RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16212
(233 letters)
>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 = 35.8 bits (82), Expect = 0.012
Identities = 14/100 (14%), Positives = 32/100 (32%), Gaps = 32/100 (32%)
Query: 121 CGEEVTQTRLESYLSALEFIEAQLDRMKHTSYRTTLEVG---FES-------IHSGQSLV 170
++ T E L ++ + ++ K + L + FE+ IH +L
Sbjct: 49 AADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH---ALA 105
Query: 171 PESIQKSLMDIKYDVEKKLCSIRMSMKSSGLKEKKLVETY 210
+ ++ +K K+L++ Y
Sbjct: 106 -------------------AKLLQENDTTLVKTKELIKNY 126
>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 = 34.8 bits (79), Expect = 0.025
Identities = 33/189 (17%), Positives = 55/189 (29%), Gaps = 69/189 (36%)
Query: 106 EEGKGVQLDIIKCRKCG--EEVTQT--RLESYLSAL--EFIEAQLDRMKHTSY---RTTL 156
+E K + L + CR EV T R S ++ + + A D KH + T +
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL-ATWDNWKHVNCDKLTTII 359
Query: 157 EVGFESIHSG------QSLV--PES--IQKSLMDI------KYDVE---KKLCS------ 191
E + L P S I L+ + K DV KL
Sbjct: 360 ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 192 -------------IRMSMKSSGLKE--KKLVETYGIRPS------------GY---YLPF 221
+ + +K + +V+ Y I + Y ++
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479
Query: 222 QQHTCLRRA 230
H L+
Sbjct: 480 --H--LKNI 484
>3tj1_A RNA polymerase I-specific transcription initiatio RRN3; heat
repeat, transcription factor, nucleus; 2.85A
{Saccharomyces cerevisiae}
Length = 649
Score = 31.0 bits (69), Expect = 0.37
Identities = 21/120 (17%), Positives = 36/120 (30%), Gaps = 8/120 (6%)
Query: 40 RGSKEGKRALEEGKRASEEGKRGSKEGKRASDEGKRASEEGKRASEEGKRASEEGKRASE 99
RGS A E + + + K+ + ++ EE K S
Sbjct: 17 RGSHMAMMAFENTSKRPPQDFVAPIDQKKRKVQFSDSTGLVTLQPEEIKDEVFSAAMYSR 76
Query: 100 EGKRA---SEEGKGVQLDIIKC-----RKCGEEVTQTRLESYLSALEFIEAQLDRMKHTS 151
K A ++ Q+ II K E + L L L +++ + T
Sbjct: 77 FVKSALDDLDKNDSTQIGIIANQVALPSKNPERINDKNLNILLDILSSNINRIESSRGTF 136
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.39
Identities = 13/81 (16%), Positives = 27/81 (33%), Gaps = 5/81 (6%)
Query: 27 ASEEGKRASEEGKRGSKEGKRALEEGKRASEEGKRGSKEGKRASDEGKRASEEGKRASEE 86
A + E R +E E+ KR E + ++ K+ EE + E
Sbjct: 75 AQADRLTQEPESIRKWRE-----EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE 129
Query: 87 GKRASEEGKRASEEGKRASEE 107
++ R +++ +
Sbjct: 130 QVEKNKINNRIADKAFYQQPD 150
Score = 29.0 bits (64), Expect = 1.1
Identities = 11/62 (17%), Positives = 21/62 (33%)
Query: 25 KRASEEGKRASEEGKRGSKEGKRALEEGKRASEEGKRGSKEGKRASDEGKRASEEGKRAS 84
K E+ KR E + E+ K+ EE + E + R +++
Sbjct: 89 KWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQ 148
Query: 85 EE 86
+
Sbjct: 149 PD 150
>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 = 29.2 bits (65), Expect = 0.88
Identities = 6/32 (18%), Positives = 12/32 (37%), Gaps = 1/32 (3%)
Query: 97 ASEEGKRASEEGKGVQLDI-IKCRKCGEEVTQ 127
+ E +G L+I + C +C +
Sbjct: 2 MTRESIDKRAGRRGPNLNIVLTCPECKVYPPK 33
Score = 26.6 bits (58), Expect = 6.1
Identities = 10/65 (15%), Positives = 19/65 (29%), Gaps = 13/65 (20%)
Query: 76 ASEEGKRASEEGKRASEEGKRA-----SEEGKRASEEGKGVQLDIIKCRKCG----EEVT 126
+ E + + K +G D++ C CG +++
Sbjct: 2 MTRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEG---DVV-CALCGLVLSDKLV 57
Query: 127 QTRLE 131
TR E
Sbjct: 58 DTRSE 62
>2k6m_S Supervillin; SVHP, HP, headpiece, archvillin, actin capping,
actin-binding, alternative splicing, calcium, cytoplasm,
cytoskeleton, membrane; NMR {Homo sapiens} PDB: 2k6n_A
Length = 67
Score = 26.9 bits (60), Expect = 1.2
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 113 LDIIKCRKCGEEVTQTRLESYLSALEFIEA 142
L + R E V +LE YL+ +F A
Sbjct: 12 LADLLARPLPEGVDPLKLEIYLTDEDFEFA 41
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z
1pnu_T 1pny_T 1vor_W ...
