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= psy5044
(219 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XMS|A Chain A, Crystal Structure Of Human Ndrg2 Protein Provides Insight
Into Its Role As A Tumor Suppressor
Length = 281
Score = 87.0 bits (214), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 40/83 (48%), Positives = 56/83 (67%)
Query: 130 SNFQAFFNFSDMRSLLENFSVYHVNAPGQEEGAQPLADDYIYPTMDELSNQLLFVLSYFG 189
S FQ F F DM+ +++NF HV+APG EEGA Y YP++D+L++ + VL Y
Sbjct: 40 SCFQPLFQFEDMQEIIQNFVRVHVDAPGMEEGAPVFPLGYQYPSLDQLADMIPCVLQYLN 99
Query: 190 LHSVIGLGVGAGGNILARFALSH 212
++IG+GVGAG ILAR+AL+H
Sbjct: 100 FSTIIGVGVGAGAYILARYALNH 122
Score = 74.3 bits (181), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 37/67 (55%), Positives = 45/67 (67%), Gaps = 2/67 (2%)
Query: 31 VETDRGSILVAVAGNRG--KPAILTYHDLGLNYISNFQAFFNFSDMRSLLENFSVYHVNA 88
VET GS+ V G +PAILTYHD+GLNY S FQ F F DM+ +++NF HV+A
Sbjct: 6 VETPYGSVTFTVYGTPYPYRPAILTYHDVGLNYKSCFQPLFQFEDMQEIIQNFVRVHVDA 65
Query: 89 PGQEEGA 95
PG EEGA
Sbjct: 66 PGMEEGA 72
>pdb|2XMQ|A Chain A, Crystal Structure Of Human Ndrg2 Protein Provides Insight
Into Its Role As A Tumor Suppressor
pdb|2XMQ|B Chain B, Crystal Structure Of Human Ndrg2 Protein Provides Insight
Into Its Role As A Tumor Suppressor
pdb|2XMQ|C Chain C, Crystal Structure Of Human Ndrg2 Protein Provides Insight
Into Its Role As A Tumor Suppressor
Length = 281
Score = 87.0 bits (214), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 40/83 (48%), Positives = 56/83 (67%)
Query: 130 SNFQAFFNFSDMRSLLENFSVYHVNAPGQEEGAQPLADDYIYPTMDELSNQLLFVLSYFG 189
S FQ F F DM+ +++NF HV+APG EEGA Y YP++D+L++ + VL Y
Sbjct: 40 SCFQPLFQFEDMQEIIQNFVRVHVDAPGMEEGAPVFPLGYQYPSLDQLADMIPCVLQYLN 99
Query: 190 LHSVIGLGVGAGGNILARFALSH 212
++IG+GVGAG ILAR+AL+H
Sbjct: 100 FSTIIGVGVGAGAYILARYALNH 122
Score = 75.5 bits (184), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 37/67 (55%), Positives = 45/67 (67%), Gaps = 2/67 (2%)
Query: 31 VETDRGSILVAVAG--NRGKPAILTYHDLGLNYISNFQAFFNFSDMRSLLENFSVYHVNA 88
VET GS+ V G +PAILTYHD+GLNY S FQ F F DM+ +++NF HV+A
Sbjct: 6 VETPYGSVTFTVYGTPKPKRPAILTYHDVGLNYKSCFQPLFQFEDMQEIIQNFVRVHVDA 65
Query: 89 PGQEEGA 95
PG EEGA
Sbjct: 66 PGMEEGA 72
>pdb|2XMR|A Chain A, Crystal Structure Of Human Ndrg2 Protein Provides Insight
Into Its Role As A Tumor Suppressor
pdb|2XMR|B Chain B, Crystal Structure Of Human Ndrg2 Protein Provides Insight
Into Its Role As A Tumor Suppressor
pdb|2XMR|C Chain C, Crystal Structure Of Human Ndrg2 Protein Provides Insight
Into Its Role As A Tumor Suppressor
