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= 030068
(183 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LUH|B Chain B, Nmr Structure Of The Vta1-Vps60 Complex
Length = 59
Score = 33.9 bits (76), Expect = 0.048, 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|2LXM|B Chain B, Lip5-chmp5
Length = 57
Score = 33.9 bits (76), Expect = 0.050, 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|3ULY|B Chain B, Crystal Structure Of Brox Bro1 Domain In Complex With The
C-Terminal Tails Of Chmp5
pdb|3UM1|B Chain B, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp5
pdb|3UM1|E Chain E, Crystal Structure Of The Brox Bro1 Domain In Complex With
The C- Terminal Tail Of Chmp5
Length = 69
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 41/81 (50%), Gaps = 13/81 (16%)
Query: 100 RSYNVPDDIDEDELMGELDALEADMGMEDEAGVPSYLQPDKEPDLDAELNLPTAPSGHAS 159
RSY P+ +DED+L ELDAL ++ ++++ SY LD + P P G +
Sbjct: 1 RSYGTPE-LDEDDLEAELDALGDELLADEDS---SY--------LDEAASAPAIPEGVPT 48
Query: 160 AQHDRPQA-EDELGLPSVPQA 179
++ DE GLP +P +
Sbjct: 49 DTKNKDGVLVDEFGLPQIPAS 69
>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 = 3.9, 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|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 = 3.9, 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|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 = 7.9, 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|1B0A|A Chain A, 5,10, Methylene-Tetrahydropholate
DehydrogenaseCYCLOHYDROLASE FROM E COLI
Length = 288
Score = 26.2 bits (56), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 12/58 (20%)
Query: 98 LGRSYNVPDDIDEDELMGELDALEADMGME------------DEAGVPSYLQPDKEPD 143
+ RSY++P+ E EL+ +D L AD ++ D V + PDK+ D
Sbjct: 64 VSRSYDLPETTSEAELLELIDTLNADNTIDGILVQLPLPAGIDNVKVLERIHPDKDVD 121
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
0.311 0.129 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,316,811
Number of Sequences: 62578
Number of extensions: 215257
Number of successful extensions: 394
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 389
Number of HSP's gapped (non-prelim): 15
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
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)