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= 030827
(171 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LXM|B Chain B, Lip5-chmp5
Length = 57
Score = 33.9 bits (76), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 18/33 (54%), Positives = 24/33 (72%), Gaps = 1/33 (3%)
Query: 88 MDVSHEIQETLGRSYNVPDDIDEDELMGELDAL 120
M+ ++EI E L RSY P+ +DED+L ELDAL
Sbjct: 1 MEDANEINEALSRSYGTPE-LDEDDLEAELDAL 32
>pdb|2LUH|B Chain B, Nmr Structure Of The Vta1-Vps60 Complex
Length = 59
Score = 33.9 bits (76), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 72 VKIQDIDNLQDEMMDLMDVSHEIQETLGRSYNVP--DDIDEDELMGELDAL 120
+ I + ++QDEM+DL++ E+QE L + N DDI + EL ELDAL
Sbjct: 1 INIDKLQDMQDEMLDLIEQGDELQEVLAMNNNSGELDDISDAELDAELDAL 51
>pdb|2E1Q|A Chain A, Crystal Structure Of Human Xanthine Oxidoreductase Mutant,
Glu803val
pdb|2E1Q|B Chain B, Crystal Structure Of Human Xanthine Oxidoreductase Mutant,
Glu803val
pdb|2E1Q|C Chain C, Crystal Structure Of Human Xanthine Oxidoreductase Mutant,
Glu803val
pdb|2E1Q|D Chain D, Crystal Structure Of Human Xanthine Oxidoreductase Mutant,
Glu803val
Length = 1333
Score = 27.7 bits (60), Expect = 3.1, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 2 RPGPAQEAIKARAMRVLKQKRMYEGQRDMLYNQTFNLDQVAFASEGIKDAQQTMTALKSA 61
R G A K + R ++ G R + T + ++A G+ A +T++ALK+
Sbjct: 413 REGEYFSAFKQASRREDDIAKVTSGMRVLFKPGTTEVQELALCYGGM--ANRTISALKTT 470
Query: 62 NKELKGMMKTVKIQDI 77
++L + K +QD+
Sbjct: 471 QRQLSKLWKEELLQDV 486
>pdb|2CKJ|A Chain A, Human Milk Xanthine Oxidoreductase
pdb|2CKJ|B Chain B, Human Milk Xanthine Oxidoreductase
pdb|2CKJ|C Chain C, Human Milk Xanthine Oxidoreductase
pdb|2CKJ|D Chain D, Human Milk Xanthine Oxidoreductase
Length = 1333
Score = 27.7 bits (60), Expect = 3.1, Method: Composition-based stats.
Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 2/76 (2%)
Query: 2 RPGPAQEAIKARAMRVLKQKRMYEGQRDMLYNQTFNLDQVAFASEGIKDAQQTMTALKSA 61
R G A K + R ++ G R + T + ++A G+ A +T++ALK+
Sbjct: 413 REGEYFSAFKQASRREDDIAKVTSGMRVLFKPGTTEVQELALCYGGM--ANRTISALKTT 470
Query: 62 NKELKGMMKTVKIQDI 77
++L + K +QD+
Sbjct: 471 QRQLSKLWKEELLQDV 486
>pdb|1REQ|B Chain B, Methylmalonyl-Coa Mutase
pdb|1REQ|D Chain D, Methylmalonyl-Coa Mutase
pdb|2REQ|B Chain B, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|2REQ|D Chain D, Methylmalonyl-Coa Mutase, Non-Productive Coa Complex, In
Open Conformation Representing Substrate-Free State
pdb|3REQ|B Chain B, Methylmalonyl-Coa Mutase, Substrate-Free State (Poor
Quality Structure)
pdb|6REQ|B Chain B, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|6REQ|D Chain D, Methylmalonyl-Coa Mutase, 3-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|B Chain B, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|7REQ|D Chain D, Methylmalonyl-Coa Mutase, 2-Carboxypropyl-Coa Inhibitor
Complex
pdb|4REQ|B Chain B, Methylmalonyl-Coa Mutase Substrate Complex
pdb|4REQ|D Chain D, Methylmalonyl-Coa Mutase Substrate Complex
