RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy648
(72 letters)
>3p8c_E Probable protein brick1; actin polymerization, protein binding;
2.29A {Homo sapiens}
Length = 75
Score = 98.6 bits (245), Expect = 2e-29
Identities = 53/70 (75%), Positives = 59/70 (84%)
Query: 3 AVHREAIQKQIQQDWANREYIEIITGSIKKITDFLNSFDMSCRSRLAVLNEKLTTLERRI 62
A + +Q++I QDWANREYIEIIT SIKKI DFLNSFDMSCRSRLA LNEKLT LERRI
Sbjct: 2 AGQEDPVQREIHQDWANREYIEIITSSIKKIADFLNSFDMSCRSRLATLNEKLTALERRI 61
Query: 63 EYLEARKSHG 72
EY+EAR + G
Sbjct: 62 EYIEARVTKG 71
>3pp5_A BRK1, protein brick1; triple coiled-coil, precursor of the
SCAR-WAVE complex, ABI, structural protein; 1.50A
{Dictyostelium discoideum}
Length = 73
Score = 97.1 bits (241), Expect = 7e-29
Identities = 30/67 (44%), Positives = 49/67 (73%)
Query: 2 AAVHREAIQKQIQQDWANREYIEIITGSIKKITDFLNSFDMSCRSRLAVLNEKLTTLERR 61
+ + + IQ+DW RE+IE ++ +I+KI +FLN F++S R++L+ LNEKLT L+R+
Sbjct: 1 GPLGSMSTKTNIQKDWEQREFIEDMSINIQKIVEFLNKFELSTRNKLSDLNEKLTILDRQ 60
Query: 62 IEYLEAR 68
++YLEA
Sbjct: 61 VDYLEAT 67
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.1 bits (64), Expect = 0.067
Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 24/52 (46%)
Query: 10 QKQIQQDWANREYIEIITGSIKKITDFLNSF--DMSCRSRLAVLNEKLTTLE 59
+KQ ++KK+ L + D S + LA+ T+E
Sbjct: 18 EKQ----------------ALKKLQASLKLYADD-SAPA-LAI-K---ATME 47
>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 = 27.9 bits (61), Expect = 0.22
Identities = 12/60 (20%), Positives = 31/60 (51%), Gaps = 14/60 (23%)
Query: 7 EAIQKQIQQDWANREYIE--IITGSI--KKITDFLNSFDMSCRSRLAVLNEKLTTLERRI 62
+IQ ++++ ++ Y ++ ++ K N+F++SC+ +L LTT +++
Sbjct: 228 HSIQAELRRLLKSKPYENCLLVLLNVQNAKA---WNAFNLSCK----IL---LTTRFKQV 277
Score = 24.0 bits (51), Expect = 5.5
Identities = 5/48 (10%), Positives = 16/48 (33%), Gaps = 12/48 (25%)
Query: 14 QQDWANREYIEIITGSIKKITDFLNSF--DMSCRSRLAVLNEKLTTLE 59
+ + ++ + F ++F + C+ + L+ E
Sbjct: 13 EHQYQYKDILS----------VFEDAFVDNFDCKDVQDMPKSILSKEE 50
>3gp4_A Transcriptional regulator, MERR family; structural genomics, DNA-BI
transcription regulator, PSI-2; 1.85A {Listeria
monocytogenes str}
Length = 142
Score = 26.5 bits (59), Expect = 0.51
Identities = 10/42 (23%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 29 SIKKITDFLNSF---DMSCRSRLAVLNEKLTTLERRIEYLEA 67
SI+ + D+L F + + +R +L ++ L+ RI+ ++
Sbjct: 61 SIEALIDYLALFREGEHTLEARAELLKKQRIELKNRIDVMQE 102
>3gpv_A Transcriptional regulator, MERR family; protein structure
initiative II(PSI II), NYSGXRC, structural genomics;
1.90A {Bacillus thuringiensis serovarkonkukian}
Length = 148
Score = 26.6 bits (59), Expect = 0.56
Identities = 8/42 (19%), Positives = 18/42 (42%)
Query: 30 IKKITDFLNSFDMSCRSRLAVLNEKLTTLERRIEYLEARKSH 71
IK+ D+ D + RL ++ ++ + + I+ E
Sbjct: 79 IKQFIDWSMEGDSTILHRLKLMKQQEANVLQLIQDTEKNLKK 120