Length = 237
Score = 28.2 bits (63), Expect = 2.1
Identities = 11/68 (16%), Positives = 22/68 (32%), Gaps = 5/68 (7%)
Query: 26 RASEEGKRASEEGKRGSKEGKRALEEGKRASEEGKRGSKEGKRASDEGKRASEEGKRASE 85
R + E A + + + SEE EG + +E K + E ++
Sbjct: 175 RLTAEELEAEVQAAQVAGL-----VAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTD 229
Query: 86 EGKRASEE 93
+ +
Sbjct: 230 SEDNSDAQ 237
Score = 27.4 bits (61), Expect = 3.5
Identities = 12/56 (21%), Positives = 16/56 (28%)
Query: 55 ASEEGKRGSKEGKRASDEGKRASEEGKRASEEGKRASEEGKRASEEGKRASEEGKG 110
A E SEE A EG + EE K + E ++
Sbjct: 178 AEELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDN 233
>2gvi_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; 1.87A {Thermoplasma acidophilum} SCOP: d.81.3.1
g.39.1.18
Length = 204
Score = 27.8 bits (61), Expect = 2.4
Identities = 10/81 (12%), Positives = 20/81 (24%)
Query: 50 EEGKRASEEGKRGSKEGKRASDEGKRASEEGKRASEEGKRASEEGKRASEEGKRASEEGK 109
S + K+ + + + E +E E + E
Sbjct: 107 SFMDELSTRASDFFRYRKQGYEPSEIPAGAIDPVLEWISSLEDEEIFEYREIDGFTFEPV 166
Query: 110 GVQLDIIKCRKCGEEVTQTRL 130
++C CGE +
Sbjct: 167 KKNGAKVRCDVCGEYTYEADA 187
>3d00_A Tungsten formylmethanofuran dehydrogenase subunit; FWDE/GAPDH
domain-like fold, structural genomics, joint CENT
structural genomics; HET: MSE; 1.90A {Syntrophus
aciditrophicus}
Length = 191
Score = 27.3 bits (60), Expect = 3.6
Identities = 16/113 (14%), Positives = 34/113 (30%), Gaps = 8/113 (7%)
Query: 17 GKRGLKEGKRASEEGKRASEEGKRGSKEGKRALEEGKRASEEGKRGSKEGKRASDEGKRA 76
G L G A + + EG R + ++ + + K +
Sbjct: 73 GNGWLT----VLPMGLFAVSLYDKFTGEGVRVFLDVEKMGPWQEIRNWFLK----LKTKK 124
Query: 77 SEEGKRASEEGKRASEEGKRASEEGKRASEEGKGVQLDIIKCRKCGEEVTQTR 129
++ +R +E + A + + K + I+ C +C E
Sbjct: 125 EQDSERLFKEIREAGPDILELRNVKLKPGFLEKKHKGKIVLCPQCREAYPAQD 177
>1qzp_A Dematin; villin headpiece, actin binding domain, protein binding;
NMR {Homo sapiens} SCOP: a.14.1.1 PDB: 1zv6_A
Length = 68
Score = 25.5 bits (56), Expect = 4.6
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 123 EEVTQTRLESYLSALEFIEA 142
V + RLE +LSA +F
Sbjct: 23 PGVDRMRLERHLSAEDFSRV 42
>1x4l_A Skeletal muscle LIM-protein 3; LIM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 72
Score = 25.2 bits (55), Expect = 5.9
Identities = 5/22 (22%), Positives = 8/22 (36%)
Query: 117 KCRKCGEEVTQTRLESYLSALE 138
C C ++ Y+S E
Sbjct: 7 GCAGCTNPISGLGGTKYISFEE 28
>2ch7_A Methyl-accepting chemotaxis protein; receptor, four-helix bundle,
signal transduction, methyl-accepting receptor; 2.5A
{Thermotoga maritima} SCOP: h.4.5.1 PDB: 2ch7_B
Length = 309
Score = 26.5 bits (59), Expect = 7.6
Identities = 12/81 (14%), Positives = 34/81 (41%)
