RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8916
(520 letters)
>2pjh_A Protein NPL4, nuclear protein localization protein 4 homolog; UFD1,
NPL4, AAA, protein binding, transport protein; NMR {Mus
musculus}
Length = 80
Score = 83.0 bits (205), Expect = 7e-20
Identities = 24/73 (32%), Positives = 44/73 (60%), Gaps = 1/73 (1%)
Query: 175 ILRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTI 234
I+R+QSP G+ KRI + +T +K+ KEF F+++ RNKT EI +S +++
Sbjct: 6 IIRVQSPDGV-KRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSL 64
Query: 235 ASVGLSNGDFVYM 247
+ + +GD +++
Sbjct: 65 HLLKIKHGDLLFL 77
>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 = 47.0 bits (111), Expect = 2e-05
Identities = 75/461 (16%), Positives = 125/461 (27%), Gaps = 166/461 (36%)
Query: 4 GQ-------KETLQ------QPNLGLTQVGWIFTDLVAEDLQLGTVRHTRNIDSHFLSAH 50
GQ +E L+ +G AE L +R T + + F
Sbjct: 162 GQGNTDDYFEE-LRDLYQTYHVLVGD------LIKFSAETLS-ELIRTTLDAEKVF--TQ 211
Query: 51 ECIMAGHLQNLHPNPCRFAPSGYFGSKFVT---ICVT--VNECIMAGHLQNLHPNPCRFA 105
+ L+N P Y S ++ I V + + A L P R
Sbjct: 212 GLNILEWLENPSNTP----DKDYLLSIPISCPLIGVIQLAHYVVTA-KLLGFTPGELRSY 266
Query: 106 PSGYFGSKFVTICVTGDKDNQVHMEGYQVSNQCMALVRDGCLIPTKDAPELGYIKESSDK 165
G T G + V+ +A T S +
Sbjct: 267 LKG------ATGHSQG-----L------VTAVAIAE--------TDSWESF----FVSVR 297
Query: 166 QYVPDVFYKILRIQ--------SPVGIVKRININ----------RSDTCKDLFEKINKEF 207
+ + +F+ +R P + + N + T + + + +NK
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK-- 355
Query: 208 ELNTYNFALFKQRNKTDEIFSSRDQTIASVGLSNGD--FVYMMNLSSPNDEKPSTSSNHL 265
N++ + + + L NG V +S P P S L
Sbjct: 356 -TNSH---------------LPAGKQV-EISLVNGAKNLV----VSGP----PQ-SLYGL 389
Query: 266 NIYETKKKASTTPS---TP-TEFKSKLSNAF-------------SSSNNIVEDEVDKEL- 307
N+ K KA + P +E K K SN F +S+ I +D V +
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS 449
Query: 308 WK-----------TDGQVKRKRDDKFCRHGANALCIHCSPLEPYDEEYLREQNVKHMSFH 356
+ DG R + + P E + H+
Sbjct: 450 FNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR-----LPVKWETTTQFKATHI--- 501
Query: 357 AYLRKQCAGVD--RGKFVVLEDLSCRIKEGCREHPPWPRGI 395
+D G L L+ R K+G G+
Sbjct: 502 ---------LDFGPGGASGLGVLTHRNKDG--------TGV 525
Score = 42.7 bits (100), Expect = 3e-04
Identities = 55/340 (16%), Positives = 95/340 (27%), Gaps = 117/340 (34%)
Query: 191 NRSDTCKDLFEKINKEFELNTYNFALFK-QRNKTDEI---FS-SRDQTIASVGLSNGDFV 245
S +D++ + + F+ +TY F++ N + F + + I N
Sbjct: 1637 KTSKAAQDVWNRADNHFK-DTYGFSILDIVINNPVNLTIHFGGEKGKRIRE----N---- 1687
Query: 246 YM-MNLSSPNDEKPSTSSNHLNIYETKKKASTTPSTPTEFKSKLSNA----FSSSNNIVE 300
Y M + D K T I E S T + S E
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINE--HSTSYTFRSEKGLLSATQFTQPALTLMEKAAFE 1745
Query: 301 DEVDKELWKTDGQVKRKRDDKFCRH--GA-NALCIHCSPLEPYDEEYLREQNVKHMSFHA 357
