RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15735
(574 letters)
>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated
deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens}
PDB: 3rzu_A
Length = 211
Score = 154 bits (390), Expect = 7e-44
Identities = 31/154 (20%), Positives = 60/154 (38%), Gaps = 10/154 (6%)
Query: 174 SQAPPVSDGPVVDTAEQVYISSLALLKMLKHGRAGVPM--EVMGLMLGEFV-DEYTVRVI 230
P +D V + + L+ A G++ G+ + +E+T+ +
Sbjct: 27 GALSNSESIPTIDGLRHVVVPGRLCPQFLQLASANTARGVATCGILCGKLMRNEFTITHV 86
Query: 231 DVFAMPQTGTGVSVEAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQ 290
+ + E + +F Q + + +GW H+HP +LS VD++T
Sbjct: 87 LIPKQSAGSDYCNTENEEELFL-------IQDQQGLITLGWIHTHPTQTAFLSSVDLHTH 139
Query: 291 QSFEALSERAVAVVVDPIQSVKELAKHYNKALEE 324
S++ + +VA+V P K + LEE
Sbjct: 140 CSYQMMLPESVAIVCSPKFQETGFFKLTDHGLEE 173
Score = 50.4 bits (120), Expect = 3e-07
Identities = 6/56 (10%), Positives = 13/56 (23%), Gaps = 1/56 (1%)
Query: 9 GKVVIDAFRLINPNMMVLGQEPRQTTSNLGHLQKHSVQALIHGLNRHYYSISINYR 64
F+L + + + RQ + + H + R
Sbjct: 157 KFQETGFFKLTDHGLEEI-SSCRQKGFHPHSKDPPLFCSCSHVTVVDRAVTITDLR 211
>2znr_A AMSH-like protease; metal binding protein, alternative splicing,
hydrolase, metal-binding, metalloprotease, UBL
conjugation pathway, zinc; 1.20A {Homo sapiens} PDB:
2znv_A
Length = 178
Score = 132 bits (333), Expect = 3e-36
Identities = 30/145 (20%), Positives = 60/145 (41%), Gaps = 10/145 (6%)
Query: 183 PVVDTAEQVYISSLALLKMLKHGRAGV--PMEVMGLMLGEFV-DEYTVRVIDVFAMPQTG 239
++ V + K L+ + +E G++ G+ +E+T+ + V
Sbjct: 3 GHMEGLRCVVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTHNEFTITHVIVPKQSAGP 62
Query: 240 TGVSVEAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSFEALSER 299
+E V+ +F Q + +GW H+HP +LS VD++T S++ +
Sbjct: 63 DYCDMENVEELFNV-------QDQHDLLTLGWIHTHPTQTAFLSSVDLHTHCSYQLMLPE 115
Query: 300 AVAVVVDPIQSVKELAKHYNKALEE 324
A+A+V P + + N + E
Sbjct: 116 AIAIVCSPKHKDTGIFRLTNAGMLE 140
Score = 51.2 bits (122), Expect = 9e-08
Identities = 10/57 (17%), Positives = 21/57 (36%), Gaps = 3/57 (5%)
Query: 9 GKVVIDAFRLINPNMMVLGQEPRQTTSNLGHLQKHSVQALI-HGLNRHYYSISINYR 64
FRL N M+ + + H ++ + ++ H L + I ++ R
Sbjct: 124 KHKDTGIFRLTNAGMLEVSACKK--KGFHPHTKEPRLFSICKHVLVKDIKIIVLDLR 178
>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P
N-terminal) domain, unknown function; 2.50A {Drosophila
melanogaster}
Length = 141
Score = 119 bits (300), Expect = 4e-32
Identities = 21/132 (15%), Positives = 52/132 (39%), Gaps = 11/132 (8%)
Query: 186 DTAEQVYISSLALLKMLKH-----GRAGVPMEVMGLMLGEFVDEYTVRVIDVFAMPQTGT 240
+ + + L ++ + +H + G P +V G ++G+ + +++ F +
Sbjct: 3 HMSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGK-QKGRNIEIMNSFELKTDVI 61
Query: 241 GVSVEAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSFEALSERA 300
G ++ + K KQ +GWY + + DI Q+ A++E
Sbjct: 62 G-DETVINKDYYNKKEQQYKQVFSDLDFIGWYTTGDN----PTADDIKIQRQIAAINECP 116
Query: 301 VAVVVDPIQSVK 312
