RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14159
(264 letters)
>3eay_A Sentrin-specific protease 7; ULP, SENP, SUMO, ubiquitin, crystal,
alternative splicing, hydrolase, phosphoprotein,
polymorphism, thiol protease; 2.40A {Homo sapiens}
Length = 323
Score = 109 bits (273), Expect = 1e-28
Identities = 64/165 (38%), Positives = 103/165 (62%), Gaps = 8/165 (4%)
Query: 94 PVQTIYIYKPT----GISINTEDYACLDKEQFINDVIIDFYLGFLLQEMATPHIREKTHI 149
VQ + +Y P G+ + ED CL++ +F+NDVIIDFYL +L+ E A+ + E++HI
Sbjct: 17 LVQKLIVYPPPPTKGGLGVTNEDLECLEEGEFLNDVIIDFYLKYLILEKASDELVERSHI 76
Query: 150 FSTFFYKRLTQKPTRKISGSIEGDPHISAAKKRHSRVQSWTKNINVFEKDFIVVPINSNA 209
FS+FFYK LT+K + E +P++S A++RH RV++WT++IN+F KD+I VP+N ++
Sbjct: 77 FSSFFYKCLTRKE----NNLTEDNPNLSMAQRRHKRVRTWTRHINIFNKDYIFVPVNESS 132
Query: 210 HWFLAIICFPGLKGCETPEGRAVEECQRFRSLRKRERIKLDEMQK 254
HW+LA+ICFP L+ + Q + + +D +
Sbjct: 133 HWYLAVICFPWLEEAVYEDFPQTVSQQSQAQQSQNDNKTIDNDLR 177
>2xph_A Sentrin-specific protease 1; hydrolase, cysteine protease, thiol
protease; 2.40A {Homo sapiens} PDB: 2xre_A 2iyc_A 2iyd_A
2iy1_A 2iy0_A 2ckg_A 2ckh_A 2g4d_A
Length = 238
Score = 87.9 bits (217), Expect = 4e-21
Identities = 34/143 (23%), Positives = 62/143 (43%), Gaps = 29/143 (20%)
Query: 85 PPIPAPVSQPVQTIYIYKP--------TGISINTEDYACLDKEQFINDVIIDFYLGFLLQ 136
P I + + ++ ++ ++I +D L+ ++ND II+FY+ +L
Sbjct: 15 PEITEEMEKEIKNVFRNGNQDEVLSEAFRLTITRKDIQTLNHLNWLNDEIINFYMN-MLM 73
Query: 137 EMATPHIREKTHIFSTFFYKRLTQKPTRKISGSIEGDPHISAAKKRHSRVQSWTKNINVF 196
E + H F+TFF+ +L + V+ WTK ++VF
Sbjct: 74 ERSKEKGLPSVHAFNTFFFTKLK--------------------TAGYQAVKRWTKKVDVF 113
Query: 197 EKDFIVVPINSNAHWFLAIICFP 219
D ++VPI+ HW LA++ F
Sbjct: 114 SVDILLVPIHLGVHWCLAVVDFR 136
>1th0_A SMT3-, sentrin-specific protease 2; SUMO, AXAM, SENP, ULP, cell
cycle, hydrolase; 2.20A {Homo sapiens} SCOP: d.3.1.7
PDB: 1tgz_A 2io0_A 2io1_A 2io2_A 2io3_A
Length = 226
Score = 81.4 bits (200), Expect = 1e-18
Identities = 35/143 (24%), Positives = 57/143 (39%), Gaps = 29/143 (20%)
Query: 85 PPIPAPVSQPVQTIYIYKPT--------GISINTEDYACLDKEQFINDVIIDFYLGFLLQ 136
+ + + + + P + I D L ++ND +I+FY+ LL
Sbjct: 3 LELTEDMEKEISNALGHGPQDEILSSAFKLRITRGDIQTLKNYHWLNDEVINFYM-NLLV 61
Query: 137 EMATPHIREKTHIFSTFFYKRLTQKPTRKISGSIEGDPHISAAKKRHSRVQSWTKNINVF 196
E H+FSTFFY +L + V+ WTK +N+F
Sbjct: 62 ERNKKQGYPALHVFSTFFYPKLKSG--------------------GYQAVKRWTKGVNLF 101
Query: 197 EKDFIVVPINSNAHWFLAIICFP 219
E++ I+VPI+ HW L +I
Sbjct: 102 EQEIILVPIHRKVHWSLVVIDLR 124
>1euv_A ULP1 protease; SUMO hydrolase, ubiquitin-like protease 1, SMT3
hydrolase desumoylating enzyme, cysteine protease; 1.60A
{Saccharomyces cerevisiae} SCOP: d.3.1.7 PDB: 2hkp_A
2hl8_A 2hl9_A
Length = 221
Score = 74.4 bits (182), Expect = 4e-16
Identities = 28/121 (23%), Positives = 49/121 (40%), Gaps = 25/121 (20%)
Query: 100 IYKPTGISINTEDYACLDKEQFINDVIIDFYLGFLLQEMATPHIREKTHIFSTFFYKRLT 159
+ I I D+ L +++ND II+F++ ++ + T F++FFY L+
Sbjct: 27 LMNRDNIEITVRDFKTLAPRRWLNDTIIEFFMKYIEKST------PNTVAFNSFFYTNLS 80
Query: 160 QKPTRKISGSIEGDPHISAAKKRHSRVQSWTKNINVFEKDFIVVPINSN-AHWFLAIICF 218
++ + + R K + + D I PIN N +HW L II