pdb|5REQ|B Chain B, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
pdb|5REQ|D Chain D, Methylmalonyl-Coa Mutase, Y89f Mutant, Substrate Complex
pdb|1E1C|B Chain B, Methylmalonyl-Coa Mutase H244a Mutant
pdb|1E1C|D Chain D, Methylmalonyl-Coa Mutase H244a Mutant
Length = 637
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 35/73 (47%), Gaps = 7/73 (9%)
Query: 105 PDDIDE--DELMGELDALEA----DMGMEDEAGVPSYLQPDKEPDLDAELNLPTAPSGHA 158
P+ +DE +++ E+ +E D G EA V Y + DK P D LNL P G A
Sbjct: 146 PEHLDEVLSDVLLEMTKVEVFSRYDQGAAAEALVSVYERSDK-PAKDLALNLGLDPIGFA 204
Query: 159 SAQHDRPQASIRG 171
+ Q P ++ G
Sbjct: 205 ALQGTEPDLTVLG 217
>pdb|2VRE|A Chain A, Crystal Structure Of Human Peroxisomal Delta3,5,
Delta2,4-Dienoyl Coa Isomerase
pdb|2VRE|B Chain B, Crystal Structure Of Human Peroxisomal Delta3,5,
Delta2,4-Dienoyl Coa Isomerase
pdb|2VRE|C Chain C, Crystal Structure Of Human Peroxisomal Delta3,5,
Delta2,4-Dienoyl Coa Isomerase
Length = 296
Score = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 81 QDEMMDLMDVSHEIQETLGRSYNVPDDIDEDELMGELDALEADMGMEDEA---GVPSYLQ 137
QD + +V + +G +P I L+ EL A A M DEA G+ S +
Sbjct: 163 QDAFFQVKEVDVGLAADVGTLQRLPKVIGNQSLVNEL-AFTARKMMADEALGSGLVSRVF 221
Query: 138 PDKEPDLD 145
PDKE LD
Sbjct: 222 PDKEVMLD 229
>pdb|3FFM|A Chain A, The Crystal Structure Of Human Gadd45g
Length = 167
Score = 26.6 bits (57), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 42/78 (53%), Gaps = 8/78 (10%)
Query: 67 GMMKTVKIQDID--NLQDEMM-----DLMDVSHEIQETLGRSYNVPDDIDEDELMGELDA 119
G+ ++ K+ ++D N+ ++ D D++ +I TL +++ +DID +G++
Sbjct: 50 GVYESAKVLNVDPDNVTFCVLAAGEEDEGDIALQIHFTLIQAFCCENDIDIVR-VGDVQR 108
Query: 120 LEADMGMEDEAGVPSYLQ 137
L A +G +EAG P L
Sbjct: 109 LAAIVGAGEEAGAPGDLH 126
>pdb|2WAL|A Chain A, Crystal Structure Of Human Gadd45gamma
pdb|2WAL|B Chain B, Crystal Structure Of Human Gadd45gamma
Length = 159
Score = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 89 DVSHEIQETLGRSYNVPDDIDEDELMGELDALEADMGMEDEAGVPSYLQ 137
D++ +I TL +++ +DID +G++ L A +G +EAG P L
Sbjct: 71 DIALQIHFTLIQAFCCENDIDIVR-VGDVQRLAAIVGAGEEAGAPGDLH 118
>pdb|1B0A|A Chain A, 5,10, Methylene-Tetrahydropholate
DehydrogenaseCYCLOHYDROLASE FROM E COLI
Length = 288
Score = 26.2 bits (56), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 98 LGRSYNVPDDIDEDELMGELDALEAD 123
+ RSY++P+ E EL+ +D L AD
Sbjct: 64 VSRSYDLPETTSEAELLELIDTLNAD 89
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
0.312 0.129 0.353
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,844,952
Number of Sequences: 62578
Number of extensions: 190353
Number of successful extensions: 363
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 357
Number of HSP's gapped (non-prelim): 19
length of query: 171
length of database: 14,973,337
effective HSP length: 92
effective length of query: 79
effective length of database: 9,216,161
effective search space: 728076719
effective search space used: 728076719
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)