>1q06_A Transcriptional regulator CUER; MERR family transcriptional
regulator, copper efflux regulator; 2.07A {Escherichia
coli} SCOP: a.6.1.3 PDB: 1q05_A 1q07_A
Length = 135
Score = 25.8 bits (57), Expect = 0.94
Identities = 8/42 (19%), Positives = 16/42 (38%)
Query: 30 IKKITDFLNSFDMSCRSRLAVLNEKLTTLERRIEYLEARKSH 71
++ + N EK+ +ER IE L++ +
Sbjct: 63 SGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEELQSMRDQ 104
>2zhg_A Redox-sensitive transcriptional activator SOXR; oxidative stress,
MERR family, activator; HET: DNA; 2.80A {Escherichia
coli} PDB: 2zhh_A
Length = 154
Score = 25.1 bits (55), Expect = 2.2
Identities = 8/43 (18%), Positives = 16/43 (37%), Gaps = 4/43 (9%)
Query: 29 SIKKITDFLNSF----DMSCRSRLAVLNEKLTTLERRIEYLEA 67
+ I + +S + + ++ L+RRI L A
Sbjct: 69 PLATIGEAFGVLPEGHTLSAKEWKQLSSQWREELDRRIHTLVA 111
>1hh2_P NUSA, N utilization substance protein A; transcription regulation,
termination; 2.1A {Thermotoga maritima} SCOP: b.40.4.5
d.52.3.1 d.52.3.1 d.202.1.1 PDB: 1l2f_A
Length = 344
Score = 24.4 bits (54), Expect = 3.4
Identities = 3/29 (10%), Positives = 14/29 (48%), Gaps = 1/29 (3%)
Query: 6 REAIQKQIQQDWANREYIEIITGSIKKIT 34
RE +++ + ++ + + T + ++
Sbjct: 119 RELEKEKQFEKYSELKG-TVTTAEVIRVM 146
>2iu8_A LPXD, UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase;
UDP-3- O-acyl-glucosamine N-acyltransferase, lipid A
biosynthesis; HET: PLM UD1; 2.2A {Chlamydia trachomatis}
PDB: 2iu9_A* 2iua_A*
Length = 374
Score = 24.2 bits (53), Expect = 4.3
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 47 RLAVLNEKLTTLERRIEYLEARK 69
L L E++ LE+ ++ LEA
Sbjct: 349 NLPRLEERIAALEKLVQKLEALS 371
>2cqo_A Nucleolar protein of 40 kDa; S1 domain, OB-fold, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 119
Score = 23.9 bits (52), Expect = 4.3
Identities = 5/32 (15%), Positives = 10/32 (31%), Gaps = 1/32 (3%)
Query: 6 REAIQKQIQQDWANR-EYIEIITGSIKKITDF 36
+ + N I G + +TD+
Sbjct: 5 SSGMNSGRPETMENLPALYTIFQGEVAMVTDY 36
>2x0k_A Riboflavin biosynthesis protein RIBF; riboflavin kinase,
nucleotide-binding, transferase, ATP-BIND
multifunctional enzyme; 1.95A {Corynebacterium
ammoniagenes}
Length = 338
Score = 24.1 bits (53), Expect = 4.6
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 55 LTTLERRIEYLEA 67
+TTL R E+
Sbjct: 71 ITTLAERFALAES 83
>1k0r_A NUSA; two component arrangement, S1 domain, two K-homology
domains., structural genomics, PSI, protein structure
initiative; 1.70A {Mycobacterium tuberculosis} SCOP:
b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1
Length = 366
Score = 24.1 bits (53), Expect = 5.0
Identities = 8/29 (27%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 6 REAIQKQIQQDWANREYIEIITGSIKKIT 34
R+A ++ +++ RE EI+ G I++ +
Sbjct: 115 RDAENERTYGEFSTREG-EIVAGVIQRDS 142
>3gox_A Restriction endonuclease HPY99I; endonuclease-DNA complex,
