RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5485
(384 letters)
>1rl1_A Suppressor of G2 allele of SKP1 homolog; beta sandwich, 7 beta
strands, similar to P23, lacking LAST beta strand SEEN
in P23, protein degradation; NMR {Homo sapiens} SCOP:
b.15.1.3
Length = 114
Score = 90.4 bits (224), Expect = 2e-22
Identities = 36/103 (34%), Positives = 52/103 (50%), Gaps = 2/103 (1%)
Query: 196 PTVQNIRHNWYQTEKQVVVDALIKQAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLNL 255
I+++WYQTE QVV+ +IK + V + + +V L S + L L L
Sbjct: 5 THQSKIKYDWYQTESQVVITLMIKNVQKNDVNVEFSEKELSALVKL--PSGEDYNLKLEL 62
Query: 256 YRPIDPTTSSFRILGTKIEVKLAKTSDERWSDLEAKEETKAPS 298
PI P S+F++L TKIE+KL K RW LE + + P
Sbjct: 63 LHPIIPEQSTFKVLSTKIEIKLKKPEAVRWEKLEGQGDVPTPK 105
>2xcm_C SGT1-like protein, cytosolic heat shock protein 90;
chaperone-protein binding complex, stress response; HET:
ADP; 2.20A {Arabidopsis thaliana} PDB: 2jki_S*
Length = 92
Score = 89.5 bits (222), Expect = 2e-22
Identities = 24/92 (26%), Positives = 42/92 (45%), Gaps = 2/92 (2%)
Query: 201 IRHNWYQTEKQVVVDALIKQAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLNLYRPID 260
RH +YQ ++VVV K + ++ + + +V+ + + L L+ I
Sbjct: 3 YRHEYYQKPEEVVVTVFAKGIPKQNVNIDFGEQILSVVIEV--PGEDAYYLQPRLFGKII 60
Query: 261 PTTSSFRILGTKIEVKLAKTSDERWSDLEAKE 292
P + +L TKIE+ LAK W+ LE +
Sbjct: 61 PDKCKYEVLSTKIEICLAKADIITWASLEHGK 92
>1wh0_A Ubiquitin carboxyl-terminal hydrolase 19; USP, CS domain,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: b.15.1.3
Length = 134
Score = 89.0 bits (220), Expect = 1e-21
Identities = 25/128 (19%), Positives = 49/128 (38%), Gaps = 12/128 (9%)
Query: 187 AGTAPPPPTPTVQNIRHNWYQT-EKQVVVDALIKQAKAETTQVNIDQNSVDIVVTL---- 241
+G P + ++++ Y+ VVV +K+ +T++V + ++
Sbjct: 6 SGVDEPESMVNLAFVKNDSYEKGPDSVVVHVYVKEICRDTSRVLFREQDFTLIFQTRDGN 65
Query: 242 ------DPSSSTQHRLHLNLYRPIDPTTSSFRILGTKIEVKLAKTSDERWSDLEAKE-ET 294
T R + L I+P +F ++I++ L K +RW LEA
Sbjct: 66 FLRLHPGCGPHTTFRWQVKLRNLIEPEQCTFCFTASRIDICLRKRQSQRWGGLEAPAARV 125
Query: 295 KAPSAPKT 302
S P +
Sbjct: 126 GGASGPSS 133
>1x5m_A Calcyclin-binding protein; CS domain, structural genomics, NPPSFA
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 127
Score = 73.2 bits (179), Expect = 4e-16
Identities = 30/123 (24%), Positives = 51/123 (41%), Gaps = 9/123 (7%)
Query: 185 SVAGTAPPPPTPTVQNIRHNWYQTEKQVVVDALIK---QAKAETTQVNIDQNSVDIVVTL 241
S AP TV+ + W Q++K V + + Q E QV+ + S D++V
Sbjct: 5 SSGVVAPITTGYTVKISNYGWDQSDKFVKIYITLTGVHQVPTENVQVHFTERSFDLLVK- 63
Query: 242 DPSSSTQHRLHLNLYRPIDPTTSSFRILGTKIEVKLAKTSDE-RWSDLEAKE----ETKA 296
+ + + + NL +PI SS ++ + + K + RW L E E
Sbjct: 64 NLNGKSYSMIVNNLLKPISVEGSSKKVKTDTVLILCRKKVENTRWDYLTQVEKECKEKSG 123
Query: 297 PSA 299
PS+
