RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9298
(167 letters)
>2dqa_A Lysozyme; enzyme, substrate complex, hydrolase; HET: NAG BGC; 1.60A
{Tapes japonica}
Length = 124
Score = 94.6 bits (235), Expect = 7e-26
Identities = 33/145 (22%), Positives = 50/145 (34%), Gaps = 31/145 (21%)
Query: 19 AQSTQPVDQICLGCICHGMSLCNQTIGCNGD----TCGAFKITWAYWSDAGKPTIHFHII 74
+ + V Q CL C+C S + IGC D +CG F+I YW D GKP
Sbjct: 1 SFAPGMVSQKCLLCMCKLESGGCKPIGCRMDVGSLSCGYFQIKQPYWIDCGKPG------ 54
Query: 75 NFLSRVLGPYRYCIPNFIALGQTVLEIFCIPPFQNFPFKPVVHTYDCDADGQIDCRDYAA 134
++ C + + V Q + + Y ++C +A
Sbjct: 55 -------KDWKSCSNDINCSSKCV---------QQY-----MKRYATHYRCPLNCEGFAR 93
Query: 135 IHRLGGYGCNAPLDATYLARFNKCL 159
H G GC++ Y K
Sbjct: 94 EHNGGPNGCHSSRTLKYWELLQKIP 118
>3ayq_A Lysozyme; inhibitor, hydrolase-hydrolase inhibitor CO; HET: NAG
4NN; 1.77A {Meretrix lusoria} PDB: 3ab6_A*
Length = 122
Score = 87.3 bits (216), Expect = 5e-23
Identities = 32/143 (22%), Positives = 43/143 (30%), Gaps = 30/143 (20%)
Query: 21 STQPVDQICLGCICHGMSLCNQT---IGCNGDTCGAFKITWAYWSDAGKPTIHFHIINFL 77
+ V Q CL CIC S C + +CG F+I AYW D G+P
Sbjct: 2 AGGTVSQRCLSCICKMESGCRNVGCKMDMGSLSCGYFQIKEAYWIDCGRPG--------- 52
Query: 78 SRVLGPYRYCIPNFIALGQTVLEIFCIPPFQNFPFKPVVHTYDCDADGQIDCRDYAAIHR 137
++ C + V + Y A + C +A H
Sbjct: 53 ----SSWKSCAASSYCASLCVQN--------------YMKRYAKWAGCPLRCEGFAREHN 94
Query: 138 LGGYGCNAPLDATYLARFNKCLN 160
G GC Y R K
Sbjct: 95 GGPRGCKKGSTIGYWNRLQKISG 117
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 29.8 bits (66), Expect = 0.40
Identities = 20/147 (13%), Positives = 38/147 (25%), Gaps = 47/147 (31%)
Query: 29 CLGCICHGMSLCNQTIGCN-------GDTCGAFKITWAYWSDAGKPTIHFHIINFLSRVL 81
L C L + + N ++ TW W + I + L+ VL
Sbjct: 310 YLDCRPQ--DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN-VL 366
Query: 82 GP------YRYC--------IPNFIALGQTVLEIF-------CIPPFQNF---------- 110
P + IP +L + + N
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIP------TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ 420
Query: 111 PFKPVVHTYDCDADGQIDCRDYAAIHR 137
P + + + ++ + A+HR
Sbjct: 421 PKESTISIPSIYLELKVKLENEYALHR 447
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 28.9 bits (64), Expect = 0.91
Identities = 21/112 (18%), Positives = 30/112 (26%), Gaps = 46/112 (41%)
Query: 78 SRVLGPYRYCIPNFIALGQTVLEIFCIPPF------------------QNFPFK------ 113
SR+ P+ F L + PF N F
Sbjct: 405 SRI--PFSERKLKF---SNRFLPVAS--PFHSHLLVPASDLINKDLVKNNVSFNAKDIQI 457
Query: 114 PVVHTYDCDADGQIDCRDYAA--IHRLGGYGCNAPLD--------ATYLARF 155
PV T+ DG D R + R+ P+ AT++ F
Sbjct: 458 PVYDTF----DGS-DLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF 504
>3akb_A Putative calcium binding protein; EF-hand, metal binding protein;
1.50A {Streptomyces coelicolor} PDB: 3aka_A
Length = 166
Score = 27.0 bits (60), Expect = 2.5
Identities = 11/50 (22%), Positives = 16/50 (32%), Gaps = 1/50 (2%)
Query: 117 HTYDCDADGQIDCRDY-AAIHRLGGYGCNAPLDATYLARFNKCLNDVAQL 165
T+D D +G ID D+ A + A A + L
Sbjct: 11 TTFDQDGNGHIDRSDFSGAAKAMLAEFGVAARSDRGQALYGGAEALWQGL 60
>1clc_A Endoglucanase CELD; EC: 3.2.1.4; cellulase, glycosyl hydrolase;