Sbjct: 81 ERGYQGV------------------RRWMKRKKTQIDKLDKIFTPINLNQSHWALGIIDL 122
Query: 219 P 219
Sbjct: 123 K 123
>2bkr_A Sentrin-specific protease 8; protein-binding-hydrolase complex,
ubiquitin, hydrolase, Pro thiol protease, UBL
conjugation pathway, ubiquitin/hydrolas complex; 1.90A
{Homo sapiens} SCOP: d.3.1.7 PDB: 2bkq_A 1xt9_A
Length = 212
Score = 63.2 bits (153), Expect = 3e-12
Identities = 16/121 (13%), Positives = 35/121 (28%), Gaps = 27/121 (22%)
Query: 106 ISINTEDYACLDKEQFINDVIIDFYLGFLLQEMATPHIREKTHIFSTFFYKRLTQKPTRK 165
+ D + LD ++ND II F + + S + +
Sbjct: 11 SLLRQSDVSLLDPPSWLNDHIIGFAFEYFANSQF-HDSSDHVSFISPEVTQFIKCTS--- 66
Query: 166 ISGSIEGDPHISAAKKRHSRVQSWTKNINVFEKDFIVVPINSN-------AHWFLAIICF 218
+ + + + +++ K + + IN N +HW L +
Sbjct: 67 ----------------NPAEIAMFLEPLDLPNKRVVFLAINDNSNQAAGGSHWSLLVYLQ 110
Query: 219 P 219
Sbjct: 111 D 111
>2oix_A Xanthomonas outer protein D; CLAN CE family 48 cysteine protease,
type III secreted effec desumoylating enzyme; 1.80A
{Xanthomonas euvesicatoria} PDB: 2oiv_A
Length = 186
Score = 54.6 bits (131), Expect = 2e-09
Identities = 13/101 (12%), Positives = 27/101 (26%), Gaps = 20/101 (19%)
Query: 120 QFINDVIIDFYLGFLLQEMATPHIREKTHIFSTFFYKRLTQKPTRKISGSIEGDPHISAA 179
++ D + Y L + + H + L+
Sbjct: 3 SWLLDGHLRAYTDDLARRLRGEPNAHLLHFADSQVVTMLSSADPD--------------- 47
Query: 180 KKRHSRVQSWTKNINVFEKDFIVVPIN-SNAHWFLAIICFP 219
+ ++ + +PIN NAHW L ++
Sbjct: 48 ----QQARAQRLLAGDDIPPIVFLPINQPNAHWSLLVVDRR 84
>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 = 42.0 bits (98), Expect = 2e-04
Identities = 47/299 (15%), Positives = 84/299 (28%), Gaps = 117/299 (39%)
Query: 30 DEVKCILSDIYSKTSSGRSEEPQDGPCLEELSIKEANNILVK--SSPPE----------- 76
+E L D+Y +T + +L IK + L + + +
Sbjct: 171 EE----LRDLY-QTYH---------VLVGDL-IKFSAETLSELIRTTLDAEKVFTQGLNI 215
Query: 77 ---LRNVNSAAPPIP----APVSQP----VQTI-YI-------YKP-------TGISINT 110
L N ++ P P+S P +Q Y+ + P G + ++
Sbjct: 216 LEWLENPSNT-PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 111 EDY-------ACLDKEQFINDVI----IDFYLGFLLQEMATPHIREKTHIFSTFFYKRLT 159
+ E F V + F++G E A P+ L
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE-AYPNT-------------SLP 320
Query: 160 QKPTRKISGSIEGDP----HISAAKKRHSRVQSWTKNINVF----EKDFIVVPINSNAHW 211
+ EG P IS + VQ + N ++ I + +N +
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQ--VQDYVNKTNSHLPAGKQVEISL-VNGAKN- 376
Query: 212 FLAIIC-FP-GLKGCETPEGRAVEECQRFRSLRKRE--------RIKLDEMQKTGRTLY 260
++ P L G +LRK + RI E + +
Sbjct: 377 L--VVSGPPQSLYGLNL-------------TLRKAKAPSGLDQSRIPFSERKLKFSNRF 420
Score = 40.8 bits (95), Expect = 4e-04
Identities = 46/256 (17%), Positives = 77/256 (30%), Gaps = 111/256 (43%)
Query: 16 ETHRRITLLPEKIPDEVK-------CILSDIYSKTSSGRSEEP---------QDGPCLEE 59
E + +L P + D ++ +LS I S ++E P ++
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPMLS-I-----SNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 60 LSIKEAN--NILVKSSPPE-LRNVNSA-----APP------IPA------------PVSQ 93
+ I N LV S PP+ L +N AP IP PV+
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS 425
Query: 94 PVQTIYIYKPTGISINTEDYACLDKEQFINDVIIDFYLGFLLQEMATPHIREKTHIFSTF 153
P + P + D++ + + F +++ P ++ TF