Sbjct: 124 PSS 126
>1ejf_A Progesterone receptor P23; chaperone, CO-chaperone, beta-sandwich;
2.49A {Homo sapiens} SCOP: b.15.1.2
Length = 125
Score = 65.7 bits (160), Expect = 2e-13
Identities = 23/127 (18%), Positives = 48/127 (37%), Gaps = 12/127 (9%)
Query: 205 WYQTEKQVVVDALIKQAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLNLYRPIDPTTS 264
WY V ++ ++ +K VN +++ + + +H ++L+ IDP S
Sbjct: 8 WYDRRDYVFIEFCVEDSKDV--NVNFEKSKLTFSCLGGSDNF-KHLNEIDLFHCIDPNDS 64
Query: 265 SFRILGTKIEVKLAK-TSDERWSDLEAKEETKAPSAPKTPYKRDWDKVAQQIEDEKKEGE 323
+ I L K S + W L KE K D++ + ++ + +
Sbjct: 65 KHKRTDRSILCCLRKGESGQSWPRLT-KERAKLNWL-----SVDFNN--WKDWEDDSDED 116
Query: 324 AALNELF 330
+ + F
Sbjct: 117 MSNFDRF 123
>2kmw_A Uncharacterized protein AT3G03773; protein structure initiative,
center for eukaryotic structural genomics, CESG,
structural genomics; NMR {Arabidopsis thaliana}
Length = 150
Score = 64.2 bits (156), Expect = 1e-12
Identities = 29/146 (19%), Positives = 45/146 (30%), Gaps = 14/146 (9%)
Query: 195 TPTVQNIRHNWYQTEKQVVVDALIKQAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLN 254
P V W Q +V + + AK V + + + + + L
Sbjct: 4 NPEVL-----WAQRSDKVYLTVALPDAKDI--SVKCEPQGL-FSFSALGAQGERFEFSLE 55
Query: 255 LYRPIDPTTSSFRILGTKIEVKLAKTSDERWSDLEAKEETKAPSAPKTPYKRDWDKVAQQ 314
LY I + I + K W+ L K E K K DW+K +
Sbjct: 56 LYGKIMTE-YRKNVGLRNIIFSIQKEERSWWTRLL-KSEEKPAPYIKV----DWNKWCDE 109
Query: 315 IEDEKKEGEAALNELFQKIYGEGSDE 340
E+ E + F E SD+
Sbjct: 110 DEEVNSETASDDESAFVNQDSESSDD 135
>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 = 57.4 bits (138), Expect = 5e-09
Identities = 88/490 (17%), Positives = 146/490 (29%), Gaps = 161/490 (32%)
Query: 2 RLILNSTATHFGRLTLLK---HSQSSRNQREKQASKTGWEKASRFENAFRIKADPGG--N 56
+L+ + T L+K ++ + + S + +A NA ++ A GG N
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNA-QLVAIFGGQGN 165
Query: 57 RS------RDLGRSFEHFPLVGELFKPLSFTLQTS---------------DLVDSLT--- 92
RDL +++ LVG+L K + TL ++++ L
Sbjct: 166 TDDYFEELRDLYQTYH--VLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 93 -----------AVSTPLSQIEVCCIDRLAKYPKCRFGTRRKLVKLKNASQNFSGTKMEIR 141
+S PL I V +LA Y +V K E+R
Sbjct: 224 NTPDKDYLLSIPISCPL--IGVI---QLAHY----------VVTAKLLGFTPG----ELR 264
Query: 142 DKMPQNEKLNGTMGHPLKFGTVPA----------NLGRLASLLVRIL--TGS-SDVSVAG 188
L G GH G V A + + +L G +
Sbjct: 265 S------YLKGATGHSQ--GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPN 316
Query: 189 TAPPP-------------PTP--TVQNIRHNWYQTEKQVVVDALIKQAKA---ETTQVNI 230
T+ PP P+P ++ N+ Q V + + + QV I
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLT--------QEQVQDYVNKTNSHLPAGKQVEI 368
Query: 231 D-QNSVD-IVVTLDPSSSTQHRLHLNLYRPI--DPTTSSFRILGTKIEVK---------- 276
N +VV+ P S + L+L L R RI ++ ++K
