RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8492
(489 letters)
>1gvj_A C-ETS-1 protein, P54; transcription, autoinhibition, ETS domain;
1.53A {Homo sapiens} SCOP: a.4.5.21 PDB: 1md0_A 1r36_A
1k78_B 1k79_A* 1k7a_A* 2stt_A* 2stw_A*
Length = 146
Score = 67.2 bits (163), Expect = 1e-13
Identities = 44/61 (72%), Positives = 51/61 (83%), Gaps = 2/61 (3%)
Query: 429 YPNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHAMVDLKPDKK 486
P + K +R RYYYDKNIIHKTAGKRYVYRFVCDLQ+LLGY+PEELHAM+D+KPD
Sbjct: 86 KPKMNYEKLSRGLRYYYDKNIIHKTAGKRYVYRFVCDLQSLLGYTPEELHAMLDVKPDAD 145
Query: 487 D 487
+
Sbjct: 146 E 146
>2nny_A C-ETS-1 protein, P54; protein-DNA complex, transcription/DNA
complex; 2.58A {Homo sapiens} PDB: 3ri4_A 3mfk_A 1mdm_B
Length = 171
Score = 67.6 bits (164), Expect = 2e-13
Identities = 43/60 (71%), Positives = 50/60 (83%), Gaps = 2/60 (3%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHAMVDLKPDKKD 487
P + K +R RYYYDKNIIHKTAGKRYVYRFV DLQ+LLGY+PEELHAM+D+KPD +
Sbjct: 112 PKMNYEKLSRGLRYYYDKNIIHKTAGKRYVYRFVSDLQSLLGYTPEELHAMLDVKPDADE 171
>1x9z_A DNA mismatch repair protein MUTL; alpha-beta fold, dimer,
replication, signaling protein; HET: DNA MSE; 2.10A
{Escherichia coli} SCOP: d.292.1.1
Length = 188
Score = 61.6 bits (150), Expect = 2e-11
Identities = 17/96 (17%), Positives = 38/96 (39%), Gaps = 5/96 (5%)
Query: 279 VIAQVDKKYIVVLLNKTLLVAFDQHAVDERIRVEKL-FSYGAFLSHP-ITPCVLNLTPQE 336
V+ V ++ + + + + +R +L + P + P L ++ +E
Sbjct: 11 VLTIVHSDCALLERDGNISL-LSLPVAERWLRQAQLTPGEAPVCAQPLLIPLRLKVSAEE 69
Query: 337 INTLSNRQTCLQYYGLEFEFKNTGKCVKVTHVPKCL 372
+ L Q+ L G++F+ + V + VP L
Sbjct: 70 KSALEKAQSALAELGIDFQSD--AQHVTIRAVPLPL 103
>1awc_A Protein (GA binding protein alpha); complex (transcription
regulation/DNA), DNA-binding, nuclear protein, ETS
domain, ankyrin repeats; HET: DNA BRU CBR; 2.15A {Mus
musculus} SCOP: a.4.5.21
Length = 110
Score = 59.4 bits (143), Expect = 3e-11
Identities = 30/59 (50%), Positives = 40/59 (67%), Gaps = 2/59 (3%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHAMVDLKPDKK 486
P + K +R RYYYD ++I K GKR+VY+FVCDL+TL+GYS EL+ +V KK
Sbjct: 48 PTMNYEKLSRALRYYYDGDMICKVQGKRFVYKFVCDLKTLIGYSAAELNRLVIECEQKK 106
>2dao_A Transcription factor ETV6; ETS domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 118
Score = 54.4 bits (130), Expect = 2e-09
Identities = 12/49 (24%), Positives = 22/49 (44%)
Query: 440 RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHAMVDLKPDKKDD 488
R+YY NII K G+R ++RF+ ++ + L + +
Sbjct: 69 RHYYKLNIIRKEPGQRLLFRFMKTPDEIMSGRTDRLEHLESQELSGPSS 117