+ + ++P+
Sbjct: 117 IMLQLNPLSRSV 128
>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34,
JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P
ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A
Length = 187
Score = 120 bits (301), Expect = 1e-31
Identities = 35/132 (26%), Positives = 60/132 (45%), Gaps = 11/132 (8%)
Query: 189 EQVYISSLALLKMLKH----GRAGVPMEVMGLMLGEFVDEYTVRVIDVFAMP--QTGTGV 242
++V + L LL ++ H G+ G V+G++LG + + + V + FA+P +
Sbjct: 8 QKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSW-QKKVLDVSNSFAVPFDEDDKDD 66
Query: 243 SVEAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSFEALSERAVA 302
SV +D + M M K+ E +VGWYH+ P L DI + + +V
Sbjct: 67 SVWFLDHDYLENMYGMFKKVNARERIVGWYHTGPK----LHKNDIAINELMKRYCPNSVL 122
Query: 303 VVVDPIQSVKEL 314
V++D L
Sbjct: 123 VIIDVKPKDLGL 134
>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics,
PSI-2, protein structure initiative; NMR {Salinibacter
ruber dsm 13855}
Length = 153
Score = 105 bits (262), Expect = 9e-27
Identities = 22/100 (22%), Positives = 34/100 (34%), Gaps = 4/100 (4%)
Query: 191 VYISSLALLKMLKHGRAGVPMEVMGLMLGEFVDEYTVRVIDVFAMPQTGTGVSVE--AVD 248
+ + L ++ HG P E G +LG D+ RV + + +
Sbjct: 1 MKTTPDILDQIRVHGADAYPEEGCGFLLGTVTDDGDNRVAALHRATNRRSEQRTRRYELT 60
Query: 249 PVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDIN 288
++ G VVG YHSHP S D+
Sbjct: 61 ADDYRAADAAAQEQG--LDVVGVYHSHPDHPARPSATDLE 98
>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein
structure initiati northeast structural genomics
consortium; NMR {Desulfitobacterium hafniense}
Length = 146
Score = 101 bits (254), Expect = 1e-25
Identities = 22/105 (20%), Positives = 41/105 (39%), Gaps = 3/105 (2%)
Query: 191 VYISSLALLKMLKHGRAGVPMEVMGLMLGEFVDEYTVRVIDVFAMPQTGTGVSVEAVDPV 250
+ ++ + +ML H R +P E GL+ G D V V+ + ++DP
Sbjct: 2 ITLTKKQMEEMLAHARQALPNEACGLLGGR-RDGDDRWVERVYPLNNLDQSPEHFSMDPR 60
Query: 251 FQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSFEA 295
Q + +++ +++G +HSHP S D
Sbjct: 61 EQLTAVKDMRK--NGWVMLGNFHSHPATPARPSAEDKRLAFDPSL 103
>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 = 58.7 bits (141), Expect = 4e-09
Identities = 71/436 (16%), Positives = 128/436 (29%), Gaps = 108/436 (24%)
Query: 40 LQKHSVQALIHGLNRHYYSISI-NYRKNELEQKMLLNLHKKTWMDGLSLQDYNEHCKLNE 98
+ VQ ++ + +++ N E +ML L + + S D++ + KL
Sbjct: 171 CLSYKVQCK---MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
Query: 99 GTVND---MLELAKHYNKALEEEEKMSPEQLAIKNVGKQDPK--RHLEEKVDTLMT---A 150
++ L +K Y L L + NV Q+ K L+T
Sbjct: 228 HSIQAELRRLLKSKPYENCL----------LVLLNV--QNAKAWNAFNLSCKILLTTRFK 275
Query: 151 NIIQCLDRNMERLLRLGSGMPGLSQAPPVSDGPVVDTAEQVYISSLALL-KMLKHGRAGV 209
+ L + L L T ++ +LL K L +
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTL-------------TPDE----VKSLLLKYLDCRPQDL 318
Query: 210 PMEVMGL------MLGEFVDEYTVRVIDVFAMPQTGT-----GVSVEAVDPVFQAKMLDM 258
P EV+ ++ E + + D + S+ ++P KM D