Sbjct: 369 SLVNGAKNLVVSGPPQS--LYGLNLTL-RKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS 425
Query: 277 ------LAKTSDERWSDLEAKEETKAPSAPKTP-YK-RDWDKVAQQIEDEKKEGEAALNE 328
L SD DL + + P Y D D + +
Sbjct: 426 PFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDG-------SDLRVLSGSISER 478
Query: 329 LFQKIYGEGSDEVR--KAMNKS---FLESG-------GTVLSTNWD-----EVKRSTVDI 371
+ I V+ L+ G G + N D + T+DI
Sbjct: 479 IVDCII---RLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDI 535
Query: 372 KPPEGLEYKK 381
P + +K+
Sbjct: 536 NPDDDYGFKQ 545
>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 = 46.8 bits (110), Expect = 1e-05
Identities = 68/376 (18%), Positives = 107/376 (28%), Gaps = 115/376 (30%)
Query: 63 RSFEHFPLVGELFKP----LSFTLQTSDLVDSLTAVSTPLSQIEVCCID--RLAKYPKCR 116
+ F V E+ + L ++T S+ + Q + D AKY R
Sbjct: 77 EMVQKF--VEEVLRINYKFLMSPIKTEQRQPSMMTRMY-IEQRDRLYNDNQVFAKYNVSR 133
Query: 117 FGTRRKLVKLKNASQNF-------------SG----TKMEIRDKMPQNEKLNG----TMG 155
+ +KL+ A SG Q + +
Sbjct: 134 ---LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 156 HPLKFGTVPANLGRLASLLVRILTGSSDVSVAGTAPPPPTPTVQNIRHNWYQTEKQ---- 211
+ TV L +L + T SD S + ++Q K
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHS---SNIKLRIHSIQA-ELRRLLKSKPYENC 246
Query: 212 ------V----VVDA-------LIKQAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLN 254
V +A L+ TT+ + D + S H+
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILL------TTR---FKQVTDFL-------SAATTTHI- 289
Query: 255 LYRPIDPTTSSFRILGTKIEVK--LAKTSDERWSDL--EAKEETKAP------SAPKTPY 304
+D + + T EVK L K D R DL E T P +
Sbjct: 290 ---SLDHHSMTL----TPDEVKSLLLKYLDCRPQDLPREVL--TTNPRRLSIIAESIRDG 340
Query: 305 KRDWDKVAQQIEDEKKEG--EAALNELFQKIYGEGSDEVRK-----AMNKSFLESG---G 354
WD + + +K E++LN L E RK ++ F S
Sbjct: 341 LATWDNW-KHVNCDKLTTIIESSLNVL-------EPAEYRKMFDRLSV---FPPSAHIPT 389
Query: 355 TVLSTNWDEVKRSTVD 370
+LS W +V +S V
Sbjct: 390 ILLSLIWFDVIKSDVM 405
Score = 29.4 bits (65), Expect = 2.6
Identities = 35/197 (17%), Positives = 62/197 (31%), Gaps = 48/197 (24%)
Query: 206 YQTEKQVVVDALIK----QAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLNLYRPIDP 261
Y+ V DA + + + + + + +D ++ + S RL L +
Sbjct: 18 YKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEE 77
Query: 262 TTSSFRILGTKIEVKLAKTSDERWSDLEAKEETKAPSAPKTPY--KRD--------WDKV 311
F +E L + ++ K E + PS Y +RD + K
Sbjct: 78 MVQKF------VEEVLRI--NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 312 AQQIEDEKKEGEAALNELFQK-----IYGEGSDEVRKAMNKSFLESGGTVLSTNWDEVKR 366
+ AL EL + I G + L SG T ++ +V
Sbjct: 130 NVSRLQPYLKLRQALLEL-RPAKNVLIDG---------V----LGSGKTWVAL---DVCL 172
Query: 367 S-TVDIKPPEGLEYKKW 382
S V K + + W
Sbjct: 173 SYKVQCKMDFKI-F--W 186