D K+ G + D F H G AL + +V MS +
Sbjct: 1746 D------LKSKGLIPA--DATFAGHSLGEYAALA-SLA-------------DV--MSIES 1781
Query: 358 YLR--KQCAGVDRGKFV---VLEDLSCRIKEGCREHPPWPRGICSKCQPNAI--TLNRQV 410
+ RG + V D E R + G+ + P + + +++
Sbjct: 1782 LVEVVFY-----RGMTMQVAVPRD------ELGRSNY----GMIA-INPGRVAASFSQEA 1825
Query: 411 YRHV----------------DNVEFENRTLVERFLEYWRVTGHQRLGLLYGKYQLHPDVP 454
++V NVE N+ V G
Sbjct: 1826 LQYVVERVGKRTGWLVEIVNYNVE--NQQYV--------AAGD----------------- 1858
Query: 455 LGIKAVVAAIYEPPQESSRDKIKLLPDPKAEVVEEIASSL 494
++A+ KI ++ K+ +EE+ L
Sbjct: 1859 --LRALDTVT-NVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 39.6 bits (92), Expect = 0.003
Identities = 99/574 (17%), Positives = 160/574 (27%), Gaps = 207/574 (36%)
Query: 31 LQLGTVRHTRNI--DSHFLSAHECIMAGHLQN----LHPNPCR-FAPSGYFGS------K 77
L G++ H + S F+ A LQ + P P FA + K
Sbjct: 11 LSHGSLEHVLLVPTASFFI-------ASQLQEQFNKILPEPTEGFAADDEPTTPAELVGK 63
Query: 78 FVTICVTVNECIMAGH----LQNLHPNPCRFAPSGYFGSKFVTICVTGDKDNQVHMEGYQ 133
F+ ++ E G L F + ++ + N +H
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLCL---------TEFENCYL-------EGNDIH----- 102
Query: 134 VSNQCMALVRDGCLIPTKDAPELGYIKESSDKQYVPDVFYKILRIQSPVGIVKRININRS 193
AL L+ D + + + + RI + K+ N S
Sbjct: 103 ------ALAAK--LLQENDTTLV-------KTKELIKNYITA-RIMAKRPFDKKSN---S 143
Query: 194 DTCKDLFEKINK-EFELNTYNFALFK-QRNKTD------EIFSSRDQTIASVGLSNGDFV 245
LF + + +L A+F Q N D +++ + + GD +
Sbjct: 144 A----LFRAVGEGNAQL----VAIFGGQGNTDDYFEELRDLYQT-YHVLV------GDLI 188
Query: 246 YMM-----NLSSPNDEKPSTSSNHLNIYETKKKASTTPSTPTEFKSKLSNAFSS------ 294
L + + LNI E + S TP ++ L + S
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP--DKDY---LLSIPISCPLIGV 243
Query: 295 ---SNNIVEDEVDKELWKTDGQVKRKRDDKFC---RHGAN---ALCIHCSPLEPYDEEYL 345
++ +V K L T G+++ H A+ I + E
Sbjct: 244 IQLAHYVV---TAKLLGFTPGELR----SYLKGATGHSQGLVTAVAIAETD----SWESF 292
Query: 346 REQNVK--HMSFHAYLR-KQCAGVDRGKFVVLEDLSCRIKEGCREHPPWP----RGICSK 398
K + F +R + +LED S EG P P
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILED-SLENNEG----VPSPMLSISN---- 343
Query: 399 CQPNAITLNR-QVYRHVD--NVEFE----------N--RTLVERFLEYWRVTGHQRLGLL 443
L + QV +V+ N N + LV V+G + L
Sbjct: 344 -------LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV--------VSGPPQ--SL 386
Query: 444 YG-KYQLHPDVPLGIKAVVAAIYEPPQESSRD-----KIKL----LP--DP-----KAEV 486
YG L KA + SR K+K LP P
Sbjct: 387 YGLNLTLR-----KAKA------PSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 487 VEEIASSLGLTQVGWIFTDL---V-----AEDLQ 512
+ I L V + D+ V DL+
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLR 469
Score = 32.7 bits (74), Expect = 0.41
Identities = 37/235 (15%), Positives = 65/235 (27%), Gaps = 98/235 (41%)
Query: 4 GQKETL-----QQPNLGLTQVGWIFTDLVAEDLQLGTVRHTRNIDSHFLSAHECIMAGH- 57
