RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12658
(67 letters)
>2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant,
chromatin, X- RAY structure, crystallography,
structural protein/DNA complex; 2.90A {Mus musculus}
SCOP: a.22.1.1
Length = 149
Score = 48.3 bits (114), Expect = 4e-09
Identities = 26/50 (52%), Positives = 33/50 (66%)
Query: 9 HGLSTNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
+S GK+ KA+ K+RS RA L FPV R HR L+KG Y+ER+G GA
Sbjct: 18 GSMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGA 67
>1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C
3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C
3azj_C 3azk_C 3azl_C 3azm_C ...
Length = 129
Score = 46.0 bits (108), Expect = 2e-08
Identities = 28/47 (59%), Positives = 32/47 (68%)
Query: 12 STNGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
S GK+ KA+ KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 2 SGRGKQGGKARAKAKSRSSRAGLQFPVGRVHRLLRKGNYAERVGAGA 48
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 44.5 bits (104), Expect = 9e-08
Identities = 25/39 (64%), Positives = 27/39 (69%)
Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
K K KSRS RA L FPV R HR L+KG YAER+G GA
Sbjct: 8 KVKGKAKSRSNRAGLQFPVGRIHRLLRKGNYAERVGAGA 46
>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA
interaction, nucleoprotein, supercoiled DNA; 3.10A
{Saccharomyces cerevisiae} SCOP: a.22.1.1
Length = 131
Score = 42.6 bits (99), Expect = 4e-07
Identities = 24/44 (54%), Positives = 30/44 (68%)
Query: 15 GKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
G + A KA +SRS +A L FPV R HR L++G YA+RIG GA
Sbjct: 5 GGKAGSAAKASQSRSAKAGLTFPVGRVHRLLRRGNYAQRIGSGA 48
>2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone
variant, chromatin, X- RAY structure, crystallography,
structural protein/DNA complex; 2.90A {Homo sapiens}
SCOP: a.22.1.1 PDB: 1u35_C
Length = 120
Score = 41.8 bits (97), Expect = 8e-07
Identities = 19/39 (48%), Positives = 25/39 (64%)
Query: 20 KAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
K K SRS +A ++FPV R R++KKG RIG+GA
Sbjct: 7 KKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVGA 45
>1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein
DNA interaction, nucleoprotein, supercoiled DNA,
complex (nucleosome core/DNA); 2.60A {Homo sapiens}
SCOP: a.22.1.1
Length = 128
Score = 41.8 bits (97), Expect = 1e-06
Identities = 20/41 (48%), Positives = 22/41 (53%)
Query: 14 NGKEQIKAKKAPKSRSQRANLVFPVSRCHRFLKKGRYAERI 54
GK+ KAK SRSQRA L FPV R HR LK +
Sbjct: 6 AGKDSGKAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGR 46
>1jfi_A Transcription regulator NC2 alpha chain; histone, H2A/H2B,
tata-DNA, transcription initiation, NC2, negative
cofactor, structural genomics, PSI; 2.62A {Homo
sapiens} SCOP: a.22.1.3
Length = 98
Score = 32.2 bits (73), Expect = 0.003
Identities = 5/32 (15%), Positives = 14/32 (43%)
Query: 27 SRSQRANLVFPVSRCHRFLKKGRYAERIGLGA 58
S+ ++ N FP +R + ++ ++
Sbjct: 3 SKKKKYNARFPPARIKKIMQTDEEIGKVAAAV 34
>3imh_A Galactose-1-epimerase; structural genomics, PSI-2, protein ST
initiative, NEW YORK SGX research center for structural
GEN nysgxrc; 1.76A {Lactobacillus acidophilus}
Length = 338
Score = 29.4 bits (67), Expect = 0.042
Identities = 6/18 (33%), Positives = 7/18 (38%)
Query: 48 GRYAERIGLGAWSINGIQ 65
GR A R+ G W
Sbjct: 72 GRIAGRVRAGQWKHGNEI 89
>1nsx_A Galactose mutarotase; epimerase, galactose metabolism, isomerase;
HET: GAL; 1.75A {Lactococcus lactis} SCOP: b.30.5.4
PDB: 1nsz_A* 1mmu_A* 1l7k_A* 1l7j_A* 1mmx_A* 1mmy_A*
1mmz_A* 1mn0_A* 1ns0_A* 1ns4_A* 1ns8_A* 1nsr_A* 1nsu_A*
1nsv_A* 1ns7_A* 1ns2_A* 1nsm_A* 1nss_A*
Length = 347
Score = 28.7 bits (65), Expect = 0.086
Identities = 7/18 (38%), Positives = 8/18 (44%)