restriction enzyme, HPY99I, pseudopalindrome; HET: 1PE;
1.50A {Helicobacter pylori} PDB: 3fc3_A*
Length = 200
Score = 24.1 bits (51), Expect = 5.5
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 43 SCRSRLAVLNEKLTTLERRIEYLE 66
SC + L + LE+ IEYL+
Sbjct: 173 SCNTGLGRFKDNPKFLEKVIEYLK 196
>3nyt_A Aminotransferase WBPE; PLP binding, nucleotide-sugar binding; HET:
ULP; 1.30A {Pseudomonas aeruginosa} PDB: 3nys_A* 3nyu_A*
3nu8_A* 3nu7_A* 3nub_A*
Length = 367
Score = 24.0 bits (53), Expect = 5.9
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 8/29 (27%)
Query: 46 SRL-----AVLNEKLTTLERRIEYLEARK 69
SRL A+L KL E E + R+
Sbjct: 228 SRLDTLQAAILLPKLEIFE---EEIALRQ 253
>3pmo_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltr; lipid A
biosynthesis pathway, transferase; 1.30A {Pseudomonas
aeruginosa}
Length = 372
Score = 23.8 bits (52), Expect = 7.0
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 47 RLAVLNEKLTTLERRIEYLEARKSHG 72
+L + +L LE+R+ + +
Sbjct: 344 QLDDMARRLQQLEKRLAAVTSSGDAS 369
>3frk_A QDTB; aminotransferase, sugar-modification, natural porduct; HET:
TQP; 2.15A {Thermoanaerobacteriumthermosaccharolyticum}
Length = 373
Score = 23.2 bits (51), Expect = 8.2
Identities = 9/29 (31%), Positives = 13/29 (44%), Gaps = 8/29 (27%)
Query: 46 SRL-----AVLNEKLTTLERRIEYLEARK 69
SRL L KL L+ ++ E R+
Sbjct: 229 SRLDELQAGFLRVKLKYLD---KWNEERR 254
>1zhx_A KES1 protein; oxysterol,sterol binding protein, lipid binding
protein; HET: HC3; 1.50A {Saccharomyces cerevisiae}
SCOP: d.338.1.1 PDB: 1zht_A* 1zhw_A* 1zhy_A* 1zhz_A*
3spw_A* 1zi7_A
Length = 438
Score = 23.3 bits (50), Expect = 8.2
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 2/51 (3%)
Query: 16 DWANREYIEIITGSIKKITDFLNSFDMSCRSRLAVLNEKLTTLERRIEYLE 66
D + T +K I F + D+S S + ++ E + E
Sbjct: 4 DPSQYASSSSWTSFLKSIASF--NGDLSSLSAPPFILSPISLTEFSQYWAE 52
>2oga_A Transaminase; PLP-dependent enzyme, desosamine, deoxysugars,
antibiotics, hydrolase; HET: PGU; 2.05A {Streptomyces
venezuelae} PDB: 2oge_A*
Length = 399
Score = 23.3 bits (51), Expect = 8.9
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 8/29 (27%)
Query: 46 SRL-----AVLNEKLTTLERRIEYLEARK 69
SRL AVL +L L+ + R
Sbjct: 256 SRLDEMQAAVLRIRLAHLD---SWNGRRS 281
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
0.320 0.132 0.367
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,129,606
Number of extensions: 52849
Number of successful extensions: 215
Number of sequences better than 10.0: 1
Number of HSP's gapped: 215
Number of HSP's successfully gapped: 31
Length of query: 72
Length of database: 6,701,793
Length adjustment: 42
Effective length of query: 30
Effective length of database: 5,529,111
Effective search space: 165873330
Effective search space used: 165873330
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.2 bits)