RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11311
(499 letters)
>3ny3_A E3 ubiquitin-protein ligase UBR2; zinc finger-like, ubiquitin
ligase, protein binding, lygase,; 1.60A {Homo sapiens}
PDB: 3ny2_A 3ny1_A
Length = 75
Score = 56.1 bits (135), Expect = 2e-10
Identities = 19/73 (26%), Positives = 24/73 (32%), Gaps = 10/73 (13%)
Query: 60 CNKLCTYTITQKEFMNQHWYHCHTCKMIDGVGVCSVCAQV-CHKNHDIT-YSKFGNFFCD 117
LC E Y C C + +C C H++H + G FCD
Sbjct: 3 LGSLCGRVFKVGEPT----YSCRDCAVDPTCVLCMECFLGSIHRDHRYRMTTSGGGGFCD 58
Query: 118 CG----AKENGQC 126
CG KE C
Sbjct: 59 CGDTEAWKEGPYC 71
>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 = 58.9 bits (142), Expect = 3e-09
Identities = 78/482 (16%), Positives = 140/482 (29%), Gaps = 164/482 (34%)
Query: 2 SEFIVALFPKGLNKSLAECVGESEAFPPPLDLDIEWNDDVTHDDDEDSAGDESDEDSLCN 61
+ I L++ + + + F L++ +EW ++ + D+D L +
Sbjct: 185 GDLIKFSAET-LSELIRTTLDAEKVFTQGLNI-LEWLEN---------PSNTPDKDYLLS 233
Query: 62 -----------KLCTYTITQKEFMNQHWYHCHTCKMIDGVGVCS---VCAQVC------- 100
+L Y +T K + + G S V A
Sbjct: 234 IPISCPLIGVIQLAHYVVTAK---LLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE 290
Query: 101 --HKNHD--ITYSKFGNFFCDCGAKENGQCLALTKRNPQES-SAAMSSASLSHQESSSMP 155
+ IT FF G + P S ++ SL + E P
Sbjct: 291 SFFVSVRKAITVL----FFI--GVR--CYEAY-----PNTSLPPSILEDSLENNEGV--P 335
Query: 156 SSLRQRSSFEPILSNSYHYMYDDNYYGYNQIKIENLREKL---GPESSAAMSSASL--SH 210
S P+LS S Q ++++ K P SL
Sbjct: 336 S---------PMLSIS----------NLTQEQVQDYVNKTNSHLPAGKQV--EISLVNGA 374
Query: 211 QES--SSMPSSLRQ-RSSFEPILSNSYHYMYDDNYYGYNQIKIENLREKLGPVSPNIFDR 267
+ S P SL + + S G +Q +I K N F
Sbjct: 375 KNLVVSGPPQSLYGLNLTLRKAKAPS----------GLDQSRIPFSERK--LKFSNRF-- 420
Query: 268 IWEILPPILEVF--KEMTPALKAGIAKTSPVGVFDRVSHGLFQLQNMQHKFVENTDNLMV 325
LP + F + PA D ++ L +++ N ++ +
Sbjct: 421 ----LP-VASPFHSHLLVPAS-------------DLINKDL-----VKNNVSFNAKDIQI 457
Query: 326 PVMGSQEGAFENVRMNLNGDQGQTIRQLISNNSIRRTCMCILSSP-------QSKRQHLV 378
PV + G +R L S + R CI+ P Q K H++
Sbjct: 458 PV--------------YDTFDGSDLRVL-SGSISERIVDCIIRLPVKWETTTQFKATHIL 502
Query: 379 AVSHEKGKITLLQLSGLLKQIDSSKRKLTLIKLASVSLPITILSVEANPCNEELLAVCGL 438
+ G L L + + T +++ +++ NP +++ G
Sbjct: 503 ----DFGPGGASGLGVLTHRN----KDGTGVRVIVAG------TLDINP-DDDY----GF 543
Query: 439 KE 440
K+
Sbjct: 544 KQ 545
Score = 38.5 bits (89), Expect = 0.005
Identities = 46/268 (17%), Positives = 82/268 (30%), Gaps = 95/268 (35%)
Query: 240 DNY----YGYNQIKI--EN---------------LREKLGPVSPNIFDRIWEILPPILEV 278
DN+ YG++ + I N +RE + IF+ I + ++
Sbjct: 1650 DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAM---IFETIVDGKLKTEKI 1706
Query: 279 FKEMTPALKAGIAKTSPVGVFDR----------VSHGLFQLQNMQHKFVENTDNLMVPVM 328
FKE+ S G+ + F+ ++ K + D
Sbjct: 1707 FKEINEHST-SYTFRSEKGLLSATQFTQPALTLMEKAAFED--LKSKGLIPADATF---A 1760