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLAT-WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377
Query: 259 L----KQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSFEALSERAVAVVVDPIQSVKEL 314
L P +++ W + + V VVV+ + L
Sbjct: 378 LSVFPPSAHIPTILLSLI--------W------------FDVIKSDVMVVVNKLHK-YSL 416
Query: 315 AKHYNKALEEEEKMSPEQLAIKNVGKQDPKRHLEEK-VDTLMTANIIQCLGGKLIEPLWG 373
+ K E +S + ++ K + + L VD NI + + P +
Sbjct: 417 VEKQPK----ESTISIPSIYLELKVKLENEYALHRSIVDHY---NIPKTFDSDDLIPPYL 469
Query: 374 SMEMMTFFA--IVNIGVAISSTLF-YFFLYMCTFNTDLLFF---VRIHGLTGYISGVLVA 427
+ + NI TLF FL D F +R SG ++
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMVFL-------DFRFLEQKIRHDSTAWNASGSILN 522
Query: 428 V--------KQIMPDH 435
I +
Sbjct: 523 TLQQLKFYKPYICDND 538
Score = 54.1 bits (129), Expect = 9e-08
Identities = 89/607 (14%), Positives = 168/607 (27%), Gaps = 177/607 (29%)
Query: 41 QKHSVQALIHGLNRHYY-----SISINYRKNELEQKMLLNLHKKTWMDGLSLQDYNEHCK 95
Q+ VQ + + R Y I R+ + +M + + + D YN
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN---- 130
Query: 96 LNEGTVN---DMLELAKHYNKALEEEEKMSPEQLAI----KNVGKQ----DPKRHLEEKV 144
V+ L+L +AL E + P + + GK D KV
Sbjct: 131 -----VSRLQPYLKL----RQALLE---LRPAKNVLIDGVLGSGKTWVALDVCL--SYKV 176
Query: 145 DTLMTANII-----QCLDRN--MERLLRLGSGM-PGLSQAPPVSDGPVVDTAEQVYISSL 196
M I C +E L +L + P + S + +
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI-HSIQAELR 235
Query: 197 ALLKMLKHGRAGVPMEVMGLMLGEFVDE-YTVRVIDVFAMPQTGTGVSVEAVDPVFQAKM 255
LLK + L++ + + + F K+
Sbjct: 236 RLLKSKPYENC--------LLV---LLNVQNAKAWNAFN----------------LSCKI 268
Query: 256 L---------DMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSFEALSERAVAVVVD 306
L D L + + H + + +D
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLD--HHSMTLT--------------PDEVKSLLLKYLD 312
Query: 307 PIQSVKELAKHYNKALEEEEKMSPEQLAIKNVGK--QDPKRHLE--EKVDTLMTANIIQ- 361
++L E +P + + + +D + + V+ II+
Sbjct: 313 --CRPQDLP-------REVLTTNP--RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 362 CLGGKLIEPLWGSMEMMTFF---AIVNIGVAISSTLFYFF----------LYMCTFNTDL 408
L ++EP E F ++ I + L + + +
Sbjct: 362 SL--NVLEPA----EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS 415
Query: 409 LFFVRIHGLTGYISGVLVAVKQIMPDHVILNTGLGKMTNRNIPL------LVILIAS--I 460
L + T I + + +K + + L+ + + + NIP L+
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSI--VDHYNIPKTFDSDDLIPPYLDQYF 473
Query: 461 LWLIG--LVDSIRPT--MTLFGTLVSWIYL--RFYQ---YHTN---GTRGDMADNFNFAN 508
IG L +I MTLF ++L RF + H + G + +
Sbjct: 474 YSHIGHHL-KNIEHPERMTLF----RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK 528
Query: 509 FFPTIIQ---PPIAVVCNTIHEFLVRIGLCRKMVRKFDMSV------APSSGITITLPGI 559
F+ I P + N I +FL +I ++ + A I
Sbjct: 529 FYKPYICDNDPKYERLVNAILDFLPKIE--ENLICSKYTDLLRIALMAEDEAIF------ 580
Query: 560 DPNDAER 566
+A +
Sbjct: 581 --EEAHK 585
Score = 46.0 bits (108), Expect = 3e-05
Identities = 65/420 (15%), Positives = 133/420 (31%), Gaps = 98/420 (23%)