+K L QP L L + F EDL+ S L + AGH
Sbjct: 1721 SEKGLLSATQFTQPALTLMEKA-AF-----EDLK-----------SKGLIPADATFAGHS 1763
Query: 58 ------LQNLHPNPCRFAPSGYFGSKFVTICVTVNECIMAGHLQNLHPNPCRFAPSGYFG 111
L + + ++ V R G
Sbjct: 1764 LGEYAAL---------ASLADVM--SIESLVEVVFY---------------R----G--- 1790
Query: 112 SKFVTICVTGDKDNQVHMEGYQVSNQCMALVRDGCLIPTKDAPELGYIKE---------- 161
+ + V D+ + SN M + G + + L Y+ E
Sbjct: 1791 -MTMQVAVPRDELGR--------SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLV 1841
Query: 162 ------SSDKQYVPDVFYKI---LR-IQSPVGIVKRININRSDTCKDLFEKINKE 206
++QYV LR + + ++ I + + D + L + ++ E
Sbjct: 1842 EIVNYNVENQQYV------AAGDLRALDTVTNVLNFIKLQKIDIIE-LQKSLSLE 1889
>1wf9_A NPL4 family protein; beta-grAsp fold like domain, hypothetical
protein, structural genomics, NPPSFA; NMR {Arabidopsis
thaliana} SCOP: d.15.1.1
Length = 107
Score = 42.9 bits (100), Expect = 2e-05
Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 12/84 (14%)
Query: 175 ILRIQSPVGIVKRINI-NRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQ- 232
+LR++S G ++R+++ T L I + ++ +N L RN S
Sbjct: 9 MLRVRSRDG-LERVSVDGPHITVSQLKTLIQDQLQIPIHNQTLSTNRNLLLAKSPSDFLA 67
Query: 233 ---------TIASVGLSNGDFVYM 247
I+S+ L++G VY+
Sbjct: 68 FTDMADPNLRISSLNLAHGSMVYL 91
>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 = 45.6 bits (107), Expect = 4e-05
Identities = 70/589 (11%), Positives = 154/589 (26%), Gaps = 186/589 (31%)
Query: 7 ETLQQPNLGLTQVGWIFTDLVAEDLQLGTVRHTRNIDSHFLSAHECIMAGHLQNLHPNPC 66
E + + N ++ + + E Q + ++ + L+ +
Sbjct: 84 EEVLRINYK-----FLMSPIKTEQRQ------PSMMTRMYIEQRD--------RLYNDNQ 124
Query: 67 RFAPSGYFGSKFVTICVTVNECIMA--GHLQNLHPNPCRFAPSGYFGSKFVTICVTGDKD 124
FA Y V+ + + L L P V
Sbjct: 125 VFAK--YN--------VSRLQPYLKLRQALLELRPAK------------NVL-------- 154
Query: 125 NQVH-MEGYQVSNQCMAL--VRDGCLIPTKDAPELG--YIKESSDKQYVPDVFYKIL--- 176
+ + G +AL + + ++ + P+ ++L
Sbjct: 155 --IDGVLG--SGKTWVALDVCLS---YKVQCKMDFKIFWLNLKNCNS--PETVLEMLQKL 205
Query: 177 --RIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFAL--------------FKQR 220
+I + N + ++ + + Y L F
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265
Query: 221 NKTDEIFSSRDQTIA-SVGLSNGDFVYMMNLSSP--NDEKPSTSSNHLNIYETK--KKAS 275
K + ++R + + + + + + + S DE S +L+ ++
Sbjct: 266 CKI--LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 276 TT---------------PSTPTEFK----SKLSNAFSSSNNIVEDEVDKELWKT------ 310
TT +T +K KL+ SS N++E ++++
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 311 DGQVKRKRDDKFCRHGANALCIHCSPLEPYDEEYLREQNVKHMSFHAYLRKQCAGVDRGK 370
+ L + + D + + H + +
Sbjct: 384 SAHIPTIL-----------LSLIWFDVIKSDVMVVVNK------LH---KYSLVEKQPKE 423
Query: 371 FVV-LEDLSCRIKEGCRE----HPPWPRGI-------CSKCQPNAITLNRQVY------R 412
+ + + +K H R I + + I Y
