RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17066
(192 letters)
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.3 bits (83), Expect = 0.002
Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 5/61 (8%)
Query: 128 EKKMDRLYELDEIRKIQKVTNKIDKLMGERNDQQVYYYKPVHTNHFTSREKEAEEF---R 184
E++ RL ELD K+ + + +K + + + V N +R + + F
Sbjct: 92 EEQRKRLQELDAASKVMEQEWR-EKAKKDLEEWNQRQSEQVEKNKINNRIAD-KAFYQQP 149
Query: 185 D 185
D
Sbjct: 150 D 150
>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 = 36.8 bits (84), Expect = 0.004
Identities = 32/208 (15%), Positives = 59/208 (28%), Gaps = 48/208 (23%)
Query: 4 SSSSNLKSFRPRVRVGCVQSLSTIFYHYIGLKTSTVKYSGGHDNHFSIKPSQWQW--DKF 61
++ +F + C + L T + K T S H S+ D+
Sbjct: 254 QNAKAWNAFN----LSC-KILLTTRF-----KQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 62 KDFFHFYVMI--GGLPCLAIIFVSNVFIGPATLTEIPEGYT--PQHWEYHKHP----ITR 113
K Y+ LP + P L+ I E W+ KH +T
Sbjct: 304 KSLLLKYLDCRPQDLPREV------LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 114 FIAKTC--HTSPQE----------------IYEKKMDRLYELDEIRKIQKVTNK-IDKLM 154
I ++ P E I + ++ + V NK +
Sbjct: 358 II-ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 155 GERNDQQVYYYKPVHTNHFTSREKEAEE 182
E+ ++ + + + + K E
Sbjct: 417 VEKQPKESTIS--IPSIYLELKVKLENE 442
Score = 32.5 bits (73), Expect = 0.093
Identities = 21/138 (15%), Positives = 46/138 (33%), Gaps = 41/138 (29%)
Query: 28 FYHYIGLKTSTVKYSGGHDNHFS-IKPSQWQWDKFKDF---FHFY---VMIGGLPCLAII 80
FY +IG + H I+ + + F+ F F + A
Sbjct: 473 FYSHIG-------H------HLKNIEHPE-RMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518
Query: 81 FVSNVFIGPATLTEIP--EGY-TPQHWEYHK--HPITRFIAK---TCHTSP-----QEIY 127
+ N TL ++ + Y +Y + + I F+ K S +
Sbjct: 519 SILN------TLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIAL 572
Query: 128 EKKMDRLYELDEIRKIQK 145
+ + ++E + +++Q+
Sbjct: 573 MAEDEAIFE-EAHKQVQR 589
Score = 30.6 bits (68), Expect = 0.36
Identities = 31/174 (17%), Positives = 50/174 (28%), Gaps = 61/174 (35%)
Query: 25 STIFYH--YIGLKTSTVKYSGGHD---NHFSIKPSQWQWDKFKDFFHFYVMIGGLPCLAI 79
STI Y+ LK H +H++I P + D P L
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDHYNI-PKTFDSDDL-----------IPPYL-- 469
Query: 80 IFVSNVFIGPATLTEIPEGYTPQHWEYHKHPITRFIAKTCHTSPQEIYEKK--MDRLYEL 137
+ Y H +H K E E+ ++ L
Sbjct: 470 -----------------DQYFYSHIGHH--------LKNI-----EHPERMTLFRMVF-L 498
Query: 138 D----EIRKIQKVTNKIDKLMGERND-QQVYYYKP---VHTNHFTSREKEAEEF 183
D E +KI+ + + N QQ+ +YKP + + +F
Sbjct: 499 DFRFLE-QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF 551
Score = 26.7 bits (58), Expect = 5.9
Identities = 23/171 (13%), Positives = 50/171 (29%), Gaps = 57/171 (33%)
Query: 45 HDNHFSIKPSQWQWDKFKDFFHFYV--MIGGLPCLAI------IF----VSNVFIGPATL 92
H +H + + Q+ ++KD + + C + I + ++ + +
Sbjct: 3 HHHHMDFETGEHQY-QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAV 61
Query: 93 TEI----------PEGYTPQHWEYHKHPITRFIAKTCHTSPQ------EIYEKKMDRLYE 136
+ E + E +F+ T + +Y ++ DRLY
Sbjct: 62 SGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY- 120
Query: 137 LDEIRKIQKVTNKIDKLMGERNDQQVYYYKPVHTNHFTSREKEAEEFRDVV 187
ND QV+ + SR + + R +
Sbjct: 121 ---------------------NDNQVF------AKYNVSRLQPYLKLRQAL 144
>2x7x_A Sensor protein; transferase, sensor histidine kinase; HET: FRU;
2.64A {Bacteroides thetaiotaomicron}
Length = 325
Score = 29.3 bits (66), Expect = 0.67
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 125 EIYEKKMDRLYELDEIRKIQKVTNKIDKLMGERNDQQVYYYKPVH 169
+ + + + ELD+ KI+ + +I + + QQV + H
Sbjct: 282 HVMQLQTTHISELDK--KIETLNGRIGGYLSQVATQQVLEHHHHH 324
>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 = 26.1 bits (56), Expect = 5.8
Identities = 5/14 (35%), Positives = 8/14 (57%), Gaps = 1/14 (7%)
Query: 1 MKKSSSSNLKSFRP 14
+KK +S LK +
Sbjct: 22 LKKLQAS-LKLYAD 34
>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics
consortium, SGC, GDP, membrane, nucleotide-binding,
nucleotide binding protein; HET: GDP; 1.82A {Homo
sapiens}
Length = 195
Score = 25.6 bits (57), Expect = 9.1
Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 4/47 (8%)
Query: 45 HDNHFSIKPSQWQWDKFKDFFHFYVMIG----GLPCLAIIFVSNVFI 87
H +H S + KD +++G G LA F
Sbjct: 3 HHHHHSSGRENLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGD 49
>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis,
nucleotide-binding, transferase, structural genomics;
1.80A {Thermus thermophilus}
Length = 186
Score = 25.6 bits (57), Expect = 9.4
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 2/36 (5%)
Query: 121 TSP-QEIYEKKMDRLYELDEIRKIQKVTNKIDKLMG 155
T P YE + L +D + +V +I +G
Sbjct: 151 TEPLVGYYEAR-GVLKRVDGLGTPDEVYARIRAALG 185
>1kqf_C FDH-N gamma, formate dehydrogenase, nitrate-inducible, cytochr
B556(FDN) subunit; oxidoreductase, selenium,
selenocysteine, seCys, molybdenum; HET: MGD HEM CDL;
1.60A {Escherichia coli} SCOP: f.21.1.1 PDB: 1kqg_C*
Length = 217
Score = 25.5 bits (55), Expect = 10.0
Identities = 10/48 (20%), Positives = 16/48 (33%), Gaps = 1/48 (2%)
Query: 64 FFHFYVMIGGLPCLAIIFVSNVFIGPATLTEIPEGYTPQHWEYHKHPI 111
H I L +I + F ++ + EG + W HP
Sbjct: 153 LIHAAAGII-LIHAILIHMYMAFWVKGSIKGMIEGKVSRRWAKKHHPR 199
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 0.135 0.420
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,030,803
Number of extensions: 172208
Number of successful extensions: 373
Number of sequences better than 10.0: 1
Number of HSP's gapped: 368
Number of HSP's successfully gapped: 18
Length of query: 192
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 104
Effective length of database: 4,244,745
Effective search space: 441453480
Effective search space used: 441453480
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 (21.8 bits)
S2: 54 (24.6 bits)