Query: 9 GK--VVIDAFR--LINPNM------MVLGQEPRQTTSNLGHLQKHSVQALIHGLNRHYYS 58
GK V +D + M + L + L LQK Q + +R +S
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNC-NSPETVLEMLQKLLYQIDPNWTSRSDHS 220
Query: 59 ISINYRKNELEQKMLLNLHKKTWMDGL----------SLQDYNEHCKL----NEGTVNDM 104
+I R + ++ ++ L K + + L + +N CK+ V D
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDF 280
Query: 105 LELAK-------HYNKALEEEEKMS-------------PEQ------LAIKNVG---KQD 135
L A H++ L +E S P + + + +
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340
Query: 136 PKR-----HLE-EKVDTLMTANIIQCLDRNMER-------LLRLGSGMPG--LS---QAP 177
H+ +K+ T++ + + L+ R + + +P LS
Sbjct: 341 LATWDNWKHVNCDKLTTIIES-SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDV 399
Query: 178 PVSDGPVVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEFVDEYTV--RVIDVFAM 235
SD V+ +++ SL + K K +P + + + +EY + ++D + +
Sbjct: 400 IKSD--VMVVVNKLHKYSL-VEKQPKESTISIPSIYL-ELKVKLENEYALHRSIVDHYNI 455
Query: 236 PQT--GTGVSVEAVDP-VFQ--AKMLDMLKQTGRPEMVVGWYHS---------HPGFGCW 281
P+T + +D + L ++ R + + H
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515
Query: 282 LSGVDINTQQSFEALSERAVAVVVDPIQSVKELAKHYNKALEEEEKMSPE----QLAIKN 337
SG +NT Q + + V + + +EE S ++A+
Sbjct: 516 ASGSILNTLQQLKFYKPYICDNDPKYERLVNAI-LDFLPKIEENLICSKYTDLLRIALMA 574
Score = 36.0 bits (82), Expect = 0.040
Identities = 69/559 (12%), Positives = 152/559 (27%), Gaps = 180/559 (32%)
Query: 53 NRHYYSISINYRKNELEQKMLLNLHKKTWMDGLSLQDYNEHCKLNEGTVNDMLELA---K 109
+ H++ + +++ + K +L++ + ++D +D V DM + +
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKD-----------VQDMPKSILSKE 49
Query: 110 HYNKALEEEEKMSPEQL---AIKNVGKQDPKRHLEEKVDT----LMTANIIQCLDRNMER 162
+ + ++ +S + + ++ ++ +EE + LM+ + +M
Sbjct: 50 EIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMT 109
Query: 163 LLRLGSGMPGLSQAPPVSDGPVVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEFV 222
+ + + + V + Q Y+ L L+ + V ++ +
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNV--SRLQPYLKLRQALLELRPAK-NVLIDGVL------- 159
Query: 223 DEYTVRVIDVFAMPQTGTGVSVEAVDPVFQAKMLDM---------LKQTGRPEMVVG--- 270
G+G + A+D K+ LK PE V+
Sbjct: 160 ----------------GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 271 --WYHSHPGFGCWLSGVDINTQQSFEALSERAVAVVVDPIQSVKEL--AKHYNKALEEEE 326
Y P + S N + ++ ++ L +K Y L
Sbjct: 204 KLLYQIDPNW-TSRSDHSSNIKLRIHSIQAE-----------LRRLLKSKPYENCL---- 247
Query: 327 KMSPEQLAIKNVGKQDPK--RHLEEKVDTLMT---ANIIQCLGGK------LIEPLWG-- 373
L + NV Q+ K L+T + L L
Sbjct: 248 ------LVLLNV--QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 374 SMEMMTFFAIVNIGVAISSTLFYFFLYMCTFNTDLLFFVRIHGLTGYISGVLVAVKQIMP 433
E+ + + DL P
Sbjct: 300 PDEVKSLLLKY-LDCRPQ---------------DL------------------------P 319
Query: 434 DHVILNTGLGKMTNRNIPLLVILIASILWLIGLVDSIRPTMTLFGTLVSWIYLRFYQYHT 493
+L T P + +IA + W +
Sbjct: 320 -REVLTTN---------PRRLSIIAESI-------RDGLAT--------WDNWKHVNCDK 354