Sbjct: 424 STISIPSIYLELKVKLENEYALH----RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479
Query: 413 HVDNVE-------FENRTLVERFLE--------YWRVTGH-----QRLGLLYGKY--QLH 450
H+ N+E F L RFLE W +G Q+L Y Y
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK-FYKPYICDND 538
Query: 451 PDVPLGIKAVVAAIYEPPQESSRDK----IKL-LPDPKAEVVEEIASSL 494
P + A++ + + + K +++ L + EE +
Sbjct: 539 PKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587
Score = 45.6 bits (107), Expect = 4e-05
Identities = 27/190 (14%), Positives = 59/190 (31%), Gaps = 52/190 (27%)
Query: 352 HMSF----HAYLRKQCAGVDRGKFVVLEDLSCRIKEGCREHPPWPRGICSK-------CQ 400
HM F H Y K V FV ++ C+ + P+ I SK
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFV--DNFDCK------DVQDMPKSILSKEEIDHIIMS 57
Query: 401 PNAITLNRQVYRHVDNVEFENRTLVERFLEYWRVTGHQR-LGLLYGKYQLHPDVPLGIKA 459
+A++ R + + +V++F+E + L + P +
Sbjct: 58 KDAVS---GTLRLFWTLLSKQEEMVQKFVE----EVLRINYKFLMSPIKTEQRQP----S 106
Query: 460 VVAAIYEPPQESSRDKI----KLLPD---PKAEVVEEIASSL-GLTQVGWIF-------- 503
++ +Y RD++ ++ + + ++ +L L +
Sbjct: 107 MMTRMY----IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG 162
Query: 504 -TDLVAEDLQ 512
T + +
Sbjct: 163 KTWVALDVCL 172
Score = 32.5 bits (73), Expect = 0.43
Identities = 15/110 (13%), Positives = 36/110 (32%), Gaps = 17/110 (15%)
Query: 411 YRHVD----NVEFENRTLVERFLEYWRVTGHQRLGLLYGKYQLHPDVPLGI--KAVVAAI 464
+ H+D +++ + ++ F + + K D+P I K + I
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDN-------FDCKDV--QDMPKSILSKEEIDHI 54
Query: 465 YEPPQESSRDK--IKLLPDPKAEVVEEIASSLGLTQVGWIFTDLVAEDLQ 512
S L + E+V++ + ++ + + E Q
Sbjct: 55 IMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ 104
>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain,
protein-PR interaction, PRP8P, pseudoenzyme, spliceosome
activation; 2.00A {Saccharomyces cerevisiae}
Length = 254
Score = 38.4 bits (89), Expect = 0.003
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 7/67 (10%)
Query: 438 QRLGLLYGKYQLHPDVPLGIKAVVAAIYEPPQESSRDKIKLLPDPKAEVVEEIASSLGLT 497
Q +YG D P +K + + PQ +++ + ++ + GL
Sbjct: 59 QVAAFIYGMSA--KDHP-KVKEI-KTVVLVPQLGHVGSVQI---SNIPDIGDLPDTEGLE 111
Query: 498 QVGWIFT 504
+GWI T
Sbjct: 112 LLGWIHT 118
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain;
3.28A {Saccharomyces cerevisiae}
Length = 565
Score = 37.4 bits (86), Expect = 0.010
Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 7/67 (10%)
Query: 438 QRLGLLYGKYQLHPDVPLGIKAVVAAIYEPPQESSRDKIKLLPDPKAEVVEEIASSLGLT 497
Q +YG IK + PQ +++ + ++ + GL
Sbjct: 370 QVAAFIYGMSAKDHPKVKEIKT----VVLVPQLGHVGSVQI---SNIPDIGDLPDTEGLE 422
Query: 498 QVGWIFT 504
+GWI T
Sbjct: 423 LLGWIHT 429
>2kzr_A Ubiquitin thioesterase OTU1; structural genomics, northeast
structural genomics consortiu PSI-2, protein structure
