RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4709
(86 letters)
>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 = 0.097
Identities = 4/13 (30%), Positives = 12/13 (92%)
Query: 72 QRSLKEVESSVSL 84
+++LK++++S+ L
Sbjct: 19 KQALKKLQASLKL 31
>2ysr_A DEP domain-containing protein 1; structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 105
Score = 27.9 bits (62), Expect = 0.25
Identities = 9/36 (25%), Positives = 18/36 (50%)
Query: 42 KEMIDWIRSEFKHNKHLSDETSIKMMIQYGQRSLKE 77
E +DW+ ++N + E + + IQ ++ LK
Sbjct: 44 GEAVDWLYDLLRNNSNFGPEVTRQQTIQLLRKFLKN 79
>3ojy_B Complement component C8 beta chain; macpf, lipocalin, immune
system; HET: TPO BMA; 2.51A {Homo sapiens}
Length = 537
Score = 27.9 bits (61), Expect = 0.36
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 7 KSTLNFRQFLLRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIR 49
+S L + L+ L L+ FL+ K +P E S E D R
Sbjct: 242 RSDLEVAHYKLKPRSLMLHYEFLQRVKRLPLEYSYGEYRDLFR 284
>3t5o_A Complement component C6; macpf, MAC, membrane attack complex,
innate IMMU system, blood, membrane, cytolysin, immune
SYST; HET: NAG FUL FUC BGC MAN; 2.87A {Homo sapiens}
PDB: 4a5w_B* 4e0s_B*
Length = 913
Score = 27.5 bits (60), Expect = 0.60
Identities = 8/37 (21%), Positives = 14/37 (37%)
Query: 7 KSTLNFRQFLLRAEVLGLYKTFLRTAKEIPDESSRKE 43
+ F +A+ L L FL+ +P E +
Sbjct: 296 HKVMKVLNFTTKAKDLHLSDVFLKALNHLPLEYNSAL 332
>3ojy_A Complement component C8 alpha chain; macpf, lipocalin, immune
system; HET: TPO BMA; 2.51A {Homo sapiens}
Length = 554
Score = 27.3 bits (59), Expect = 0.68
Identities = 8/43 (18%), Positives = 20/43 (46%)
Query: 7 KSTLNFRQFLLRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIR 49
+ + F +R + + L + L++ E+PD+ + +I
Sbjct: 263 FTKVQTAHFKMRKDDIMLDEGMLQSLMELPDQYNYGMYAKFIN 305
>3gme_A Polyribonucleotide nucleotidyltransferase; protein-RNA complex,
cytoplasm, nucleotidyltransferase, RNA- binding,
transferase, hydrolase; 2.40A {Escherichia coli E24377A}
PDB: 3gll_A 3gcm_A 3h1c_A 3cdj_A
Length = 549
Score = 27.1 bits (61), Expect = 0.70
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 2/45 (4%)
Query: 17 LRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIRSEFKHNKHLSDE 61
L A V L + L A I D+ R +D I+SE L E
Sbjct: 242 LNARVAALAEARLSDAYRITDKQERYAQVDVIKSETI--ATLLAE 284
>3ckc_A SUSD; TPR repeat, carbohydrate binding, starch binding, sugar BIND
protein; HET: MES; 1.50A {Bacteroides thetaiotaomicron}
SCOP: a.118.8.6 PDB: 3ck8_A* 3ck9_A* 3ckb_A* 3ck7_A*
Length = 527
Score = 26.7 bits (59), Expect = 0.98
Identities = 5/23 (21%), Positives = 12/23 (52%)
Query: 31 TAKEIPDESSRKEMIDWIRSEFK 53
+ ++P E E+ +I++E
Sbjct: 155 FSNDLPVEKKGTELYTYIQNELN 177
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 26.3 bits (59), Expect = 1.5
Identities = 14/66 (21%), Positives = 26/66 (39%)
Query: 17 LRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIRSEFKHNKHLSDETSIKMMIQYGQRSLK 76
++A++ L + A +I + R E + + + LSDE K
Sbjct: 255 IKAKMKDLVGADIAAAYKIQKKQDRYEAVGAAKKKAIAALGLSDENPTGYDPLKLGAIFK 314
Query: 77 EVESSV 82
E+E+ V
Sbjct: 315 ELEADV 320
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 25.9 bits (58), Expect = 1.8
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 2/45 (4%)
Query: 17 LRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIRSEFKHNKHLSDE 61
L A V L + L A I D+ R +D I+SE L E
Sbjct: 248 LNARVAALAEARLSDAYRITDKQERYAQVDVIKSETI--ATLLAE 290
>1l8n_A Alpha-D-glucuronidase; hydrolase; HET: GCW XYP; 1.50A {Geobacillus
stearothermophilus} SCOP: c.1.8.10 d.92.2.2 PDB: 1k9d_A*
1mqq_A* 1mqp_A 1mqr_A* 1k9f_A* 1k9e_A*
Length = 679