Sbjct: 426 PFHSHL-LVPA-------------SDLINKDLVKN-NVSFNAKDIQIP-------VYDTF 463
Query: 154 FYKRLTQKPTRKISGSIEGDPHISAAKKRHSRVQSWTKNINVFEKDFIVV-PINSNAHWF 212
R +SGSI ++ I D I+ P+ W
Sbjct: 464 -----DGSDLRVLSGSI-------------------SERIV----DCIIRLPV----KWE 491
Query: 213 LA-------IICF-PG 220
I+ F PG
Sbjct: 492 TTTQFKATHILDFGPG 507
Score = 31.6 bits (71), Expect = 0.33
Identities = 11/63 (17%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 199 DFIVVPINSNAHWFLAIICF--PG----LKGCETPEGRAVEECQRFRSLRKRERIKLDEM 252
++V + W + I+ + G + RA++ + K ++I + E+
Sbjct: 1827 QYVVERVGKRTGWLVEIVNYNVENQQYVAAG----DLRALDTVTNVLNFIKLQKIDIIEL 1882
Query: 253 QKT 255
QK+
Sbjct: 1883 QKS 1885
>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 = 6e-04
Identities = 40/243 (16%), Positives = 73/243 (30%), Gaps = 81/243 (33%)
Query: 13 SPDETHRR---ITLLPE--KIPDEVKCIL-SDIYSKTSSGRSEEPQDGPCLEELSIKEAN 66
P E + +++ P IP + ++ D+ + + +L
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV-------IKSDVMV--VVNKLHKYS-- 415
Query: 67 NILVKSSPPELRNVNSAAPPIPAPVSQPVQTIYIYKPTGISINTEDYAC-LDKEQFINDV 125
LV+ P E TI I I + + L+ E ++
Sbjct: 416 --LVEKQPKES-------------------TISIP---SIYL---ELKVKLENEYALHRS 448
Query: 126 IIDFY---LGFLLQEMATP------------HIR-----EKTHIFSTFF--YKRLTQKPT 163
I+D Y F ++ P H++ E+ +F F ++ L QK
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK-- 506
Query: 164 RKISGSIEGDPHISAAKKRHSRVQSWTKNINVFEKDFIVVPINSNAHWFLAIICFPGLKG 223
I H S A + + + + + K +I AI+ F L
Sbjct: 507 ------IR---HDSTAWNASGSILNTLQQLKFY-KPYICDNDPKYERLVNAILDF--LPK 554
Query: 224 CET 226
E
Sbjct: 555 IEE 557
Score = 34.4 bits (78), Expect = 0.041
Identities = 24/195 (12%), Positives = 55/195 (28%), Gaps = 64/195 (32%)
Query: 111 EDYACLDKEQFINDVIIDFYLGFLLQEMATPHIREKTH-IFSTF----------F----- 154
+++ C D + ++ + ++ T +F T F
Sbjct: 31 DNFDCKDVQDMPKSILSKEEIDHIIMS---KDAVSGTLRLFWTLLSKQEEMVQKFVEEVL 87
Query: 155 ---YKRLTQK-PTRKISGSIEGDPHISAAKKRHSRVQSWTK-NINVFEK----------- 198
YK L T + S+ +I + ++ Q + K N++ +
Sbjct: 88 RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL 147
Query: 199 ---DFIVVPINSNAHWFLAIICFPGLKGCETPEGR---AVEECQRFRSLRKRER----IK 248
+++ G+ G G+ A++ C ++ K + +
Sbjct: 148 RPAKNVLI------D---------GVLGS----GKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 249 LDEMQKTGRTLYRLN 263
L L L
Sbjct: 189 LKNCNSPETVLEMLQ 203
Score = 34.1 bits (77), Expect = 0.046
Identities = 31/241 (12%), Positives = 60/241 (24%), Gaps = 76/241 (31%)
Query: 11 PSSPDETHRRITLL---PEKIPDE-VKCILSDIYSKTSSGRSEEPQDGPCLEELSIKEAN 66
+ T R L E++ + V+ +L Y S E + P + E
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ-PSMMTRMYIEQR 116
Query: 67 NILVKSSPPELRNVNSAAPPIPAPVSQPVQTI----YIYKP-----------TGISINTE 111
+ L N N QP + +P +G +
Sbjct: 117 D--------RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVAL 168
Query: 112 DYACLDKE---QFINDVIIDFYLGF--------LLQEMATPHIREKTHIFSTFFYKRLTQ 160
D CL + + + F+L +L+ + ++
Sbjct: 169 D-VCLSYKVQCKMDFKI---FWLNLKNCNSPETVLEMLQK-------------LLYQIDP 211
Query: 161 KPTRKISGSIEGDPHISAAKKRHSRVQS--------------WTKN-INVFEKDF---IV 202
T + S I + + R+ N F + I+
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF--NLSCKIL 269