Query: 329 G----------SQEGA--FENV------RMNLNGDQGQTIRQLISNNSIRRTC--MC--- 365
G S E++ R G T++ + + + R+ M
Sbjct: 1761 GHSLGEYAALASLADVMSIESLVEVVFYR-------GMTMQVAVPRDELGRSNYGMIAIN 1813
Query: 366 ----ILSSPQSKRQHLVA-VSHEKGKITLLQ------------LSGLLKQIDSSKRKLTL 408
S Q Q++V V G L++ +G L+ +D+ L
Sbjct: 1814 PGRVAASFSQEALQYVVERVGKRTGW--LVEIVNYNVENQQYVAAGDLRALDTVTNVLNF 1871
Query: 409 IKLASVS---LPITILSVEANPCNEELL 433
IKL + L + LS+E L
Sbjct: 1872 IKLQKIDIIELQKS-LSLE--EVEGHLF 1896
>3nis_A E3 ubiquitin-protein ligase UBR1; E3 ubiquitin ligase, UBR BOX,
zinc-binding protein, N-END RU ligase, metal binding
protein; 1.68A {Saccharomyces cerevisiae} PDB: 3nii_A
3nij_A 3nih_A 3nik_A 3nim_A 3nin_A 3nil_A 3nit_A
Length = 82
Score = 48.9 bits (116), Expect = 8e-08
Identities = 18/80 (22%), Positives = 25/80 (31%), Gaps = 12/80 (15%)
Query: 55 DEDSLCNKLCTYTITQKEFMNQHWYHCHTCKMIDGVGVCSVCAQV-CHKNHDITY---SK 110
+ C E + Y CH C D +C C H NH + ++
Sbjct: 2 SVHKHTGRNCGRKFKIGEPL----YRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTE 57
Query: 111 FGNFFCDCGA----KENGQC 126
F + CDCG C
Sbjct: 58 FTSGICDCGDEEAWNSPLHC 77
>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 = 40.2 bits (93), Expect = 0.002
Identities = 38/231 (16%), Positives = 76/231 (32%), Gaps = 65/231 (28%)
Query: 146 LSHQESSSMPSSLRQRSSFEPILSNSYHYMYDDNYYGYNQIKIENLREKLGPESSAAMSS 205
+ + + + L + S E S + Y L K+ E+ A+
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPS--IY---------LELKVKLENEYAL-- 445
Query: 206 ASLSHQ---ESSSMPSSLRQRSSFEPILSNSYHYMYDDNYYGYNQIKIEN---------- 252
H+ + ++P + P L Y Y ++ G++ IE+
Sbjct: 446 ----HRSIVDHYNIPKTFDSDDLIPPYLDQ---YFY--SHIGHHLKNIEHPERMTLFRMV 496
Query: 253 ------LREKLGPVSPNIFDRIWEILPPILEVFKEMTPALKAGIAKTSPVGVFDRVSHGL 306
L +K+ S W IL +++ K I P ++R+ + +
Sbjct: 497 FLDFRFLEQKIRHDSTA-----WNASGSILNTLQQLK-FYKPYICDNDP--KYERLVNAI 548
Query: 307 --FQLQNMQHKFV--ENTDNLMVPVMGSQEGAFENVRMNLNGDQGQTIRQL 353
F L ++ + + TD L + +M E FE + +Q+
Sbjct: 549 LDF-LPKIEENLICSKYTDLLRIALMAEDEAIFE-----------EAHKQV 587
Score = 36.8 bits (84), Expect = 0.018
Identities = 34/234 (14%), Positives = 64/234 (27%), Gaps = 94/234 (40%)
Query: 1 MSEFIVALFPKGLNKSLAECVGESEAFP-----PPLDLDIEWNDDVTHDDDEDSAGDESD 55
+ + L P K FP P + L + W D + D
Sbjct: 359 IESSLNVLEPAEYRKMFDRLS----VFPPSAHIPTILLSLIWFDVIK-SDVMVVV----- 408
Query: 56 EDSLCNKLCTYTITQKEFMNQHWYHCHTCKMIDGVGVCSVCAQVCHKNHDITYSKFGNFF 115
NKL Y++ +K T +
Sbjct: 409 -----NKLHKYSLVEK------QPKESTISI-----------------PS---------- 430
Query: 116 CDCGAKENGQCLALTKRNPQESSAAMSSASLSHQ---ESSSMPSSLRQRSSFEPILSNSY 172
+ L + E+ A+ H+ + ++P + P L
Sbjct: 431 -----------IYLELKVKLENEYAL------HRSIVDHYNIPKTFDSDDLIPPYLDQ-- 471
Query: 173 HYMYDDNYYGYNQIKIEN----------------LREKLGPESSAAMSSASLSH 210
Y Y ++ G++ IE+ L +K+ +S+A +S S+ +
Sbjct: 472 -YFY--SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN 522