>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 = 57.9 bits (139), Expect = 5e-09
Identities = 68/549 (12%), Positives = 151/549 (27%), Gaps = 155/549 (28%)
Query: 2 VENFPEH---KREVK-----RRDISRTREKIKPKIVQQQEKENTDTLVKENKCQPNEPKN 53
V++ P+ K E+ + +S T + +++E V+E N
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW--TLLSKQEEMVQKFVEEV-----LRIN 90
Query: 54 YAREVKRSEMVTASHSDPSPRNEMVKETRASVTSLKSKIQQLKEENRKRKRKDIKKIATS 113
Y + + PS M E R L + Q + N R + K+
Sbjct: 91 YKFLMSP---IKTEQRQPSMMTRMYIEQR---DRLYNDNQVFAKYNVSRLQP-YLKL--- 140
Query: 114 FHNKRNLQYLDERPKIT-HS---NGKNDQNYRKQRKEQSLPTEQSNVTLNNERKYCEDNI 169
++ L L + +GK + + + + C+ +
Sbjct: 141 ---RQALLELRPAKNVLIDGVLGSGK-----------TWVALD----VCLSYKVQCKMDF 182
Query: 170 KVDNNLERKTKYCLE-ANEQKPEEAEEIAIEQLEVAKDIYAMKMVENFPEHKREDYEVDG 228
K+ + L N PE E+ +++L D ++ K + +
Sbjct: 183 KI---------FWLNLKNCNSPETVLEM-LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 229 YISREPISQPQYQNIYINKRLVTNTILHDTINKLLVKSFYLN-----ITKESNKLVIAQV 283
+ R + Y+N + +L + N +F L+ T+ K V +
Sbjct: 233 ELRRL-LKSKPYENCLL--------VLLNVQNAKAWNAFNLSCKILLTTR--FKQVTDFL 281
Query: 284 DKKYIVVLLNKTLLVAFDQHAVDERIRVEKLFSYGAFLSHP----------ITPCVLNLT 333
+ + DE V+ L +L P L++
Sbjct: 282 SAATTTHISLDHHSMTLTP---DE---VKSLLL--KYLDCRPQDLPREVLTTNPRRLSII 333
Query: 334 PQEINTLSNRQTCLQYYGLEFEFKNT-GKCVKV-------------------THVP---- 369
+ I ++ + + + V H+P
Sbjct: 334 AESIRDGLATWDNWKHVNCD-KLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Query: 370 KCLFVKVHKEEDRIRENQTSR---------EPTSTVYDKVCLGRESNPQSSACKHVFPRK 420
++ V K + + N+ + E T ++ + A
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA-------- 444
Query: 421 HHVLRSPMYPNVCLSKFTRRYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHAMVD 480
H + + +D + + +Y Y +G+ H + +
Sbjct: 445 LH--------RSIVDHYNIPKTFDSDDLIPPYLDQYFYSH-------IGH-----H-LKN 483
Query: 481 LKPDKKDDE 489
++ ++
Sbjct: 484 IEHPERMTL 492
Score = 54.9 bits (131), Expect = 5e-08
Identities = 48/394 (12%), Positives = 119/394 (30%), Gaps = 101/394 (25%)
Query: 115 HNKRNLQYLDERPKITHSNGK----NDQNYRKQRKEQSLPTEQSNVTLNNERKYCEDNIK 170
H+ ++ + E + + + + + + ++ E + I
Sbjct: 2 HHHHHMDF--ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE---IDHIIM 56
Query: 171 VDNNLERKTKYCLEANEQKPEEAEEIAIEQLEVAKDIYAMKMVENFPEHKREDYE-VDGY 229
+ + T K EE + +E++ R +Y+ +
Sbjct: 57 SKDAVSG-TLRLFWTLLSKQEEMVQKFVEEVL------------------RINYKFLMSP 97
Query: 230 ISREPISQPQYQNIYINKRLVTNTILHDTINKLLVKSFYLNITKESNKLVIAQV-----D 284
I E +YI +R + + +D N++ K N+++ L + Q
Sbjct: 98 IKTEQRQPSMMTRMYIEQR---DRLYND--NQVFAK---YNVSRLQPYLKLRQALLELRP 149
Query: 285 KKYIVVL----LNKTLLVAFDQHAVDERIRVEKLFSYGAF---LSHPITPCVLNLTPQEI 337