Query: 203 V 203
+
Sbjct: 270 L 270
>3rpp_A Glutathione S-transferase kappa 1; glutathione transferase, kappa
GST, TRX domain, GSH binding, detoxification, APO form;
1.80A {Homo sapiens} PDB: 3rpn_A 1yzx_A*
Length = 234
Score = 27.4 bits (61), Expect = 3.8
Identities = 3/14 (21%), Positives = 8/14 (57%)
Query: 1 MTKNSKFYFDPSSP 14
+ + + ++D SP
Sbjct: 4 LPRTVELFYDVLSP 17
>2vf7_A UVRA2, excinuclease ABC, subunit A.; DNA-binding protein,
nucleotide-binding, zinc-binding domain, SOS response,
metal-binding; HET: ADP; 2.30A {Deinococcus radiodurans}
PDB: 2vf8_A*
Length = 842
Score = 27.5 bits (62), Expect = 5.5
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 3/20 (15%)
Query: 246 RIKL-DEMQK--TGRTLYRL 262
RIKL E+++ G T+Y L
Sbjct: 738 RIKLATELRRSGRGGTVYVL 757
>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A
{Geobacillus}
Length = 670
Score = 26.7 bits (60), Expect = 8.3
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 3/20 (15%)
Query: 246 RIKL-DEMQK--TGRTLYRL 262
R+KL E+ + GRTLY L
Sbjct: 551 RVKLAAELHRRSNGRTLYIL 570
>2ygr_A Uvrabc system protein A; hydrolase, nucleotide excision repair;
3.40A {Mycobacterium tuberculosis} PDB: 3zqj_A
Length = 993
Score = 27.1 bits (61), Expect = 8.5
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 3/20 (15%)
Query: 246 RIKL-DEMQK--TGRTLYRL 262
R+KL E+QK TGRT+Y L
Sbjct: 871 RVKLASELQKRSTGRTVYIL 890
>3qbz_A DDK kinase regulatory subunit DBF4; FHA domain,RAD53, replication
checkpoint, cell cycle; 2.69A {Saccharomyces cerevisiae}
Length = 160
Score = 26.3 bits (57), Expect = 8.6
Identities = 9/42 (21%), Positives = 19/42 (45%)
Query: 1 MTKNSKFYFDPSSPDETHRRITLLPEKIPDEVKCILSDIYSK 42
M ++S+ YFD + E + +K D +K + ++
Sbjct: 59 MKRDSRIYFDITDDVEMNTYNKSKMDKRRDLLKRGFLTLGAQ 100
>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, at cassette, DNA damage, DNA
excision; HET: ADP; 3.20A {Geobacillus
stearothermophilus} PDB: 3uwx_A
Length = 972
Score = 26.7 bits (60), Expect = 8.9
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 3/20 (15%)
Query: 246 RIKL-DEMQK--TGRTLYRL 262
R+KL E+ + GRTLY L
Sbjct: 853 RVKLAAELHRRSNGRTLYIL 872
>3oq0_A DBF4, protein DNA52; DDK, BRCT, RAD53, replication checkpoint,
FHA domain, regula subunit of DDK, CDC7,
phosphorylation, nuclear; 2.70A {Saccharomyces
cerevisiae}
Length = 151
Score = 26.2 bits (57), Expect = 9.1
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 1 MTKNSKFYFDPSSPDETHRRITLLPEKIPDEVK 33
M ++S+ YFD + E + +K D +K
Sbjct: 21 MKRDSRIYFDITDDVEMNTYNKSKMDKRRDLLK 53
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
0.318 0.135 0.404
Gapped
Lambda K H
0.267 0.0818 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,111,381
Number of extensions: 240349
Number of successful extensions: 399
Number of sequences better than 10.0: 1
Number of HSP's gapped: 386
Number of HSP's successfully gapped: 24
Length of query: 264
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 172
Effective length of database: 4,133,061
Effective search space: 710886492
Effective search space used: 710886492
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: 56 (25.2 bits)