initiative, hydrolase; NMR {Mus musculus}
Length = 86
Score = 32.5 bits (74), Expect = 0.044
Identities = 12/84 (14%), Positives = 30/84 (35%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTIA 235
+R ++ G ++ ++L +I + + + S RD T+
Sbjct: 3 VRCKAKGGTHLLQGLSSRTRLRELQGQIAAITGIAPGSQRILVGYPPECLDLSDRDITLG 62
Query: 236 SVGLSNGDFVYMMNLSSPNDEKPS 259
+ + +GD + + + PS
Sbjct: 63 DLPIQSGDMLIVEEDQTRPKASPS 86
>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 = 0.078
Identities = 7/37 (18%), Positives = 13/37 (35%), Gaps = 15/37 (40%)
Query: 159 IK--ESSDKQYVPDVFYKILRIQSPVGIVKRININRS 193
+K ++S K Y D +P + I +
Sbjct: 22 LKKLQASLKLYADD--------SAPA-----LAIKAT 45
>2cr5_A Reproduction 8; UBX domain, D0H8S2298E protein, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.15.1.2
Length = 109
Score = 32.5 bits (74), Expect = 0.080
Identities = 13/88 (14%), Positives = 33/88 (37%), Gaps = 8/88 (9%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFAL---FKQRNKTDEIFSSRDQ 232
+ ++ P G V R +S + L + + K + + L F +R +
Sbjct: 26 VALRCPNGRVLRRRFFKSWNSQVLLDWMMKV-GYHKSLYRLSTSFPRR----ALEVEGGS 80
Query: 233 TIASVGLSNGDFVYMMNLSSPNDEKPST 260
++ +G++ + + + PS+
Sbjct: 81 SLEDIGITVDTVLNVEEKEQSSQSGPSS 108
>2dzk_A UBX domain-containing protein 2; ubiquitin-like fold, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} PDB: 2kxj_A
Length = 109
Score = 31.4 bits (71), Expect = 0.20
Identities = 16/96 (16%), Positives = 34/96 (35%), Gaps = 7/96 (7%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFAL---FKQRNKTDEIFSSRDQ 232
++ + P G ++ + + NF+L F +R T E + +
Sbjct: 16 IQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYK---R 72
Query: 233 TIASVGLSNGDFVYMMNLSSPNDE-KPSTSSNHLNI 267
+ + L+ V ++ P S+S + L I
Sbjct: 73 RLLDLELAPSASVVLLPAGRPATSIVHSSSGDILMI 108
>3m62_B UV excision repair protein RAD23; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae}
Length = 106
Score = 30.8 bits (70), Expect = 0.28
Identities = 15/99 (15%), Positives = 35/99 (35%), Gaps = 22/99 (22%)
Query: 188 ININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSR----DQTIASVGLSNGD 243
+++ S+T + K+ + + + + I+S + +T++ GL +GD
Sbjct: 16 LDLEPSNTILETKTKLAQSI-----SCEESQIK----LIYSGKVLQDSKTVSECGLKDGD 66
Query: 244 FVYMMNLSSPNDEKPSTSSNHLNIYETKKKASTTPSTPT 282
V M +S K + S++
Sbjct: 67 QVVFM-VSQKKSTKTKVTER--------DPNSSSVDKLA 96
>2uyz_B Small ubiquitin-related modifier 1; sumoylation, cell division,
nuclear protein, ubiquitin-like modifier, UBL
conjugation pathway; 1.4A {Homo sapiens} SCOP: d.15.1.1
PDB: 2vrr_B 2iy0_B 2iy1_B 2g4d_B 2las_A 2io2_B 1z5s_B
3uip_B* 1tgz_B* 2bf8_B
Length = 79
Score = 29.3 bits (66), Expect = 0.53
Identities = 7/73 (9%), Positives = 21/73 (28%), Gaps = 5/73 (6%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTIA 235