K +++ KT + V +V+ + F L + +P + +
Sbjct: 150 AKNVLIDGVLGSGKTWVAL----DVCLSYKVQCKMDFKIFWLNLKNCNSP---ETVLEML 202
Query: 338 NTLSNRQTCLQYYGLEFEFKNTGKCVKVTHVPKCLFVKVHKEEDRIRENQTSRE-PTS-T 395
L Y ++ + + + +++H + +R S+
Sbjct: 203 QKL--------LYQIDPNWTSRS------DHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
Query: 396 VYDKVCLGRESNPQSSACKHVFPRKHHVLRSPMYPNVCLSKFTRRYYYDKNIIHKTAGKR 455
V V + N + +CK +L T R K + +
Sbjct: 249 VLLNVQNAKAWNAFNLSCK--------IL------------LTTR---FKQVTDFLSAAT 285
Query: 456 YVYRFVCDLQTLLGYSPEELHAM----VDLKPDK 485
+ + + +P+E+ ++ +D +P
Sbjct: 286 TTHISLDHHS--MTLTPDEVKSLLLKYLDCRPQD 317
Score = 51.8 bits (123), Expect = 4e-07
Identities = 60/343 (17%), Positives = 108/343 (31%), Gaps = 87/343 (25%)
Query: 60 RSEMVTASHSDPSPRNEMVKETRASVTS----------LKSKIQQLKEENRKRKRKDIKK 109
R + VT S + + + ++T L + Q L E + +
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332
Query: 110 IATSFHNKRN-----LQYLDERPKITHSNGKNDQN---YRKQRKEQSLPTEQSNVTLN-- 159
IA S + ++ + N YRK S+ +++
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392
Query: 160 ----NERKYCEDNIKVDNNLERKTKYCLEANEQKPEEAEEIAIEQLEV---AKDIYAM-- 210
+ D + V N L KY L +Q E I LE+ ++ YA+
Sbjct: 393 SLIWFDVIK-SDVMVVVNKLH---KYSL-VEKQPKESTISIPSIYLELKVKLENEYALHR 447
Query: 211 KMVENFPEHKREDYE------VDGYISR------EPISQPQ----YQNIYINKRLVTNTI 254
+V+++ K D + +D Y + I P+ ++ ++++ R + I
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
Query: 255 LHDTINKLLVKSFYLNITKESNKLVIAQVD--KKYIVVLLNKTLLVAFDQHAVDERIRVE 312
HD+ S LN + Q+ K YI D ER+
Sbjct: 508 RHDSTAWNASGSI-LN--------TLQQLKFYKPYI-----------CDNDPKYERL--- 544
Query: 313 KLFSYGAFLSHPITPCVLNLTPQEINTLSNRQTCLQYYGLEFE 355
+ + FL E N + ++ T L L E
Sbjct: 545 -VNAILDFLPKI-----------EENLICSKYTDLLRIALMAE 575
>2lf8_A Transcription factor ETV6; auto-inhibition; NMR {Mus musculus}
Length = 128
Score = 52.9 bits (126), Expect = 9e-09
Identities = 13/50 (26%), Positives = 25/50 (50%)
Query: 440 RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHAMVDLKPDKKDDE 489
R+YY NII K G+R ++RF+ ++ + L + D++ +
Sbjct: 65 RHYYKLNIIRKEPGQRLLFRFMKTPDEIMSGRTDRLEHLESQVLDEQTYQ 114
>4avp_A ETS translocation variant 1; transcription, transcriptional
activation and repression, DN binding protein, E
twenty-SIX, erwing sarcoma; 1.82A {Homo sapiens}
Length = 106
Score = 52.1 bits (124), Expect = 9e-09
Identities = 21/47 (44%), Positives = 30/47 (63%), Gaps = 2/47 (4%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEE 474
P + K +R RYYY+K I+ K AG+RYVY+FVCD + L + +
Sbjct: 59 PAMNYDKLSRSLRYYYEKGIMQKVAGERYVYKFVCDPEALFSMAFSD 105
