RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5876
(143 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 = 42.2 bits (98), Expect = 7e-06
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 6/26 (23%)
Query: 100 KEQVDKIKKSLKKYTP------AFEA 119
K+ + K++ SLK Y A +A
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKA 44
>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 = 36.6 bits (84), Expect = 0.002
Identities = 30/108 (27%), Positives = 39/108 (36%), Gaps = 38/108 (35%)
Query: 30 SVMNAAEHHQATDVEWDPTGRYVMSG--VSLW-------KTKADTGYWQWS--FQG---K 75
S++N A++ V+SG SL+ K KA +G Q F K
Sbjct: 369 SLVNGAKN-------------LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLK 415
Query: 76 IIKRFNSPTFCQLRWRPRP--ASLLSKEQVDKIKKSLKKYTPAFEAKD 121
RF P P + LL D I K L K +F AKD
Sbjct: 416 FSNRFL-PVAS-------PFHSHLL-VPASDLINKDLVKNNVSFNAKD 454
>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A
{Brucella suis}
Length = 361
Score = 30.8 bits (70), Expect = 0.14
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 3 LRMRGTHIVLAELRD 17
LRM+ T I+LAELR
Sbjct: 249 LRMKPTRILLAELRG 263
>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion,
hydrolas binding complex; 2.40A {Helicobacter pylori}
SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A
Length = 330
Score = 30.4 bits (69), Expect = 0.16
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 3 LRMRGTHIVLAELRDTGSLEF 23
LRMR I+L ELR + + +F
Sbjct: 237 LRMRPDRIILGELRSSEAYDF 257
>3aie_A Glucosyltransferase-SI; beta-alpha-barrels; HET: MES; 2.10A
{Streptococcus mutans} PDB: 3aic_A* 3aib_A*
Length = 844
Score = 29.4 bits (65), Expect = 0.44
Identities = 15/88 (17%), Positives = 30/88 (34%), Gaps = 6/88 (6%)
Query: 31 VMNAAEHHQATDVEWDPTGRYVMSGVS-----LWKTKADTGYWQWSFQGKIIKRFNSPTF 85
+ E T D G V + K+ Q + G ++ + +
Sbjct: 718 MYALPEKEVVTATRVDKYGTPVAGSQIKNTLYVVDGKSSGKDQQAKYGGAFLEELQA-KY 776
Query: 86 CQLRWRPRPASLLSKEQVDKIKKSLKKY 113
+L R + ++ + + KIK+ KY
Sbjct: 777 PELFARKQISTGVPMDPSVKIKQWSAKY 804
>2oit_A Nucleoporin 214KDA; NH2 terminal domain of NUP214/CAN, X-RAY
crystallography, beta-propeller, structure, mRNA export,
NPC assembly, leukemia; HET: MES; 1.65A {Homo sapiens}
PDB: 3fmo_A* 3fmp_A* 3fhc_A
Length = 434
Score = 29.1 bits (64), Expect = 0.47
Identities = 16/89 (17%), Positives = 29/89 (32%), Gaps = 8/89 (8%)
Query: 11 VLAELRDTGSLEFVDTGDFSVMNAAEHH--QATDVEWDPTGRYVMSGVSLWKTKADTGYW 68
++A GS+ + + + A T V W P G+ + G K +
Sbjct: 164 MVAVCLADGSIAVLQVTETVKVCATLPSTVAVTSVCWSPKGKQLAVG------KQNGTVV 217
Query: 69 QWSFQGKIIKRFNSPTFCQLRWRPRPASL 97
Q+ + K P F + R +
Sbjct: 218 QYLPTLQEKKVIPCPPFYESDHPVRVLDV 246
>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 = 27.1 bits (59), Expect = 2.9
Identities = 17/113 (15%), Positives = 39/113 (34%), Gaps = 20/113 (17%)
Query: 9 HIVLAELRDTGSLEFVDT----GDFSVMNAAEHHQATDVEWDPTGRYVMSGVSLWKTKA- 63
HI++++ +G+L T + V E + ++ +MS KT+
Sbjct: 53 HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF------LMSP---IKTEQR 103
Query: 64 DTGYWQWSFQGKIIKRFNSPTFCQLRWRPRPASLLSKEQVDKIKKSLKKYTPA 116
+ + + +N R + K++++L + PA
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRL------QPYLKLRQALLELRPA 150
>1abv_A Delta subunit of the F1F0-ATP synthase; ATP synthesis, F1-ATPase,
spectroscopy; NMR {Escherichia coli} SCOP: a.70.1.1 PDB:
2a7u_B
Length = 134
Score = 25.8 bits (57), Expect = 3.9
Identities = 7/18 (38%), Positives = 14/18 (77%)
Query: 95 ASLLSKEQVDKIKKSLKK 112
A+ LS++Q+ KI +++K
Sbjct: 113 AAALSEQQLAKISAAMEK 130
>3jrp_A Fusion protein of protein transport protein SEC13 and nucleoporin
NUP145; protein complex, cytoplasmic vesicle,
endoplasmic reticulum; 2.60A {Saccharomyces cerevisiae}
Length = 379