Score = 26.0 bits (57), Expect = 1.8
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 36 PDESSRKEMIDWIRSEFKHNKHLSDETSIKMMIQ 69
PD S+ + +W+ F + + + T M++
Sbjct: 472 PDLSAEEIANEWVVQTFGDDSQVVE-TISWMLLS 504
>2nvu_B Maltose binding protein/NEDD8-activating enzyme E1 catalytic
subunit chimera; multifunction macromolecular complex,
ubiquitin, ATP, conformational change, thioester,
switch, adenylation, protein turnover, ligase; HET: ATP;
2.80A {Homo sapiens} SCOP: c.111.1.2 c.94.1.1
Length = 805
Score = 25.6 bits (56), Expect = 2.0
Identities = 10/20 (50%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 7 KSTLNFRQFLLRAEVLGLYK 26
S LN RQFL R + +G K
Sbjct: 448 VSNLN-RQFLFRPKDIGRPK 466
>1pbw_A Rhogap domain, phosphatidylinositol 3-kinase; phosphotransferase,
tpase activating protein, CDC42, phosphoinositide
3-kinase, SH3 domain; 2.00A {Homo sapiens} SCOP:
a.116.1.1
Length = 216
Score = 25.0 bits (55), Expect = 3.6
Identities = 3/22 (13%), Positives = 9/22 (40%)
Query: 24 LYKTFLRTAKEIPDESSRKEMI 45
+Y + A E+ +++
Sbjct: 99 VYSEMISLAPEVQSSEEYIQLL 120
>3uo9_A Glutaminase kidney isoform, mitochondrial; hydrolase-hydrolase
inhibitor complex; HET: 04A; 2.30A {Homo sapiens} PDB:
3unw_A* 3ss3_A 3ss4_A 3ss5_A*
Length = 534
Score = 24.7 bits (53), Expect = 4.8
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 3/53 (5%)
Query: 7 KSTLNFRQF--LLRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIRSEFKHNKH 57
L+ F +++ ++ L + F R IPD S ID + K
Sbjct: 122 GVMLDKDLFKKCVQSNIVLLTQAFRRKF-VIPDFMSFTSHIDELYESAKKQSG 173
>4abo_I MAL3, microtubule integrity protein MAL3; structural protein,
cytoskeleton, GTPase, END binding; HET: GTP GSP; 8.60A
{Schizosaccharomyces pombe}
Length = 145
Score = 24.2 bits (52), Expect = 5.7
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 36 PDESSRKEMIDWIRSEFKHN 55
SR+E++ WI
Sbjct: 3 MGSESRQELLAWINQVTSLG 22
>1q2z_A ATP-dependent DNA helicase II, 80 kDa subunit; KU, DNA repair,
protein structure, spectroscopy, DNA-PK, KU86, KU80,
protein binding; NMR {Homo sapiens} SCOP: a.118.19.1
Length = 120
Score = 24.0 bits (52), Expect = 6.9
Identities = 5/40 (12%), Positives = 15/40 (37%)
Query: 12 FRQFLLRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIRSE 51
FR+ ++ + FL+ +E + + + +
Sbjct: 53 FREEAIKFSEEQRFNNFLKALQEKVEIKQLNHFWEIVVQD 92
>1rw2_A ATP-dependent DNA helicase II, 80 kDa subunit; KU80, NHEJ,
structure, DNA-PK, DNA binding protein; NMR {Homo
sapiens} SCOP: a.118.19.1
Length = 152
Score = 23.8 bits (51), Expect = 9.3
Identities = 5/40 (12%), Positives = 15/40 (37%)
Query: 12 FRQFLLRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIRSE 51
FR+ ++ + FL+ +E + + + +
Sbjct: 84 FREEAIKFSEEQRFNNFLKALQEKVEIKQLNHFWEIVVQD 123
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 23.7 bits (52), Expect = 9.7
Identities = 7/45 (15%), Positives = 17/45 (37%), Gaps = 2/45 (4%)
Query: 17 LRAEVLGLYKTFLRTAKEIPDESSRKEMIDWIRSEFKHNKHLSDE 61
+ + + L A I + R+ +D +++ + L E
Sbjct: 284 VLEALSAAVRPELSAALTIAGKQDREAELDRVKALAA--EKLLPE 326
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
0.316 0.129 0.349
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,159,090
Number of extensions: 55089
Number of successful extensions: 214
Number of sequences better than 10.0: 1
Number of HSP's gapped: 214
Number of HSP's successfully gapped: 27
Length of query: 86
Length of database: 6,701,793
Length adjustment: 54
Effective length of query: 32
Effective length of database: 5,194,059
Effective search space: 166209888
Effective search space used: 166209888
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.2 bits)