L++ + + K L E + + + + + + T
Sbjct: 6 LKVIGQDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFL-----FEGQRIADNHTPK 60
Query: 236 SVGLSNGDFVYMM 248
+G+ D + +
Sbjct: 61 ELGMEEEDVIEVY 73
>2io0_B Small ubiquitin-related modifier 2 precursor; SUMO, SENP, ULP,
complex, protein binding, hydrolase; 2.30A {Homo
sapiens} SCOP: d.15.1.1
Length = 91
Score = 29.8 bits (67), Expect = 0.54
Identities = 11/73 (15%), Positives = 23/73 (31%), Gaps = 5/73 (6%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTIA 235
L++ G V + I R L + + L+ D + T A
Sbjct: 8 LKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFR-----FDGQPINETDTPA 62
Query: 236 SVGLSNGDFVYMM 248
+ + + D + +
Sbjct: 63 QLEMEDEDTIDVF 75
>1wz0_A Ubiquitin-like protein SMT3B; SUMO-2, ubiquitin-like molecule,
structural genomics, sentrin2, NPPFSA; NMR {Homo
sapiens} SCOP: d.15.1.1
Length = 104
Score = 29.1 bits (65), Expect = 0.99
Identities = 13/89 (14%), Positives = 27/89 (30%), Gaps = 6/89 (6%)
Query: 161 ESSDKQYVPDVFYKI-LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQ 219
E + + I L++ G V + I R L + + L+
Sbjct: 11 EKPKEGVKTENNDHINLKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFR-- 68
Query: 220 RNKTDEIFSSRDQTIASVGLSNGDFVYMM 248
D + T A + + + D + +
Sbjct: 69 ---FDGQPINETDTPAQLEMEDEDTIDVF 94
>2io1_B Small ubiquitin-related modifier 3 precursor; SUMO, SENP, ULP,
complex, protein binding, hydrolase; 2.60A {Homo
sapiens} SCOP: d.15.1.1
Length = 94
Score = 28.6 bits (64), Expect = 1.2
Identities = 11/73 (15%), Positives = 23/73 (31%), Gaps = 5/73 (6%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTIA 235
L++ G V + I R L + + L+ D + T A
Sbjct: 10 LKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFR-----FDGQPINETDTPA 64
Query: 236 SVGLSNGDFVYMM 248
+ + + D + +
Sbjct: 65 QLEMEDEDTIDVF 77
>1s3s_G P47 protein; AAA ATPase, protein-protein complex, UBX domain,
protein binding; HET: ADP; 2.90A {Rattus norvegicus}
SCOP: d.15.1.2 PDB: 1i42_A 1jru_A
Length = 127
Score = 29.5 bits (66), Expect = 1.3
Identities = 15/71 (21%), Positives = 24/71 (33%), Gaps = 9/71 (12%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEF-ELNTYNFAL---FKQRNKTDEIFSSRD 231
++I+ G N S D+ I + +F L F + DE +
Sbjct: 55 IQIRLADGGRLVQKFNHSHRISDIRLFIVDARPAMAATSFVLMTTFPNKELADE-----N 109
Query: 232 QTIASVGLSNG 242
QT+ L N
Sbjct: 110 QTLKEANLLNA 120
>1wm3_A Ubiquitin-like protein SMT3B; ubiquitin fold, half-open barrel, two
helices, protein transport; 1.20A {Homo sapiens} SCOP:
d.15.1.1 PDB: 1wm2_A 3uin_B 3uio_B 2ckh_B
Length = 72
Score = 28.2 bits (63), Expect = 1.4
Identities = 12/70 (17%), Positives = 24/70 (34%), Gaps = 5/70 (7%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTIA 235
L++ G V + I R L + + L+ R + D + T A