Score = 36.4 bits (83), Expect = 0.026
Identities = 55/424 (12%), Positives = 119/424 (28%), Gaps = 109/424 (25%)
Query: 31 LDLDIEWNDDVTHDDDEDSAGD----ESDEDSLCN---KLCTYTITQKEFMNQHWYHCHT 83
L ++ ++ + + D L N Y +++ + +
Sbjct: 87 LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK--LRQAL 144
Query: 84 CKM-------IDGVG-------VCSVCAQ---VCHKNHDITYSKFGNFFCDCGAKENGQ- 125
++ IDGV VC C + I + N E Q
Sbjct: 145 LELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204
Query: 126 -CLALTKRNPQESSAAMSSASLSHQESSSMPSSLRQRSSFEP---ILSNSYHYMYDDNYY 181
+ N S S+ L + L + +E +L N
Sbjct: 205 LLYQIDP-NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL---------LNVQ 254
Query: 182 GYNQIKIENLREKL-----GPESSAAMSSASLSHQESSSMPSSLRQRSSFEPILSNSYHY 236
NL K+ + + +S+A+ +H +L +L
Sbjct: 255 NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS-LLLK---- 309
Query: 237 MYDDNYYGYNQIKIENLREKLGPVSPNIFDRIWEIL---PPILEVFK-----EMTPALKA 288
Y + ++L ++ +P I E + + +K ++T +++
Sbjct: 310 --------YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 289 GIAKTSPVGVFDRVSHGLFQLQNMQHKFVENTDNLMVPVMGSQEGAF-ENVRMNLNGDQG 347
+ P + F D L V F + +
Sbjct: 362 SLNVLEP--------------AEYRKMF----DRLSV---------FPPSAHIPT----- 389
Query: 348 QTIRQLISNNSIRRTCMCILSSPQSKRQHLVAVSHEKGKITL--LQLSGLLKQIDSSK-- 403
+ LI + I+ M +++ LV ++ I++ + L L ++++
Sbjct: 390 ILL-SLIWFDVIKSDVMVVVNKLHKYS--LVEKQPKESTISIPSIYLE-LKVKLENEYAL 445
Query: 404 -RKL 406
R +
Sbjct: 446 HRSI 449
>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 = 33.4 bits (75), Expect = 0.073
Identities = 6/28 (21%), Positives = 15/28 (53%), Gaps = 4/28 (14%)
Query: 184 NQIK-IENLREKL-GPESSAAMS-SASL 208
+K ++ KL +S+ A++ A++
Sbjct: 20 QALKKLQA-SLKLYADDSAPALAIKATM 46
>2yvr_A Transcription intermediary factor 1-beta; ZF-B_BOX domain,
structural genomics, NPPSFA; 1.80A {Homo sapiens}
Length = 50
Score = 29.7 bits (67), Expect = 0.20
Identities = 7/30 (23%), Positives = 10/30 (33%), Gaps = 4/30 (13%)
Query: 79 YHCHTCKMIDGVGVCSVCAQVCHKNHDITY 108
C +C C C HK+H +
Sbjct: 19 LFCESCD----TLTCRDCQLNAHKDHQYQF 44
>2csv_A Tripartite motif protein 29; ZF-B_BOX domain, TRIM29,
ataxia-telangiectasia group D-associated protein, ATDC,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.43.1.1
Length = 72
Score = 28.1 bits (63), Expect = 1.1
Identities = 8/28 (28%), Positives = 11/28 (39%), Gaps = 4/28 (14%)
Query: 79 YHCHTCKMIDGVGVCSVCAQVCHKNHDI 106
C T + +C +C HKNH
Sbjct: 30 LFCQTDQTC----ICYLCMFQEHKNHST 53
>2g23_A PHS, phenoxazinone synthase; copper, metalloprotein, laccase,
multicopper oxidase, hexamer; 2.30A {Streptomyces
antibioticus} PDB: 3gyr_A
Length = 612
Score = 29.1 bits (64), Expect = 3.6
Identities = 5/20 (25%), Positives = 5/20 (25%)
Query: 65 TYTITQKEFMNQHWYHCHTC 84
Q WYH H
Sbjct: 156 LSEYPNDHQATQWWYHDHAM 175
