHENKFYINPGS 71
V + + + HGH L + + D++I GHTH+ E ++ INPG
Sbjct: 86 VEIDDLKFFITHGHH------QSVLEMAIKSGLYDVVIYGHTHERVFEEVDDVLVINPGE 139
Query: 72 ATG 74
G
Sbjct: 140 CCG 142
>pdb|1HFU|A Chain A, Type-2 Cu-Depleted Laccase From Coprinus Cinereus At 1.68
A Resolution
Length = 503
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 1 MKGTSYPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQ-RQLDVDILISGHTHKFEAY 59
+ GT+Y V T+ Q G +D++P G L Q +L V + G H F +
Sbjct: 342 INGTAYESPSVPTLLQIMSGAQSANDLLPAGSVYELPRNQVVELVVPAGVLGGPHPFHLH 401
Query: 60 EHENKFYINPGSATGAF-NPLE 80
H + GS+T F NP++
Sbjct: 402 GHAFSVVRSAGSSTYNFVNPVK 423
>pdb|1A65|A Chain A, Type-2 Cu-depleted Laccase From Coprinus Cinereus
Length = 504
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 1 MKGTSYPEKKVVTVGQFRIGLCHGHDIIPWGDPEALALLQ-RQLDVDILISGHTHKFEAY 59
+ GT+Y V T+ Q G +D++P G L Q +L V + G H F +
Sbjct: 342 INGTAYESPSVPTLLQIMSGAQSANDLLPAGSVYELPRNQVVELVVPAGVLGGPHPFHLH 401
Query: 60 EHENKFYINPGSATGAF-NPLE 80
H + GS+T F NP++
Sbjct: 402 GHAFSVVRSAGSSTYNFVNPVK 423
>pdb|3NBX|X Chain X, Crystal Structure Of E. Coli Rava (Regulatory Atpase
Variant A) In Complex With Adp
Length = 500
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 18/23 (78%), Gaps = 2/23 (8%)
Query: 30 WGDPEALALLQRQLDVDILISGH 52
W D ++L L+Q+Q+DV L++GH
Sbjct: 287 WYDAQSLNLIQQQIDV--LMTGH 307
>pdb|3QFK|A Chain A, 2.05 Angstrom Crystal Structure Of Putative
5'-Nucleotidase From Staphylococcus Aureus In Complex
With Alpha-Ketoglutarate
Length = 527
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 31 GDPEALALLQR-QLDVDILISGHTHKFEAYEHENKFYINPGS 71
G+ E A L+ D+DI I+GH H+ A + I PG+
Sbjct: 225 GENEGYAXLEAFSKDIDIFITGHQHRQIAERFKQTAVIQPGT 266
>pdb|2WDC|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb In Complex
With Glycerol
pdb|2WDD|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb In Complex
With Sulfate
pdb|2WDE|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb In Complex
With Thiosulfate
pdb|2WDF|A Chain A, Termus Thermophilus Sulfate Thiohydrolase Soxb
Length = 562
Score = 26.6 bits (57), Expect = 3.7, Method: Composition-based stats.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 37 ALLQRQLDVDILISGHTHKFEAYEHE-NKFYINPGSATG 74
AL +R +D+++SGHTH K +I GSA G
Sbjct: 271 ALAERIRGIDLILSGHTHDLTPRPWRVGKTWIVAGSAAG 309
>pdb|3TGH|A Chain A, Gap50 The Anchor In The Inner Membrane Complex Of
Plasmodium
Length = 342
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 41 RQLDVDILISGHTHKFEAYEHENKFYINPGSAT 73
+ +VD+ ISGH + E E + +I GS +
Sbjct: 222 KDAEVDLYISGHDNNMEVIEDNDMAHITCGSGS 254
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
0.318 0.139 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,268,207
Number of Sequences: 62578
Number of extensions: 126514
Number of successful extensions: 202
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 188
Number of HSP's gapped (non-prelim): 19
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
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: 45 (21.9 bits)