Query: 494 NGTRGDMA-DNFNFANF---------FPTIIQPPIAVVC---NTIHEFLVRIGLCRKMVR 540
T + + + A + FP P ++ + + V + + K+ +
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN-KLHK 413
Query: 541 KFDMSVAPSSGITITLPGI 559
+ P TI++P I
Sbjct: 414 YSLVEKQPKES-TISIPSI 431
>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 = 57.8 bits (139), Expect = 8e-09
Identities = 65/420 (15%), Positives = 130/420 (30%), Gaps = 123/420 (29%)
Query: 173 LSQAPPVSDGPVVDTAEQVYISSLALL-KMLKH-------GRAGVPMEVMGLMLGEFVDE 224
P ++G D E + L+ K L + + G +V+ L L EF +
Sbjct: 38 NKILPEPTEGFAAD-DEP--TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENC 94
Query: 225 YTVRVIDV--FA--MPQTGTGVSVEAVDPV---FQAKMLDMLKQTGRPEMVVGWYHSHPG 277
Y + D+ A + Q V+ + + A+++ RP
Sbjct: 95 Y-LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIM-----AKRPFD---------- 138
Query: 278 FGCWLSGVDINTQQS--FEALSERAVAVVV------DPIQSVKELA---KHYNKALEEEE 326
S F A+ E +V + +EL + Y+ + +
Sbjct: 139 ----------KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI 188
Query: 327 KMSPEQLAIKNVGKQDPKRHLEEKVDTLMTANIIQCLGGKLIEPLWGSMEMMTFFAIVNI 386
K S E L+ D ++ + ++ I++ L P + +
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLN------ILEWLENPSNTP---DKD---YLL---- 232
Query: 387 GVAIS---STLFYFFLYMCTFNTDLL----FFVRIHGLTGYISGVLVAVKQIMPDHVILN 439
+ IS + Y+ T + G TG+ G++ AV
Sbjct: 233 SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAV----------- 281
Query: 440 TGLGKMTNRNIPLLVILIA-SILWLIGLVDSIRPTMTLFGTLVSWIYLRFYQY--HTNGT 496
IA + W +S ++ T++ +I +R Y+ +T+
Sbjct: 282 ----------------AIAETDSW-----ESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 497 RGDMADNFNFANFFPTIIQPPIAVVCNTIHEFLVRIGLCRKMVRKFDMSVAPSSGITITL 556
+ D+ P+ P+ + N E + + V K + + + I+L
Sbjct: 321 PSILEDSLENNEGVPS----PMLSISNLTQEQV------QDYVNKTNSHLPAGKQVEISL 370
Score = 44.7 bits (105), Expect = 9e-05
Identities = 65/428 (15%), Positives = 128/428 (29%), Gaps = 149/428 (34%)
Query: 97 NEGTVNDMLELAKHYNKALEEEEKMSPEQLAIKNVGKQDPKRHLEEKVDTLMTANIIQCL 156
+ ++ +L + Y+ + + IK + L E + T + A +
Sbjct: 166 TDDYFEELRDLYQTYHVLVGD---------LIKFSAE-----TLSELIRTTLDAEKVFTQ 211
Query: 157 DRNMERLLRLGSGMPG---LSQAPPVSDGPVVDTAEQV--YISSLALLKMLKHGRAGVPM 211
N+ L S P L P +S P++ Q+ Y+ V
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIP-IS-CPLI-GVIQLAHYV---------------VTA 253
Query: 212 EVMGLMLGEFVDEY---TVRVIDV---FAMPQTGTGVS-VEAVDPVFQAKMLDMLKQTGR 264
+++G GE T + A+ +T + S +V K + +L G
Sbjct: 254 KLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVR-----KAITVLFFIG- 307
Query: 265 PEMVVGWYHSHPGFGCWLSGVDINTQQSFEALSERA----VAVVVDPIQSVKELAKHYNK 320
+ + + + + + +E +++ + V++ N
Sbjct: 308 -------VRCYEAYPN--TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS 358
Query: 321 ALEEEEKMS---------------PEQLA--------IKNVGKQDPKR--HLEEKVD--- 352
L +++ P+ L K D R E K+
Sbjct: 359 HLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSN 418
