RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5312
(124 letters)
>1j0t_A MIH, MOLT-inhibiting hormone; alpha-helical protein, hormone/growth
factor complex; NMR {Marsupenaeus japonicus} SCOP:
a.163.1.1
Length = 78
Score = 98.5 bits (245), Expect = 1e-28
Identities = 26/75 (34%), Positives = 44/75 (58%), Gaps = 1/75 (1%)
Query: 46 SFFDIQCKGVY-DKSIFARLDRICEDCYDLFRAPQIHTLCRKDCFTSDYFKGCLEVLRLT 104
SF D C+GV ++ I+ ++ R+CEDC ++FR P + +CR CF +++F CL+
Sbjct: 2 SFIDNTCRGVMGNRDIYKKVVRVCEDCTNIFRLPGLDGMCRNRCFYNEWFLICLKAANRE 61
Query: 105 DESDSIQADIMQLHG 119
DE + + I L+
Sbjct: 62 DEIEKFRVWISILNA 76
>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 = 40.4 bits (94), Expect = 4e-05
Identities = 22/136 (16%), Positives = 41/136 (30%), Gaps = 35/136 (25%)
Query: 1 MLQCR-LTLLVL---IIMTVTMLVLD-QIQCSPVNTRNNNQIAGHPLS----KRSFFDIQ 51
ML LT + + T + L Q++ S VN N ++G P S + +
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 52 CKGVYDKSIFARLDRICEDCYDLF--RAPQIHTLCRKDCF---T----SDYFKGCLEVLR 102
D+S RI F R + F S +++
Sbjct: 398 APSGLDQS------RI------PFSERKLKFSN-----RFLPVASPFHSHLLVPASDLIN 440
Query: 103 LTDESDSIQADIMQLH 118
+++ + +
Sbjct: 441 KDLVKNNVSFNAKDIQ 456
Score = 28.9 bits (64), Expect = 0.46
Identities = 16/78 (20%), Positives = 25/78 (32%), Gaps = 19/78 (24%)
Query: 32 RNNNQIAGHPLSKRSFFDIQCKGV-----YDKSIFARLDRICEDCYDLFRAPQIHTLCRK 86
NN P++ F + KG Y IF + +F+ H+
Sbjct: 1666 INN------PVNLTIHFGGE-KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHS---- 1714
Query: 87 DCFTSDYFKGCLEVLRLT 104
TS F+ +L T
Sbjct: 1715 ---TSYTFRSEKGLLSAT 1729
Score = 25.4 bits (55), Expect = 7.9
Identities = 5/30 (16%), Positives = 11/30 (36%), Gaps = 1/30 (3%)
Query: 13 IMTVTMLVLDQIQCSPVNTRNNNQIAGHPL 42
+ + + ++ S + AGH L
Sbjct: 1736 LTLMEKAAFEDLK-SKGLIPADATFAGHSL 1764
>4ex5_A Lysine--tRNA ligase; structural genomics, niaid, national institute
of allergy AN infectious diseases; HET: LYS; 2.40A
{Burkholderia thailandensis}
Length = 529
Score = 33.3 bits (77), Expect = 0.013
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 14/49 (28%)
Query: 37 IAGHPLSKR-----SFFDIQCKGVYDKS----IFARLDRICEDCYDLFR 76
IAG + KR SF +Q D S F + + YD F+
Sbjct: 91 IAGRMMLKRVMGKASFATVQ-----DGSGQIQFFVTPADVGAETYDAFK 134
>3a74_A Lysyl-tRNA synthetase; aminoacyl tRNA synthetase, ligase, protein
biosynthesis, AMI tRNA synthetase, ATP-binding,
magnesium; HET: B4P LYN; 1.80A {Geobacillus
stearothermophilus} PDB: 3e9h_A* 3e9i_A*
Length = 493
Score = 33.2 bits (77), Expect = 0.014
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 14/49 (28%)
Query: 37 IAGHPLSKR-----SFFDIQCKGVYDKS----IFARLDRICEDCYDLFR 76
+AG ++KR F IQ D + I+ R D + E Y+LF+
Sbjct: 61 VAGRIMTKRGMGKAGFAHIQ-----DVTGQIQIYVRQDDVGEQQYELFK 104
>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 = 30.2 bits (67), Expect = 0.16
Identities = 12/77 (15%), Positives = 22/77 (28%), Gaps = 24/77 (31%)
Query: 19 LVLDQIQCSPVNTRNNNQIAGHPLSKRSFFDIQCKGVY---DKSIFARLD------RICE 69
LVL +Q N + F++ CK + K + L +
Sbjct: 248 LVLLNVQ--------NAKAWNA-------FNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 70 DCYDLFRAPQIHTLCRK 86
++ +L K
Sbjct: 293 HHSMTLTPDEVKSLLLK 309
Score = 26.4 bits (57), Expect = 3.1
Identities = 19/113 (16%), Positives = 37/113 (32%), Gaps = 27/113 (23%)
Query: 17 TMLVLDQIQCSPVNTRNNNQI----AGHPLSKRSFFDIQCKGVY--DKSIFARLDRIC-- 68
T + LD V + + +I + S + ++ K +Y D + +R D
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 69 ----EDCYDLFRAPQIHTLCRKDCFTSDYFKGCLEVLRLTDESDS--IQA-DI 114
R L K ++ CL VL + ++ A ++
Sbjct: 224 KLRIHSIQAELR----RLLKSKP------YENCLLVLL--NVQNAKAWNAFNL 264
>3bbo_6 Ribosomal protein L36; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 104
Score = 28.5 bits (63), Expect = 0.30
Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 8/71 (11%)
Query: 62 ARLDRICEDCYDLFRAPQIHTLCRKD--------CFTSDYFKGCLEVLRLTDESDSIQAD 113
+ + ++CE C + R +++ +C + F+S ++G + S +
Sbjct: 5 SSVKKMCEFCKTVKRRGRVYVICSSNPKHKQRQGGFSSFAYEGITPSPLFAEPIASQELV 64
Query: 114 IMQLHGVDPGL 124
+ GV GL
Sbjct: 65 RLPGQGVSAGL 75
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 26.6 bits (58), Expect = 1.9
Identities = 7/25 (28%), Positives = 9/25 (36%), Gaps = 8/25 (32%)
Query: 52 CKG-----VYDKSIFARLDRICEDC 71
CK V F+ D +C C
Sbjct: 27 CKVYPPKIVER---FSEGDVVCALC 48
>1qnx_A VES V 5, antigen 5; allergen, vespid venom; 1.90A {Vespula
vulgaris} SCOP: d.111.1.1
Length = 209
Score = 25.6 bits (56), Expect = 4.2
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 3/38 (7%)
Query: 81 HTLCRKDCFTSDYFKGCLEVLRLTDESDSIQADIMQLH 118
HT C+ + + LT + + DI++ H
Sbjct: 19 HTACKYGSLKPNCGNKVVVSYGLTKQE---KQDILKEH 53
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
0.329 0.143 0.445
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,826,322
Number of extensions: 93003
Number of successful extensions: 246
Number of sequences better than 10.0: 1
Number of HSP's gapped: 244
Number of HSP's successfully gapped: 19
Length of query: 124
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 42
Effective length of database: 4,412,271
Effective search space: 185315382
Effective search space used: 185315382
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: 51 (23.3 bits)