Sbjct: 4 LKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQI-----RFRFDGQPINETDTPA 58
Query: 236 SVGLSNGDFV 245
+ + + D +
Sbjct: 59 QLEMEDEDTI 68
>1uel_A HHR23B, UV excision repair protein RAD23 homolog B; UBL, UIM, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: d.15.1.1
Length = 95
Score = 28.4 bits (64), Expect = 1.4
Identities = 20/88 (22%), Positives = 40/88 (45%), Gaps = 14/88 (15%)
Query: 188 ININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSR----DQTIASVGLSNGD 243
I+I+ +T K L EKI E + + A Q+ I++ + D + + +
Sbjct: 15 IDIDPEETVKALKEKIESEKGKDAFPVA--GQK----LIYAGKILNDDTALKEYKIDEKN 68
Query: 244 FVYMMNLSSP---NDEKPSTSSNHLNIY 268
FV +M ++ P + P+T +H + +
Sbjct: 69 FVVVM-VTKPKAVSTPAPATLEHHHHHH 95
>2d07_B Ubiquitin-like protein SMT3B; hydrolase; 2.10A {Homo sapiens} SCOP:
d.15.1.1 PDB: 2rpq_A 2awt_A 2io3_B 2iyd_B 1u4a_A 2k1f_A
Length = 93
Score = 28.3 bits (63), Expect = 2.1
Identities = 11/73 (15%), Positives = 23/73 (31%), Gaps = 5/73 (6%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTIA 235
L++ G V + I R L + + L+ D + T A
Sbjct: 20 LKVAGQDGSVVQFKIKRHTPLSKLMKAYCERQGLSMRQIRFR-----FDGQPINETDTPA 74
Query: 236 SVGLSNGDFVYMM 248
+ + + D + +
Sbjct: 75 QLEMEDEDTIDVF 87
>2fpr_A Histidine biosynthesis bifunctional protein HISB; histidinola
phosphate phosphatase, bifunctional enzyme structural
genomics; 1.70A {Escherichia coli} SCOP: c.108.1.19 PDB:
2fps_A 2fpu_A* 2fpx_A 2fpw_A*
Length = 176
Score = 28.3 bits (64), Expect = 4.1
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 143 RDGCLIPTKDAPELGYIKESSDKQYVPDVFYKILRIQ 179
RDG LI + P + + P V ++L++Q
Sbjct: 21 RDGTLI--SEPPSDFQVDRFDKLAFEPGVIPQLLKLQ 55
>3qx1_A FAS-associated factor 1; UBX, protein binding, P97 binding; 1.60A
{Homo sapiens} PDB: 3qwz_B* 3qc8_B 3qca_A 3qq8_B 3r3m_B
1h8c_A
Length = 84
Score = 26.4 bits (59), Expect = 7.4
Identities = 13/67 (19%), Positives = 28/67 (41%), Gaps = 7/67 (10%)
Query: 176 LRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFAL---FKQRNKTDEIFSSRDQ 232
LRI++P G S+ + +F+ + + + L F +R+ T ++
Sbjct: 10 LRIRTPSGEFLERRFLASNKLQIVFDFVASK-GFPWDEYKLLSTFPRRDVTQL---DPNK 65
Query: 233 TIASVGL 239
++ V L
Sbjct: 66 SLLEVKL 72
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
0.319 0.135 0.414
Gapped
Lambda K H
0.267 0.0457 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,905,556
Number of extensions: 478472
Number of successful extensions: 963
Number of sequences better than 10.0: 1
Number of HSP's gapped: 951
Number of HSP's successfully gapped: 31
Length of query: 520
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 422
Effective length of database: 3,965,535
Effective search space: 1673455770
Effective search space used: 1673455770
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: 59 (27.2 bits)