Query: 353 -----------TLM---TANIIQCLGGKLIEPLWGSMEMMTFFAIVNIGVAISSTLFYFF 398
L+ + I + L + + + ++ I V
Sbjct: 419 RFLPVASPFHSHLLVPASDLINKDLVKNNVS--FNAKDI-------QIPV---------- 459
Query: 399 LYMCTFN-TDLLFFVRIHGLTGYISGVLV-----------AVKQIMPDHVIL-----NTG 441
Y TF+ +DL R L+G IS +V Q H++ +G
Sbjct: 460 -Y-DTFDGSDL----R--VLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASG 511
Query: 442 LGKMTNRN 449
LG +T+RN
Sbjct: 512 LGVLTHRN 519
Score = 35.0 bits (80), Expect = 0.083
Identities = 41/229 (17%), Positives = 67/229 (29%), Gaps = 74/229 (32%)
Query: 40 LQKHSVQALIHGLNRH-----YYSIS-INYRKN--------ELEQKMLLNLHKKTWMDGL 85
L + VQ ++ N H IS +N KN L + L L K GL
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYG-LNLTLRKAKAPSGL 402
Query: 86 SLQD---YNE----------------HCKLNEGTVNDMLELAKHYNKALEEEEKMSPEQL 126
Q ++E H L + + + ++ + + +
Sbjct: 403 D-QSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINK------DLVKNNVSFNAKDI 455
Query: 127 AIKNVGKQDPKRHLEE-----KVDTLMTANIIQCLDR---NMERLLRLGSGMPGLSQAPP 178
I P + + ++ I+ C+ R E + A
Sbjct: 456 QI-------PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFK--------ATH 500
Query: 179 VSD-GPVVDTAEQVYISSLA-LLKMLKHGRAGVPMEVMGLMLGEFVDEY 225
+ D GP S L L K G GV + V G + D+Y
Sbjct: 501 ILDFGPGG-------ASGLGVLTHRNKDGT-GVRVIVAGTLDINPDDDY 541
>1oi0_A AF2198, hypothetical protein AF2198; proteasome, deubiquitination,
archaea, hydrolase; 1.5A {Archaeoglobus fulgidus} SCOP:
c.97.3.1 PDB: 1r5x_A
Length = 124
Score = 44.2 bits (104), Expect = 9e-06
Identities = 24/106 (22%), Positives = 38/106 (35%), Gaps = 16/106 (15%)
Query: 188 AEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEFVDEYTVRVIDVFAMPQTGTGVSVEAV 247
+ IS L +L+ ++ P E + L+ G + ++ +P
Sbjct: 1 GSSMKISRGLLKTILEAAKSAHPDEFIALLSGS-----KDVMDELIFLPFV--------S 47
Query: 248 DPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSF 293
V LDML + V G HSHP C S D++ F
Sbjct: 48 GSVSAVIHLDMLPIGMK---VFGTVHSHPSPSCRPSEEDLSLFTRF 90
>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 = 46.5 bits (110), Expect = 9e-06
Identities = 22/132 (16%), Positives = 47/132 (35%), Gaps = 14/132 (10%)
Query: 179 VSDGPVVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEF-VDEYTVRVIDVFAM-P 236
VS V+ + L K ++ + V ++V + G D V+ I + P
Sbjct: 28 VSADDFVEEQNVYVLPKNLLKKFIE--ISDVKIQVAAFIYGMSAKDHPKVKEIKTVVLVP 85
Query: 237 QTGTGVSVEAVD--PVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQS-F 293
Q G SV+ + + + L ++GW H+ +++ ++ T F
Sbjct: 86 QLGHVGSVQISNIPDIGDLPDTEGL-------ELLGWIHTQTEELKFMAASEVATHSKLF 138
Query: 294 EALSERAVAVVV 305
+ + +
Sbjct: 139 ADKKRDCIDISI 150
>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A
{Caenorhabditis elegans} PDB: 2p87_A
Length = 273
Score = 43.4 bits (102), Expect = 1e-04
Identities = 26/117 (22%), Positives = 42/117 (35%), Gaps = 11/117 (9%)
Query: 179 VSDGPVVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEF-VDEYTVRVIDVFAM-P 236
V+ V DT + L K + + + ++ G M G D V+ I + P