>2yuu_A NPKC-delta, protein kinase C delta type; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 83
Score = 26.7 bits (59), Expect = 4.7
Identities = 8/28 (28%), Positives = 10/28 (35%), Gaps = 5/28 (17%)
Query: 80 HCHTCK-MIDGVG----VCSVCAQVCHK 102
C CK + G+ C C HK
Sbjct: 30 FCSVCKDFVWGLNKQGYKCRQCNAAIHK 57
>2zwn_A Two-domain type laccase; muticopper oxidase, oxidoreductase; 1.70A
{Metagenomes}
Length = 339
Score = 28.1 bits (63), Expect = 6.8
Identities = 8/33 (24%), Positives = 12/33 (36%), Gaps = 11/33 (33%)
Query: 65 TYTITQKEFMNQ---HWYHCHT----CKMIDGV 90
TY ++ WYHCH + G+
Sbjct: 90 TYKFK----ADRIGTLWYHCHVNVNEHVGVRGM 118
>2bw4_A Copper-containing nitrite reductase; oxidoreductase,
denitrification, catalysis, enzyme mechanism, nitrate
assimilation; 0.90A {Achromobacter cycloclastes} SCOP:
b.6.1.3 b.6.1.3 PDB: 1nib_A 1nia_A 1nid_A 1nie_A 1nic_A
1nif_A 2bw5_A 2bwd_A 2bwi_A 2nrd_A 2y1a_A 1kcb_A 1rzp_A*
1rzq_A 2avf_A 1as6_A 1aq8_A 1as7_A 1as8_A 2afn_A ...
Length = 340
Score = 28.3 bits (63), Expect = 6.8
Identities = 4/11 (36%), Positives = 5/11 (45%)
Query: 77 HWYHCHTCKMI 87
YHC M+
Sbjct: 132 FVYHCAPEGMV 142
>1rfh_A RAS association (ralgds/AF-6) domain family 5; zinc, signal
transduction, apoptosis, cysteine rich domain, metal
binding protein; NMR {Mus musculus}
Length = 59
Score = 25.6 bits (56), Expect = 7.0
Identities = 7/36 (19%), Positives = 12/36 (33%), Gaps = 6/36 (16%)
Query: 73 FMNQHWYH----CHTC-KMIDGVGV-CSVCAQVCHK 102
F+ C C + + + C+ C CH
Sbjct: 13 FVELALRGGPGWCDLCGREVLRQALRCANCKFTCHS 48
>2enn_A NPKC-theta, protein kinase C theta type; zinc binding,
DAG/PE-binding protein, diacylglycerol, phorbol ester,
TCR, T-cell, structural genomics; NMR {Homo sapiens}
Length = 77
Score = 25.9 bits (57), Expect = 8.6
Identities = 7/28 (25%), Positives = 9/28 (32%), Gaps = 5/28 (17%)
Query: 80 HCHTCK-MIDGVG----VCSVCAQVCHK 102
C C + G+ C C HK
Sbjct: 36 FCSVCHEFVWGLNKQGYQCRQCNAAIHK 63
>1bus_A Proteinase inhibitor IIA; HET: PCA; NMR {Bos taurus} SCOP: g.68.1.1
PDB: 2bus_A*
Length = 57
Score = 25.2 bits (55), Expect = 9.2
Identities = 5/20 (25%), Positives = 6/20 (30%)
Query: 93 CSVCAQVCHKNHDITYSKFG 112
C+ C V I G
Sbjct: 36 CAFCKAVMKSGGKINLKHRG 55
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
0.317 0.131 0.387
Gapped
Lambda K H
0.267 0.0479 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,300,700
Number of extensions: 428202
Number of successful extensions: 1060
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1053
Number of HSP's successfully gapped: 31
Length of query: 499
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 401
Effective length of database: 3,965,535
Effective search space: 1590179535
Effective search space used: 1590179535
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.1 bits)