1.90A {Clostridium thermocellum} SCOP: a.102.1.2
b.1.18.2
Length = 639
Score = 26.8 bits (59), Expect = 3.8
Identities = 8/48 (16%), Positives = 18/48 (37%)
Query: 90 NFIALGQTVLEIFCIPPFQNFPFKPVVHTYDCDADGQIDCRDYAAIHR 137
+ T+L+ + + P D + DG+++ D + R
Sbjct: 581 KVNSTDLTLLKRYVLKAVSTLPSSKAEKNADVNRDGRVNSSDVTILSR 628
>3i5t_A Aminotransferase; pyridoxal 5'-phosphate, PSI-2, NYSGXRC, ST
genomics, protein structure initiative; HET: PLP; 2.00A
{Rhodobacter sphaeroides 2}
Length = 476
Score = 26.4 bits (59), Expect = 5.7
Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 49 DTCGAFKITWAYWSDAGKPTIHFHII 74
D+ A + + Y + G+P II
Sbjct: 128 DS--ALRFSEFYNNVLGRPQKK-RII 150
>3hmu_A Aminotransferase, class III; structural genomics, pyridoxal
phosphate, PSI-2, protein structure initiative; 2.10A
{Silicibacter pomeroyi}
Length = 472
Score = 26.0 bits (58), Expect = 7.3
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 49 DTCGAFKITWAYWSDAGKPTIHFHII 74
DT ++ YW + G+P II
Sbjct: 130 DT--NIRMVRTYWQNKGQPEKT-VII 152
>4a6r_A Omega transaminase; transferase, PLP-binding enzyme, transaminase
fold type I; HET: TA8; 1.35A {Chromobacterium violaceum}
PDB: 4a6t_A* 4a6u_A 4a72_A* 4ah3_A*
Length = 459
Score = 26.0 bits (58), Expect = 7.4
Identities = 8/26 (30%), Positives = 11/26 (42%), Gaps = 3/26 (11%)
Query: 49 DTCGAFKITWAYWSDAGKPTIHFHII 74
DT ++ YW GKP +I
Sbjct: 125 DT--MIRMVRRYWDVQGKPEKK-TLI 147
>3i4j_A Aminotransferase, class III; structural GENOMICS,NYSGXRC, target
11246C, pyridoxal phosphate, PSI-2, protein structure
initiative; 1.70A {Deinococcus radiodurans}
Length = 430
Score = 26.0 bits (58), Expect = 7.9
Identities = 6/22 (27%), Positives = 10/22 (45%), Gaps = 1/22 (4%)
Query: 53 AFKITWAYWSDAGKPTIHFHII 74
A K+ Y + G+P +I
Sbjct: 105 AVKLARQYHVERGEPGRF-KVI 125
>3nzp_A Arginine decarboxylase; alpha-beta protein, structural genomics,
PSI-biology, protei structure initiative; HET: PLP;
3.00A {Campylobacter jejuni subsp}
Length = 619
Score = 26.0 bits (57), Expect = 8.6
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 8/45 (17%)
Query: 88 IPNFIALGQTVLEIFCIPPFQNFPFKPVVHT--YD--CDADGQID 128
+P+F L Q F I P +P +D CD+DG+I
Sbjct: 450 MPDFWGLEQ----NFPIMPLDRLDEEPTRSASIWDITCDSDGEIS 490
>3a8u_X Omega-amino acid--pyruvate aminotransferase; large pleated sheet,
transaminase, pyridox phosphate; HET: PLP; 1.40A
{Pseudomonas putida}
Length = 449
Score = 25.6 bits (57), Expect = 9.7
Identities = 8/20 (40%), Positives = 10/20 (50%), Gaps = 2/20 (10%)
Query: 49 DTCGAFKITWAYWSDAGKPT 68
T A K+ AYW G+ T
Sbjct: 124 LT--AVKMVRAYWRLKGQAT 141
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.330 0.145 0.508
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,785,943
Number of extensions: 160235
Number of successful extensions: 621
Number of sequences better than 10.0: 1
Number of HSP's gapped: 617
Number of HSP's successfully gapped: 27
Length of query: 167
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 80
Effective length of database: 4,272,666
Effective search space: 341813280
Effective search space used: 341813280
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 54 (24.6 bits)