Sbjct: 29 VNSDDVKDTGYTYILPKNILKKFIT--ISDLRTQIAGFMYGVSPPDNPQVKEIRCIVLVP 86
Query: 237 QTGTGVSVEAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQSF 293
QTG+ V + ++L +GW H+ P LS D+ T
Sbjct: 87 QTGSHQQVNLPTQLPDHELLRDF-------EPLGWMHTQPNELPQLSPQDVTTHAKL 136
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain;
3.28A {Saccharomyces cerevisiae}
Length = 565
Score = 40.9 bits (95), Expect = 0.001
Identities = 22/136 (16%), Positives = 48/136 (35%), Gaps = 14/136 (10%)
Query: 179 VSDGPVVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEFV-DEYTVRVIDVFAM-P 236
VS V+ + L K ++ + V ++V + G D V+ I + P
Sbjct: 339 VSADDFVEEQNVYVLPKNLLKKFIE--ISDVKIQVAAFIYGMSAKDHPKVKEIKTVVLVP 396
Query: 237 QTGTGVSVE--AVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDINTQQS-F 293
Q G SV+ + + + L+ ++GW H+ +++ ++ T F
Sbjct: 397 QLGHVGSVQISNIPDIGDLPDTEGLE-------LLGWIHTQTEELKFMAASEVATHSKLF 449
Query: 294 EALSERAVAVVVDPIQ 309
+ + +
Sbjct: 450 ADKKRDCIDISIFSTP 465
>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 = 32.2 bits (72), Expect = 0.21
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 12/32 (37%)
Query: 309 QSVKELAKHYNKALEEEEKM-SPEQ---LAIK 336
Q++K+ L+ K+ + + LAIK
Sbjct: 20 QALKK--------LQASLKLYADDSAPALAIK 43
>3oo8_A ABC transporter binding protein ACBH; class 2 SBP fold, ABC
transporter extracellular solute bindi protein,
D-galactose binding; 1.60A {Actinoplanes} PDB: 3oo6_A*
3oo7_A 3oo9_A 3ooa_A
Length = 415
Score = 32.5 bits (74), Expect = 0.38
Identities = 21/156 (13%), Positives = 50/156 (32%), Gaps = 26/156 (16%)
Query: 200 KMLKHGRAGVPMEVMGL-MLGEFVDEYTVRVIDVFAMPQTGTG--------------VSV 244
K L++ +AG M G + + +D F P +
Sbjct: 250 KALENKQAG--MMFQGSNQVAANYSAKNLPDLDFFVFPAINPQYGTDYMDAPTDGFILPK 307
Query: 245 EAVDPVFQAKMLDMLKQTGRPEMVVGWYHSHPGFGCWLSGVDIN-----TQQSFEALSER 299
+ + K+L + G E + + +G+ ++S + +
Sbjct: 308 KGKNAAAAKKVLQYI---GTAEAEAAFLKTDHWDVGLANGLIAPTYNDIQKKSVAEIGKC 364
Query: 300 AVAVVVDPIQSVKELAKHYNKALEE-EEKMSPEQLA 334
+V ++A K +++ ++ +PE +A
Sbjct: 365 KSVSQFMERDTVPDMANAMIKLIQQFIDQPTPETIA 400
>4amu_A Ornithine carbamoyltransferase, catabolic; ornithine
transcarbamoylase, hydrolase; 2.50A {Mycoplasma
penetrans} PDB: 4anf_A
Length = 365
Score = 31.1 bits (71), Expect = 1.1
Identities = 13/78 (16%), Positives = 32/78 (41%), Gaps = 9/78 (11%)
Query: 55 HYYSISINYRKNELEQKMLLNLHKKTWMDGLSLQDYNEHCKLNEGTVNDMLELAKHYNKA 114
H++ + ++ ++ M +NL + SL ++ V +++L+ KA
Sbjct: 7 HHHHHHSSGHIDDDDKHMPVNLKGR---SLDSLLNFTTE------EVQHLIDLSIDLKKA 57
Query: 115 LEEEEKMSPEQLAIKNVG 132
+ ++ L KN+
Sbjct: 58 KYQGLHINNRPLVGKNIA 75
>3if2_A Aminotransferase; YP_265399.1, structura genomics, joint center for
structural genomics, JCSG, prote structure initiative,
PSI-2; HET: PLP; 2.50A {Psychrobacter arcticus 273-4}
Length = 444
Score = 30.8 bits (70), Expect = 1.1
Identities = 12/68 (17%), Positives = 26/68 (38%), Gaps = 6/68 (8%)