>1wgv_A KIAA1068 protein; CS domain, HSP20-like fold, structural genomics,
riken structural genomics/proteomics initiative, RSGI,
unknown function; NMR {Homo sapiens} SCOP: b.15.1.4
Length = 124
Score = 41.9 bits (98), Expect = 4e-05
Identities = 20/103 (19%), Positives = 42/103 (40%), Gaps = 5/103 (4%)
Query: 202 RHNWYQTEKQVVVDALIKQAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLNLYRPIDP 261
+ W Q + V + + + QV++ +S I V + + + + L I+
Sbjct: 21 NYTWSQDYTDLEVRVPVPKHVVKGKQVSVALSSSSIRVAMLEENGERVLMEGKLTHKINT 80
Query: 262 TTSSFRIL-GTKIEVKLAKTSDERWSDLEAKEE----TKAPSA 299
+S + + G + V L+K + W+ + EE PS+
Sbjct: 81 ESSLWSLEPGKCVLVNLSKVGEYWWNAILEGEEPIDIDSGPSS 123
>2o30_A Nuclear movement protein; MCSG, structural genomics, PSI-2,
structure initiative; 1.66A {Encephalitozoon cuniculi}
Length = 131
Score = 41.0 bits (96), Expect = 8e-05
Identities = 12/85 (14%), Positives = 32/85 (37%), Gaps = 7/85 (8%)
Query: 205 WYQTEKQVVVD-ALIKQAKAETTQVNIDQNSVDIVVTLDPSSSTQHRLHLNLYRPIDPTT 263
W Q ++ + + A + ++ + + + + + L +D ++
Sbjct: 9 WDQELNEINIQFPVTGDADSSAIKIRMVGKKICVKNQGEIV------IDGELLHEVDVSS 62
Query: 264 SSFRILGTKIEVKLAKTSDERWSDL 288
+ I G ++V + K +E W L
Sbjct: 63 LWWVINGDVVDVNVTKKRNEWWDSL 87
>2cg9_X CO-chaperone protein SBA1; chaperone complex, HSP90, heat shock
protein, ATP-binding, heat shock, nucleotide-binding,
acetylation; HET: ATP; 3.1A {Saccharomyces cerevisiae}
Length = 134
Score = 38.4 bits (89), Expect = 9e-04
Identities = 33/142 (23%), Positives = 54/142 (38%), Gaps = 25/142 (17%)
Query: 195 TPTVQNIRHNWYQTEKQVVVDAL-----IKQAKAETTQVNIDQNSVDIVVTLDPSSS--- 246
P V W Q + + A + ++ I + +++ P
Sbjct: 6 NPQVA-----WAQRSSTTDPERNYVLITVSIADCDAPELTIKPSYIELKAQSKPHVGDEN 60
Query: 247 -TQHRLHLNLYRPIDPTTSSFRI-LGTKIEVKLAK--TSDERWSDLEAKEETKAPSAPKT 302
++LH++LY+ I P + ++ G +KL K E W L KE+ K P
Sbjct: 61 VHHYQLHIDLYKEIIPEKTMHKVANGQHYFLKLYKKDLESEYWPRL-TKEKVKYPYI--- 116
Query: 303 PYKRDWDKVAQQIEDEKKEGEA 324
K D+DK DE+ E EA
Sbjct: 117 --KTDFDKWVD--ADEQDEVEA 134
>2jtt_C Calcyclin-binding protein; S100A6, SIAH-1 interacting protein,
ubiquitination, E3 ligase complex, beta-catenin,
calcium, cell cycle, mitogen; NMR {Mus musculus}
Length = 35
Score = 28.1 bits (62), Expect = 0.40
Identities = 10/29 (34%), Positives = 21/29 (72%)
Query: 324 AALNELFQKIYGEGSDEVRKAMNKSFLES 352
L + +KIY +G D++++ +NK+++ES
Sbjct: 6 EGLMNVLKKIYEDGDDDMKRTINKAWVES 34
>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 = 0.91
Identities = 9/74 (12%), Positives = 28/74 (37%), Gaps = 23/74 (31%)
Query: 282 DERWSDLEAKEETKAPSAPKTPYKRDWDKVAQQIEDEKKEGEAALNELFQKIYGEGSDEV 341
+R +L+A + +++W + A++ +E + + E ++
Sbjct: 95 RKRLQELDAASKVM---------EQEWREKAKKDLEE-----------WNQRQSEQVEKN 134
Query: 342 RKAM---NKSFLES 352
+ +K+F +
