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= 025996
(245 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NQY|A Chain A, The Structure Of A Coa Pyrophosphatase From D. Radiodurans
pdb|1NQZ|A Chain A, The Structure Of A Coa Pyrophosphatase From D. Radiodurans
Complexed With A Magnesium Ion
Length = 194
Score = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 37/79 (46%), Positives = 50/79 (63%), Gaps = 3/79 (3%)
Query: 52 KRAAVLVCLFEGNDGDLRVFLTKRSSNLSSHSGEVALPGGKREENDADDAGTALREAKEE 111
+RAAVLV L + D RV LT RSS L +H G++A PGG + + ALREA+EE
Sbjct: 34 RRAAVLVALT--READPRVLLTVRSSELPTHKGQIAFPGGSLDAGETPTQA-ALREAQEE 90
Query: 112 IGLDPSLVNVVTILDPIFT 130
+ LDP+ V ++ LD +FT
Sbjct: 91 VALDPAAVTLLGELDDVFT 109
>pdb|3QSJ|A Chain A, Crystal Structure Of Nudix Hydrolase From Alicyclobacillus
Acidocaldarius
Length = 232
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 19/81 (23%)
Query: 52 KRAAVLVCLFEGNDGDLRVFLTKRSSNLSSHSGEVALPGGKREENDADDAG--------- 102
++AA LV + +G + D+ V + +R+ G VA PGG + +DA+ A
Sbjct: 8 RKAATLVVIRDGANKDIEVLVVRRAKTXRFLPGFVAFPGGAADPSDAEXAKRAFGRPVCA 67
Query: 103 ----------TALREAKEEIG 113
TALRE EEIG
Sbjct: 68 EDDDDPALAVTALRETAEEIG 88
>pdb|2B06|A Chain A, Crystal Structure Of The MuttNUDIX FAMILY PROTEIN FROM
STREPTOCOCCUS Pneumoniae
Length = 155
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 34/67 (50%), Gaps = 6/67 (8%)
Query: 58 VCLFEGNDGDLRVFLTKRSSNLSSHSGEVALPGGKREENDADDAGTALREAKEEIGL--- 114
+CL E + RV + R+ + SG A PGG E ND A + +RE EE GL
Sbjct: 12 ICLIEDLETQ-RVVMQYRAPENNRWSG-YAFPGGHVE-NDEAFAESVIREIYEETGLTIQ 68
Query: 115 DPSLVNV 121
+P LV +
Sbjct: 69 NPQLVGI 75
>pdb|3GRN|A Chain A, Crystal Structure Of Mutt Protein From Methanosarcina
Mazei Go1
pdb|3GRN|B Chain B, Crystal Structure Of Mutt Protein From Methanosarcina
Mazei Go1
Length = 153
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 71 FLTKRSSNLSSHSGEVALPGGKREENDADDAGTALREAKEEIGL 114
L +RS N +++G+ LPGGK +++ G A RE EE G+
Sbjct: 23 LLLRRSENSRTNAGKWDLPGGKVNPDESLKEGVA-REVWEETGI 65
>pdb|3J20|O Chain O, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 148
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 24/36 (66%), Gaps = 2/36 (5%)
Query: 185 YKYLLHFFDYEAEGNKYVIWALTA--GILINVASVV 218
+++++ + +GNK + WALTA GI IN A++V
Sbjct: 4 FRHIVRVAGVDLDGNKQLRWALTAIKGIGINFATMV 39
>pdb|2JVB|A Chain A, Solution Structure Of Catalytic Domain Of Ydcp2
Length = 146
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 81 SHSGEVALPGGK--REENDADDAGTALREAKEEIGLD 115
+ S + P GK ++END D +RE KEEIG D
Sbjct: 25 TESDSWSFPRGKISKDENDID---CCIREVKEEIGFD 58
>pdb|3U53|A Chain A, Crystal Structure Of Human Ap4a Hydrolase
pdb|3U53|B Chain B, Crystal Structure Of Human Ap4a Hydrolase
pdb|3U53|C Chain C, Crystal Structure Of Human Ap4a Hydrolase
pdb|3U53|D Chain D, Crystal Structure Of Human Ap4a Hydrolase
Length = 155
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 59 CLFEGNDGDLRVFLTKRSSNLSSHSGEVALPGGKREENDADDAGTALREAKEEIGLDPSL 118
CL D + FL ++S+ H P G E + DD TALRE +EE G++
Sbjct: 14 CLIPKVDNNAIEFLLLQASDGIHHWTP---PKGHVEPGE-DDLETALRETQEEAGIEAGQ 69
Query: 119 VNVV 122
+ ++
Sbjct: 70 LTII 73
>pdb|3O8S|A Chain A, Crystal Structure Of An Adp-Ribose Pyrophosphatase
(Ssu98_1448) From Streptococcus Suis 89-1591 At 2.27 A
Resolution
Length = 206
Score = 27.3 bits (59), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 70 VFLTKRSSNLSSHSGEVALPGGKREENDADDAGTALREAKEEIGLDPSLVNVVTILD 126
+F + + + G +LPGG + D ++E KEE GLD VV ILD
Sbjct: 77 IFQEDKILLVQENDGLWSLPGGWCD-VDQSVKDNVVKEVKEEAGLDVEAQRVVAILD 132
>pdb|2C20|A Chain A, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|B Chain B, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|C Chain C, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|D Chain D, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|E Chain E, Crystal Structure Of Udp-Glucose 4-Epimerase
pdb|2C20|F Chain F, Crystal Structure Of Udp-Glucose 4-Epimerase
Length = 330
Score = 26.9 bits (58), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 106 REAKEEIGLDPSLVNVVTILD 126
++AKE++G DP VNV TI++
Sbjct: 295 QKAKEKLGWDPRYVNVKTIIE 315
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
0.315 0.132 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,013,423
Number of Sequences: 62578
Number of extensions: 271665
Number of successful extensions: 406
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 397
Number of HSP's gapped (non-prelim): 15
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)