>3kdg_A DNA mismatch repair protein MUTL; endonuclease, DNA damage, DNA
repair, hydrolase; HET: DNA; 2.00A {Bacillus subtilis}
PDB: 3gab_A* 3kdk_A*
Length = 197
Score = 52.9 bits (128), Expect = 3e-08
Identities = 20/81 (24%), Positives = 30/81 (37%), Gaps = 5/81 (6%)
Query: 279 VIAQVDKKYIVVLLNKTLLVAFDQHAVDERIRVEKL---FSYGAFLSHP-ITPCVLNLTP 334
I Q+ YI+ N+ L DQHA ERI+ E I P + +
Sbjct: 11 PIGQMHGTYILAQ-NENGLYIIDQHAAQERIKYEYFREKVGEVEPEVQEMIVPLTFHYST 69
Query: 335 QEINTLSNRQTCLQYYGLEFE 355
E + + L+ G+ E
Sbjct: 70 NEALIIEQHKQELESVGVFLE 90
>3ncv_A DNA mismatch repair protein MUTL; endonuclease, dimer, hydrolase;
HET: DNA; 2.40A {Neisseria gonorrhoeae}
Length = 220
Score = 51.5 bits (124), Expect = 1e-07
Identities = 20/84 (23%), Positives = 33/84 (39%), Gaps = 10/84 (11%)
Query: 279 VIAQVDKKYIVVLLNKTLLVAFDQHAVDERIRVEKLFSYGAFLSHP-------ITPCVLN 331
IAQ+ YI+ + L+ D HA ER+ EK+ + + P
Sbjct: 32 AIAQLLGIYILAQ-AEDSLLLIDMHAAAERVNYEKM--KRQRQENGNLQSQHLLIPVTFA 88
Query: 332 LTPQEINTLSNRQTCLQYYGLEFE 355
+ +E L++ L +GLE
Sbjct: 89 ASHEECAALADHAETLAGFGLELS 112
>1hbx_G ETS-domain protein ELK-4; gene regulation, transcription complex;
3.15A {Homo sapiens} SCOP: a.4.5.21
Length = 157
Score = 49.4 bits (117), Expect = 3e-07
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHAMVDLKPDKKD 487
PN+ K +R RYYY KNII K G+++VY+FV +L P + +
Sbjct: 53 PNMNYDKLSRALRYYYVKNIIKKVNGQKFVYKFVSY-PEILNMDPMTVGRIEGDCESLNF 111
Query: 488 DE 489
E
Sbjct: 112 SE 113
>3jtg_A ETS-related transcription factor ELF-3; ELF3, protein-DNA complex,
type II TGF-beta receptor, activa alternative splicing,
cytoplasm; HET: DNA; 2.20A {Mus musculus}
Length = 103
Score = 47.3 bits (112), Expect = 5e-07
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 5/49 (10%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELH 476
N+ K +R RYYY + I+ + G+R VY+F + G+ EE+
Sbjct: 54 SNMTYEKLSRAMRYYYKREILERVDGRRLVYKFGKN---SSGWKEEEVG 99
>1bc8_C SAP-1, protein (SAP-1 ETS domain); DNA-binding domain, winged
helix-turn-helix, DNA-binding specificity,
transcription/DNA complex; HET: DNA; 1.93A {Homo
sapiens} SCOP: a.4.5.21 PDB: 1bc7_C* 1k6o_A 1dux_C*
Length = 93
Score = 44.6 bits (105), Expect = 3e-06
Identities = 15/28 (53%), Positives = 20/28 (71%)
Query: 440 RYYYDKNIIHKTAGKRYVYRFVCDLQTL 467
RYYY KNII K G+++VY+FV + L
Sbjct: 64 RYYYVKNIIKKVNGQKFVYKFVSYPEIL 91
>1wwx_A E74-like factor 5 ESE-2B; DNA binding, transcriptional activation
and repression, structural genomics; NMR {Homo sapiens}
SCOP: a.4.5.21
Length = 107
Score = 43.1 bits (101), Expect = 2e-05
Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDLQTLLGYSPEELHA 477
+ K +R RYYY I+ + +R VY+F + G+ ++L
Sbjct: 58 DRMTYEKLSRALRYYYKTGILERV-DRRLVYKFGKN---AHGWQEDKLSG 103
>1yo5_C SAM pointed domain containing ETS transcription factor; protein-DNA
complex, double helix, transcription/DNA complex; 2.00A
{Homo sapiens} SCOP: a.4.5.21
Length = 97
Score = 41.9 bits (98), Expect = 3e-05
Identities = 15/38 (39%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKT-AGKRYVYRFVCDL 464
P + K +R R YY K II K +R VY+FV +
Sbjct: 60 PAMNYDKLSRSIRQYYKKGIIRKPDISQRLVYQFVHPI 97
>1fli_A FLI-1; transcription/DNA; NMR {Homo sapiens} SCOP: a.4.5.21
Length = 98
Score = 39.6 bits (92), Expect = 2e-04
Identities = 19/34 (55%), Positives = 23/34 (67%), Gaps = 2/34 (5%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFV 461
PN+ K +R RYYYDKNI+ K GKRY Y+F
Sbjct: 53 PNMNYDKLSRALRYYYDKNIMTKVHGKRYAYKFD 86
>3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA
damage, nucleus, phosphop DNA binding protein, protein
binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae}
Length = 367
Score = 41.4 bits (98), Expect = 5e-04
Identities = 17/89 (19%), Positives = 30/89 (33%), Gaps = 11/89 (12%)
Query: 195 EIAIEQLEVAKDIYAMKMVENFPEHKREDYEVDGYISREPI----SQPQYQNIYINKRLV 250
++ ++ + + V GYIS+ + Q IY+NKR V
Sbjct: 233 DLVLDLNPFKNRMLGKYTDDPDFLDLDYKIRVKGYISQNSFGCGRNSKDRQFIYVNKRPV 292
Query: 251 TNTILHDTINK----LLVKSF---YLNIT 272
+ L N+ F +LN+
Sbjct: 293 EYSTLLKCCNEVYKTFNNVQFPAVFLNLE 321
>1pue_E Protein (transcription factor PU.1 (TF PU.1)); complex
(transcription regulating/DNA), oncogene, transforming
protein, DNA- binding, activator; HET: DNA; 2.10A {Mus
musculus} SCOP: a.4.5.21
Length = 89
Score = 38.1 bits (88), Expect = 5e-04
Identities = 8/37 (21%), Positives = 14/37 (37%), Gaps = 3/37 (8%)
Query: 430 PNVCLSKFTR--RYYYDKNIIHKTAGKRYVYRFVCDL 464
+ K R R Y + K K+ Y+F ++
Sbjct: 53 KKMTYEKMARALRNYGKTGEVKKV-KKKLTYQFSGEV 88
>1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair,
HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2
PDB: 1h7u_A* 1ea6_A*
Length = 365
Score = 41.0 bits (97), Expect = 6e-04
Identities = 13/85 (15%), Positives = 27/85 (31%), Gaps = 13/85 (15%)
Query: 200 QLEVAKDIYAMKMVENFPEHKREDYEVDGYISREPI-----SQPQYQNIYINKRLVTNTI 254
D + + + + + G+IS+ S Q +IN+R
Sbjct: 243 VQLPPSDSVCEEYGLSCSDALHNLFYISGFISQ-CTHGVGRSSTDRQFFFINRRPCDPAK 301
Query: 255 LHDTIN---KLLVKS----FYLNIT 272
+ +N + + LNI+
Sbjct: 302 VCRLVNEVYHMYNRHQYPFVVLNIS 326
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 38.2 bits (88), Expect = 0.002
Identities = 11/74 (14%), Positives = 29/74 (39%), Gaps = 4/74 (5%)