Sbjct: 135 KINNRIADKAFYQQ 148
>3ir1_A Outer membrane lipoprotein GNA1946; D-methionine cultured, protein
binding; 2.15A {Neisseria meningitidis}
Length = 245
Score = 29.1 bits (66), Expect = 1.8
Identities = 10/53 (18%), Positives = 18/53 (33%), Gaps = 9/53 (16%)
Query: 311 VAQQIEDEKKEGEAALNELFQKIYGEGSDEVRKAMNKSFLESGGTVLSTNWDE 363
A + D+ + + E + SD + +K F G W+E
Sbjct: 198 SAVKTADKDSQWLKDVTEAYN------SDAFKAYAHKRF---EGYKSPAAWNE 241
>3gxa_A Outer membrane lipoprotein GNA1946; periplasmic, L-methionine
bingding, protein binding; 2.25A {Neisseria
meningitidis}
Length = 275
Score = 29.2 bits (66), Expect = 1.8
Identities = 10/53 (18%), Positives = 18/53 (33%), Gaps = 9/53 (16%)
Query: 311 VAQQIEDEKKEGEAALNELFQKIYGEGSDEVRKAMNKSFLESGGTVLSTNWDE 363
A + D+ + + E + SD + +K F G W+E
Sbjct: 220 SAVKTADKDSQWLKDVTEAYN------SDAFKAYAHKRF---EGYKSPAAWNE 263
>2yus_A SWI/SNF-related matrix-associated actin- dependent regulator of
chromatin subfamily...; SWI/SNF complex 155 kDa subunit,
BRG1-associated factor 155; NMR {Homo sapiens}
Length = 79
Score = 26.8 bits (59), Expect = 3.5
Identities = 9/44 (20%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 278 AKTSDERWSDLEAKEETKAPSAPKTPYKRDWDKVAQQIEDEKKE 321
++ W++ +E A + YK DW+KV++ + ++
Sbjct: 14 GASAGREWTE---QETLLLLEALEM-YKDDWNKVSEHVGSRTQD 53
>2dba_A Smooth muscle cell associated protein-1, isoform 2;
tetratricopeptide repeat, structural genomics, NPPSFA;
NMR {Homo sapiens}
Length = 148
Score = 27.3 bits (61), Expect = 5.4
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 290 AKEETKAPSAPKTPYKRDWDKVAQQIEDEKKEGEAALNELFQK 332
+ S P TP R A +E +KEG NELF+
Sbjct: 3 SGSSGMTVSGPGTPEPRPATPGASSVEQLRKEG----NELFKC 41
>3mlg_A Putative uncharacterized protein, linker, putativ uncharacterized
protein; knot, designed protein, fusion protein, chimera
protein; 2.29A {Helicobacter pylori}
Length = 189
Score = 26.9 bits (59), Expect = 8.6
Identities = 7/45 (15%), Positives = 17/45 (37%), Gaps = 2/45 (4%)
Query: 318 EKKEGEAALNELFQKIYG--EGSDEVRKAMNKSFLESGGTVLSTN 360
EK++ E + + E ++ ++S +LS +
Sbjct: 49 EKEDLEEKFESFAKALRIDEELQQKIESRKTDIVIQSMANILSGS 93
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
0.313 0.129 0.372
Gapped
Lambda K H
0.267 0.0766 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,628,307
Number of extensions: 323249
Number of successful extensions: 590
Number of sequences better than 10.0: 1
Number of HSP's gapped: 578
Number of HSP's successfully gapped: 28
Length of query: 384
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 289
Effective length of database: 4,049,298
Effective search space: 1170247122
Effective search space used: 1170247122
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.0 bits)