Length = 281
Score = 87.0 bits (214), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 40/83 (48%), Positives = 56/83 (67%)
Query: 130 SNFQAFFNFSDMRSLLENFSVYHVNAPGQEEGAQPLADDYIYPTMDELSNQLLFVLSYFG 189
S FQ F F DM+ +++NF HV+APG EEGA Y YP++D+L++ + VL Y
Sbjct: 40 SCFQPLFQFEDMQEIIQNFVRVHVDAPGMEEGAPVFPLGYQYPSLDQLADMIPCVLQYLN 99
Query: 190 LHSVIGLGVGAGGNILARFALSH 212
++IG+GVGAG ILAR+AL+H
Sbjct: 100 FSTIIGVGVGAGAYILARYALNH 122
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 37/67 (55%), Positives = 45/67 (67%), Gaps = 2/67 (2%)
Query: 31 VETDRGSILVAVAGNRG--KPAILTYHDLGLNYISNFQAFFNFSDMRSLLENFSVYHVNA 88
VET GS+ V G +PAILTYHD+GLNY S FQ F F DM+ +++NF HV+A
Sbjct: 6 VETPYGSVTFTVYGTPAPARPAILTYHDVGLNYKSCFQPLFQFEDMQEIIQNFVRVHVDA 65
Query: 89 PGQEEGA 95
PG EEGA
Sbjct: 66 PGMEEGA 72
>pdb|2QMQ|A Chain A, Crystal Structure Of A N-Myc Downstream Regulated 2
Protein (Ndrg2, Syld, Ndr2, Ai182517, Au040374) From Mus
Musculus At 1.70 A Resolution
Length = 286
Score = 85.1 bits (209), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 38/83 (45%), Positives = 56/83 (67%)
Query: 130 SNFQAFFNFSDMRSLLENFSVYHVNAPGQEEGAQPLADDYIYPTMDELSNQLLFVLSYFG 189
S FQ F F DM+ +++NF HV+APG EEGA Y YP++D+L++ + +L Y
Sbjct: 50 SCFQPLFRFGDMQEIIQNFVRVHVDAPGMEEGAPVFPLGYQYPSLDQLADMIPCILQYLN 109
Query: 190 LHSVIGLGVGAGGNILARFALSH 212
++IG+GVGAG IL+R+AL+H
Sbjct: 110 FSTIIGVGVGAGAYILSRYALNH 132
Score = 73.9 bits (180), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 44/67 (65%), Gaps = 2/67 (2%)
Query: 31 VETDRGSILVAVAG--NRGKPAILTYHDLGLNYISNFQAFFNFSDMRSLLENFSVYHVNA 88
VET GS+ V G +PAI TYHD+GLNY S FQ F F DM+ +++NF HV+A
Sbjct: 16 VETPYGSVTFTVYGTPKPKRPAIFTYHDVGLNYKSCFQPLFRFGDMQEIIQNFVRVHVDA 75
Query: 89 PGQEEGA 95
PG EEGA
Sbjct: 76 PGMEEGA 82
>pdb|1XP3|A Chain A, Crystal Structure Of Endonuclease Iv (Ba4508) From
Bacillus Anthracis At 2.57a Resolution
Length = 307
Score = 26.9 bits (58), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 118 MDICYDTDHTN------ISNFQAFFNFSDMRSLLENFSVYHVNAPGQEEGA 162
+ +C+DT HT+ ++NF N D ++ V H+N GA
Sbjct: 184 LSVCFDTCHTHDAGYDIVNNFDGVLNEFDKIVGIDRLQVLHINDSKNVRGA 234
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 0.139 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,639,280
Number of Sequences: 62578
Number of extensions: 273335
Number of successful extensions: 593
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 582
Number of HSP's gapped (non-prelim): 14
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
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: 49 (23.5 bits)