Query: 27 ASEEGKRASEEGKRGSKEGKRALEEGKRASEEGKRGSKEGKRASDEGKRASEEGKRASEE 86
+ EE +A+EE + ++ E +E S+E A++ ++++
Sbjct: 17 SIEEISKANEEITNQLLGISKEMDNISTRIESISASVQETTAGSEEISSATKNIADSAQQ 76
Query: 87 GKRASEEGKRASEEGKRASEE 107
+++ + ++E A ++
Sbjct: 77 AASFADQSTQLAKEAGDALKK 97
Score = 26.5 bits (59), Expect = 9.0
Identities = 17/93 (18%), Positives = 32/93 (34%)
Query: 15 KEGKRGLKEGKRASEEGKRASEEGKRGSKEGKRALEEGKRASEEGKRGSKEGKRASDEGK 74
E ++EG + ++E + L+ A EE E A E
Sbjct: 201 SEITARVEEGTKLADEADEKLNSIVGAVERINEMLQNIAAAIEEQTAAVDEITTAMTENA 260
Query: 75 RASEEGKRASEEGKRASEEGKRASEEGKRASEE 107
+ +EE + +E +E ++EE +
Sbjct: 261 KNAEEITNSVKEVNARLQEISASTEEVTSRVQT 293
>3s99_A Basic membrane lipoprotein; ssgcid, structural genomics, SEA
structural genomics center for infectious disease,
adenine; HET: ADE; 2.05A {Brucella melitensis biovar
abortus}
Length = 356
Score = 26.7 bits (59), Expect = 8.0
Identities = 14/58 (24%), Positives = 26/58 (44%)
Query: 15 KEGKRGLKEGKRASEEGKRASEEGKRGSKEGKRALEEGKRASEEGKRGSKEGKRASDE 72
KEG + ++ K+ +EE + K G+ G ++G K G++A D+
Sbjct: 281 KEGLVKMAPFTNMPDDVKKLAEETEARIKSGELNPFTGPIKKQDGSEWLKAGEKADDQ 338
>2qr4_A Peptidase M3B, oligoendopeptidase F; structural genomics, PSI-2,
protein ST initiative; 2.50A {Enterococcus faecium}
Length = 587
Score = 26.6 bits (59), Expect = 8.2
Identities = 15/57 (26%), Positives = 19/57 (33%), Gaps = 9/57 (15%)
Query: 137 LEFIEAQLDRMKHTSYRTTLEVGFE-SIH----SGQSLVPESIQKSLMDIKYDVEKK 188
+ LD K T +R T FE +H G L E L D + K
Sbjct: 422 AYVLNHYLDGFKGTVFRQTQFAEFEHFMHTEDEKGVPLTSE----YLSDSYGKLNAK 474
>3ce2_A Putative peptidase; structural genomics, unknown function, P
protein structure initiative; 2.60A {Chlamydophila
abortus}
Length = 618
Score = 26.6 bits (59), Expect = 9.1
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 9/57 (15%)
Query: 137 LEFIEAQLDRMKHTSYRTTLEVGFE-SIH----SGQSLVPESIQKSLMDIKYDVEKK 188
+ + LD + T +R L FE IH G L E L +++ +
Sbjct: 455 ITILTRCLDTIFSTLFRQVLFASFEYDIHHAAEHGVPLTEE----YLSSTYKNLQNE 507
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
0.305 0.125 0.332
Gapped
Lambda K H
0.267 0.0536 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,292,085
Number of extensions: 194045
Number of successful extensions: 258
Number of sequences better than 10.0: 1
Number of HSP's gapped: 237
Number of HSP's successfully gapped: 39
Length of query: 233
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 143
Effective length of database: 4,188,903
Effective search space: 599013129
Effective search space used: 599013129
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 56 (25.8 bits)