Score = 26.1 bits (58), Expect = 4.3
Identities = 10/60 (16%), Positives = 19/60 (31%), Gaps = 9/60 (15%)
Query: 24 VDTGDFSVMNAAEHHQA--TDVEW--DPTGRYVMSG-----VSLWKTKADTGYWQWSFQG 74
+ G +S + H A V+W G ++ VS+ + K +
Sbjct: 86 EENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDA 145
Score = 25.4 bits (56), Expect = 9.8
Identities = 5/39 (12%), Positives = 15/39 (38%), Gaps = 5/39 (12%)
Query: 41 TDVEWDPTGRYVMSG-----VSLWKTKADTGYWQWSFQG 74
D D G+ + + + +++ + +T + G
Sbjct: 15 HDAVLDYYGKRLATCSSDKTIKIFEVEGETHKLIDTLTG 53
>3amr_A 3-phytase; beta-propeller, phytate, MYO-inositol hexasulfate,
hydrolase-hydrolase inhibitor complex; HET: IHS; 1.25A
{Bacillus subtilis} PDB: 3ams_A* 2poo_A 1poo_A 1qlg_A
1h6l_A 1cvm_A
Length = 355
Score = 26.3 bits (57), Expect = 4.4
Identities = 12/68 (17%), Positives = 20/68 (29%), Gaps = 17/68 (25%)
Query: 7 GTHIVLAELRDTGSLEFVDTGDFSVMNAAEHHQATDVEWDPTGRYVMSGVSLWKTKADTG 66
AE + +D D + D+E G++++ G
Sbjct: 202 AIWKFSAEPDGGSNGTVIDRADGRHLTR-------DIE----------GLTIYYAADGKG 244
Query: 67 YWQWSFQG 74
Y S QG
Sbjct: 245 YLMASSQG 252
>3jro_A Fusion protein of protein transport protein SEC13 and nucleoporin
NUP145; protein complex, cytoplasmic vesicle,
endoplasmic reticulum, ER-golgi transport, membrane,
mRNA transport; 4.00A {Saccharomyces cerevisiae}
Length = 753
Score = 26.1 bits (57), Expect = 5.6
Identities = 10/60 (16%), Positives = 19/60 (31%), Gaps = 9/60 (15%)
Query: 24 VDTGDFSVMNAAEHHQA--TDVEW--DPTGRYVMSG-----VSLWKTKADTGYWQWSFQG 74
+ G +S + H A V+W G ++ VS+ + K +
Sbjct: 84 EENGRWSQIAVHAVHSASVNSVQWAPHEYGPLLLVASSDGKVSVVEFKENGTTSPIIIDA 143
>2wss_S ATP synthase subunit O, mitochondrial; hydrogen ION transport, ATP
synthesis, phosphoprotein, UBL conjugation, transit
peptide; HET: ANP ADP; 3.20A {Bos taurus} PDB: 2bo5_A
2jmx_A
Length = 190
Score = 25.7 bits (57), Expect = 6.2
Identities = 6/19 (31%), Positives = 11/19 (57%)
Query: 95 ASLLSKEQVDKIKKSLKKY 113
AS L + + ++K LK +
Sbjct: 123 ASALDETTLTELKTVLKSF 141
>3cq0_A Putative transaldolase YGR043C; alpha/beta barrel, pentose shunt,
transferase; HET: PG4; 1.90A {Saccharomyces cerevisiae}
Length = 339
Score = 25.7 bits (56), Expect = 7.4
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 12 LAELRDTGSLEFVDTGDFSVMNAAEHHQATDV 43
L +L+ G+ D+GDF A ++ D
Sbjct: 16 LEQLKKAGTHVVADSGDF---EAISKYEPQDS 44
>2pm7_B Protein transport protein SEC13, protein transport protein SEC31;
beta propeller, alpha solenoid; 2.35A {Saccharomyces
cerevisiae} PDB: 2pm9_B 2pm6_B 3iko_A 3mzk_A 3mzl_A
Length = 297
Score = 25.3 bits (56), Expect = 7.5
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 6/37 (16%)
Query: 43 VEWDPTGRYVMSG-----VSLWKTKADTGYWQWSFQG 74
W +G + V+LWK + G W+ + +
Sbjct: 260 ASWSLSGNVLALSGGDNKVTLWKENLE-GKWEPAGEV 295
>4esj_A Type-2 restriction enzyme DPNI; restriction endonuclease-DNA
complex, type IIM, type IIE, RE enzyme, DPNI; HET: DNA
6MA; 2.05A {Streptococcus pneumoniae}
Length = 257
Score = 25.3 bits (55), Expect = 9.3
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 11 VLAELRDTGSLEFVDTG 27
L LRD +EF G
Sbjct: 236 QLQILRDKEIIEFKGRG 252
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 0.411
Gapped
Lambda K H
0.267 0.0569 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,241,219
Number of extensions: 119126
Number of successful extensions: 397
Number of sequences better than 10.0: 1
Number of HSP's gapped: 396
Number of HSP's successfully gapped: 34
Length of query: 143
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 59
Effective length of database: 4,356,429
Effective search space: 257029311
Effective search space used: 257029311
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: 52 (24.2 bits)