Query: 76 EMVKETRASVTSLKSKIQQLKEENRKRKRKDIKKIATSFHNKRNLQYLDERPKITHSNGK 135
E +++ R + K Q + K ++ ++ A + N + ++ K +N
Sbjct: 85 ESIRKWREE----QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI 140
Query: 136 NDQNYRKQRKEQSL 149
D+ + +Q +
Sbjct: 141 ADKAFYQQPDADII 154
Score = 30.1 bits (67), Expect = 0.97
Identities = 15/66 (22%), Positives = 28/66 (42%), Gaps = 14/66 (21%)
Query: 91 KIQQLKEENRKR-KRKDIKKIATSFHNKRNLQYLDERPKITHSNGKNDQNYRKQRKEQSL 149
I++ +EE RKR + D K Q E+ K K+ + + +++ EQ
Sbjct: 86 SIRKWREEQRKRLQELDAAS-------KVMEQEWREKAK------KDLEEWNQRQSEQVE 132
Query: 150 PTEQSN 155
+ +N
Sbjct: 133 KNKINN 138
Score = 28.2 bits (62), Expect = 5.4
Identities = 12/62 (19%), Positives = 25/62 (40%), Gaps = 7/62 (11%)
Query: 162 RKYCEDNIKVDNNLERKTKYCLEANEQKPEEAEEIAIEQLEVAKDIYAMKMVENFPEHKR 221
RK+ E+ L+ A++ +E E A + LE + ++ +N ++
Sbjct: 88 RKWREEQ---RKRLQELD----AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI 140
Query: 222 ED 223
D
Sbjct: 141 AD 142
>3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA damag
repair, structural genomics consortium, SGC, protein
bindin; HET: DNA ATP; 2.50A {Homo sapiens}
Length = 348
Score = 37.5 bits (88), Expect = 0.008
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 199 EQLEVAKDIY----AMKMVENFPEHKREDYEVDGYISR-EPISQPQYQNIYINKRLVTNT 253
++ + I+ + +++E E K ++++GYIS + ++IN RLV +T
Sbjct: 212 STVDNIRSIFGNAVSRELIEIGCEDKTLAFKMNGYISNANYSVKKCIFLLFINHRLVEST 271
Query: 254 ILH 256
L
Sbjct: 272 SLR 274
>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 = 37.7 bits (87), Expect = 0.008
Identities = 25/134 (18%), Positives = 38/134 (28%), Gaps = 43/134 (32%)
Query: 337 INTLSNRQTCLQYYGLEFEFKNTGKCVKVTHVPKCLFV--KVHKEE------DRIRENQT 388
++ S R L + LE VP F +E+ +
Sbjct: 1 MDAYSTRPLTLSHGSLEHVL----------LVPTASFFIASQLQEQFNKILPEPTEGFAA 50
Query: 389 SREPTSTV-----YDKVCLG---RESNPQSSACKHVFPRKHHVLRSPMYPNVCLSKFTRR 440
EPT+ + LG P + VL +CL++F
Sbjct: 51 DDEPTTPAELVGKF----LGYVSSLVEPSKVG------QFDQVLN------LCLTEFENC 94
Query: 441 YYYDKNIIHKTAGK 454
Y + IH A K
Sbjct: 95 YLEGND-IHALAAK 107
>1b63_A MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A {Escherichia
coli K12} SCOP: d.14.1.3 d.122.1.2 PDB: 1nhh_A* 1nhi_A*
1bkn_A 1nhj_A* 1b62_A*
Length = 333
Score = 35.1 bits (82), Expect = 0.041
Identities = 10/64 (15%), Positives = 27/64 (42%), Gaps = 7/64 (10%)
Query: 199 EQLEVAKDIYAMKMVEN-FP-EHKREDYEVDGYISREP----ISQPQYQNIYINKRLVTN 252
++ I +E E + D + G+++ P + + Q Y+N R++ +
Sbjct: 209 QKERRLGAICGTAFLEQALAIEWQHGDLTLRGWVAD-PNHTTPALAEIQYCYVNGRMMRD 267
Query: 253 TILH 256
+++
Sbjct: 268 RLIN 271