Query: 48 GRYAERIGLGAWSINGIQ 65
G A RI G I+G
Sbjct: 66 GPTAGRIKDGLVKISGKD 83
>1yga_A Hypothetical 37.9 kDa protein in BIO3-HXT17 intergenic region;
aldose_1_epimerase, sugar metabolism, predicted,
structural genomics; 2.00A {Saccharomyces cerevisiae}
Length = 342
Score = 27.6 bits (62), Expect = 0.26
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 48 GRYAERIGLGAWSING 63
GRYA RI G +S++
Sbjct: 64 GRYANRIAKGVFSLDD 79
>1snz_A Aldose 1-epimerase; mutarotase, galactosemia, isomerase; 2.20A
{Homo sapiens} SCOP: b.30.5.4 PDB: 1so0_A*
Length = 344
Score = 27.1 bits (61), Expect = 0.29
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 48 GRYAERIGLGAWSINGIQ 65
GR A RI G + ++G +
Sbjct: 79 GRVANRIAKGTFKVDGKE 96
>1lur_A Aldose 1-epimerase; vitamin B12, methyltransferase, structural
genomics, structure-based function assignment,
decarboxylase, PSI; 1.85A {Caenorhabditis elegans}
SCOP: b.30.5.4
Length = 339
Score = 27.1 bits (61), Expect = 0.33
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 48 GRYAERIGLGAWSING 63
GR A RI +G
Sbjct: 71 GRVANRIKNSTLHFDG 86
>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 = 26.4 bits (57), Expect = 0.82
Identities = 7/42 (16%), Positives = 14/42 (33%), Gaps = 6/42 (14%)
Query: 7 AVHGLSTNGKEQIKAKKAPKSRSQRANLVFPV-----SRCHR 43
+ G+ +GK A S + + F + C+
Sbjct: 154 LIDGVLGSGK-TWVALDVCLSYKVQCKMDFKIFWLNLKNCNS 194
>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral
membrane protein, ATPase, ABC transporter, membrane
transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia
coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A*
3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A
Length = 381
Score = 26.0 bits (58), Expect = 0.97
Identities = 8/50 (16%), Positives = 18/50 (36%), Gaps = 3/50 (6%)
Query: 8 VHGLSTNGKEQIKAKKAPKSRS---QRANLVFPVSRCHRFLKKGRYAERI 54
+H + ++ + ++ + P RCH F + G R+
Sbjct: 316 IHIQIPSIRQNLVYRQNDVVLVEEGATFAIGLPPERCHLFREDGTACRRL 365
>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 = 25.3 bits (54), Expect = 1.3
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 5/24 (20%)
Query: 4 EKKAVHGLSTNGKEQIKAKKAPKS 27
EK+A+ L + +K A S
Sbjct: 18 EKQALKKLQAS----LK-LYADDS 36
>1z45_A GAL10 bifunctional protein; epimerase, mutarotase, metabolism,
isomerase; HET: GAL NAD GUD; 1.85A {Saccharomyces
cerevisiae} SCOP: b.30.5.4 c.2.1.2
Length = 699
Score = 25.5 bits (56), Expect = 1.5
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 48 GRYAERIGLGAWSING 63
GRYA RI G +S+
Sbjct: 428 GRYANRISKGKFSLCN 443
>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 = 24.6 bits (53), Expect = 2.8
Identities = 5/30 (16%), Positives = 13/30 (43%), Gaps = 4/30 (13%)
Query: 4 EKKAVHGLST----NGKEQIKAKKAPKSRS 29
+ +A+ ++ ++I + KS S
Sbjct: 1858 DLRALDTVTNVLNFIKLQKIDIIELQKSLS 1887
>1bg6_A N-(1-D-carboxylethyl)-L-norvaline dehydrogenase; L) stereospecific
opine dehydrogenase, oxidoreductase; 1.80A {Arthrobacter
SP} SCOP: a.100.1.5 c.2.1.6
Length = 359
Score = 24.6 bits (53), Expect = 3.0
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 44 FLKKGRYAERIGLGAWSINGIQRR 67
F K+GR E++GL + GI+
Sbjct: 334 FRKEGRTLEKLGLSGLTAAGIRSA 357
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 0.133 0.393
Gapped
Lambda K H
0.267 0.0808 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 995,008
Number of extensions: 40712
Number of successful extensions: 59
Number of sequences better than 10.0: 1
Number of HSP's gapped: 59
Number of HSP's successfully gapped: 18
Length of query: 67
Length of database: 6,701,793
Length adjustment: 38
Effective length of query: 29
Effective length of database: 5,640,795
Effective search space: 163583055
Effective search space used: 163583055
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 (23.3 bits)