>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 = 29.5 bits (65), Expect = 1.3
Identities = 9/44 (20%), Positives = 17/44 (38%), Gaps = 16/44 (36%)
Query: 161 ERKYCEDNIKVDNNLERKTK-YCLEANEQKPEEAEEIAIE-QLE 202
E++ +K L+ K Y + A +AI+ +E
Sbjct: 18 EKQ----ALK---KLQASLKLY-------ADDSAPALAIKATME 47
>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme, KIAA0126,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo sapiens}
SCOP: g.44.1.2
Length = 98
Score = 27.8 bits (62), Expect = 2.4
Identities = 10/39 (25%), Positives = 18/39 (46%)
Query: 67 SHSDPSPRNEMVKETRASVTSLKSKIQQLKEENRKRKRK 105
+DP R+ + + T LK KIQ+ E +++
Sbjct: 57 DQTDPFNRSPLTMDQIRPNTELKEKIQRWLAERKQQSGP 95
>2wno_A Tumor necrosis factor-inducible gene 6 protein; glycoprotein, cell
adhesion, extracellular matrix; 2.30A {Homo sapiens}
Length = 149
Score = 28.5 bits (64), Expect = 3.1
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 15/54 (27%)
Query: 407 NPQSSACKHVFPRKHHVLRSPMYPNVCLSKFTRRYYYDKN-----IIHKTAGKR 455
NP + C VF + +SP +PN Y+ N I G+R
Sbjct: 1 NPHAKECGGVFTDPKQIFKSPGFPN----------EYEDNQICYWHIRLKYGQR 44
>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger,
initiate translation, tRNA binding, mRNA bindin binding;
HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB:
3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A*
3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*
Length = 403
Score = 28.0 bits (63), Expect = 7.6
Identities = 8/41 (19%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 278 LVIAQVDKKYIVVLLNKTLLVAFDQHAVDERIRVEKLFSYG 318
+ + + K ++++ NK +V + + R K F+ G
Sbjct: 122 VALGIIGVKNLIIVQNKVDVV--SKEEALSQYRQIKQFTKG 160
>2w4e_A MUTT/nudix family protein; ADP-ribose pyrophosphatase, hydrolase;
2.00A {Deinococcus radiodurans}
Length = 145
Score = 27.1 bits (61), Expect = 8.2
Identities = 7/34 (20%), Positives = 14/34 (41%), Gaps = 3/34 (8%)
Query: 182 CLEANEQKPEEAEEIAIEQLEVAKDIYAMKMVEN 215
+ + E+ E I L +A+ +M+E
Sbjct: 90 GVTLGAAQLEDTETIERVVLPLAE---VYRMLEA 120
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
0.315 0.131 0.372
Gapped
Lambda K H
0.267 0.0499 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,052,951
Number of extensions: 409779
Number of successful extensions: 1111
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1085
Number of HSP's successfully gapped: 57
Length of query: 489
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 392
Effective length of database: 3,993,456
Effective search space: 1565434752
Effective search space used: 1565434752
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 (21.5 bits)
S2: 59 (27.1 bits)