Query: 242 VSVEAVDPVFQAK---MLDMLKQTGRPEMVVGWYHSHPGFGCW--LSGVDINTQQSFEAL 296
+S + P +Q + + +LKQ + + + W + I+T +E L
Sbjct: 328 LSDNEIKPFYQKQATLAVKLLKQ-ALGDYPLMIHKPEGAIFLWLWFKDLPISTLDLYERL 386
Query: 297 SERAVAVV 304
+ +V
Sbjct: 387 KAKGTLIV 394
>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 = 1.2
Identities = 11/57 (19%), Positives = 25/57 (43%), Gaps = 5/57 (8%)
Query: 306 DPIQSVKELAKHYNKALEEEEKMSPEQLA-IKNVGKQDPK---RHLEEKVDTLMTAN 358
+P +S+++ + K L+E + S + K+D + + E+V+ N
Sbjct: 83 EP-ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138
Score = 29.4 bits (65), Expect = 2.4
Identities = 10/74 (13%), Positives = 25/74 (33%), Gaps = 22/74 (29%)
Query: 64 RKNELEQK---------MLLNLHKKTWMDGLSLQDYNEHCKLNEGTVNDMLELAKHYNKA 114
++ L++ KK L+++N+ ++ +E K N+
Sbjct: 94 QRKRLQELDAASKVMEQEWREKAKK------DLEEWNQR-------QSEQVEKNKINNRI 140
Query: 115 LEEEEKMSPEQLAI 128
++ P+ I
Sbjct: 141 ADKAFYQQPDADII 154
>1f0l_A Diphtheria toxin; bacterial toxin, ADP-ribosylation, transmembrane;
HET: APU; 1.55A {Corynebacterium diphtheriae} SCOP:
b.2.1.1 d.166.1.1 f.1.2.1 PDB: 1ddt_A* 1mdt_A* 1sgk_A
1tox_A* 1xdt_T 4ae0_A 4ae1_A 1dtp_A*
Length = 535
Score = 30.6 bits (68), Expect = 1.6
Identities = 29/122 (23%), Positives = 49/122 (40%), Gaps = 14/122 (11%)
Query: 106 ELAKHYNKALEEEEKMSPEQLAIKNVGKQDPKRHLEEKVDTLMTANIIQCLDR----NME 161
E AK Y + + PE +K V +P N+ Q +D N+E
Sbjct: 241 EKAKQYLEEFHQTALEHPELSELKTVTGTNPV--FAGANYAAWAVNVAQVIDSETADNLE 298
Query: 162 RLLRLGSGMPGLSQAPPVSDGPVVDTAEQVYISSLALLKMLKHGRAGVPMEVMGLMLGEF 221
+ S +PG+ ++DG V E++ S+AL ++ +P ++GE
Sbjct: 299 KTTAALSILPGIGSVMGIADGAVHHNTEEIVAQSIALSSLM--VAQAIP------LVGEL 350
Query: 222 VD 223
VD
Sbjct: 351 VD 352
>4dvy_P Cytotoxicity-associated immunodominant antigen; oncoprotein; 3.30A
{Helicobacter pylori}
Length = 877
Score = 29.9 bits (66), Expect = 2.7
Identities = 26/124 (20%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 33 TTSNLGHLQKHSVQALIHGLNRHYYSISINYRKNELEQKMLLNLHKKTWMDGLSLQDYNE 92
T+ + HL+ + + L ++ + LE K+ GLSLQ+ N+
Sbjct: 526 ATNGVSHLEAGFNKVAVFNLPDLNNLAITSFVRRNLENKL--------TAKGLSLQEANK 577
Query: 93 HCKLNEGTVNDMLELAKHYNKALEEEEKM-SPEQL--AIKNVGKQ-DPKRHLEEKVDTLM 148
K + ++ A ++NKA+ E + + +++ A K++ K + HLE++V+ +
Sbjct: 578 LIKDFLSSNKELAGKALNFNKAVAEAKSTGNYDEVKKAQKDLEKSLRKREHLEKEVEKKL 637
Query: 149 TANI 152
+
Sbjct: 638 ESKS 641
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
cerevisiae}
Length = 1219
Score = 29.8 bits (67), Expect = 2.7
Identities = 19/136 (13%), Positives = 48/136 (35%), Gaps = 18/136 (13%)
Query: 66 NELEQKMLLNLHKKTWMDGLSLQDYNEHCKLNEG-----TVNDML-ELAKHYNKALEEEE 119
+E + + + ++ ++ L+L+ Y E + N G +N ++ EL + + +
Sbjct: 822 SEFIELLREDPDRRAKLESLNLESYAEELEKNTGLRKLNNLNTIVLELLDGFEELRNDFH 881
Query: 120 KMSPEQLAIKNVGKQDPKRHLEEKVDTLMTANIIQCLDRNMER---LLRLGSGMPGLSQA 176
+ +++ G E T +II + S + + A
Sbjct: 882 PLQGDEIFQSLTG---------ESEKTFFKGSIIPVRVERFWHNDIICTTNSEVECVVNA 932
Query: 177 PPVSDGPVVDTAEQVY 192
+ + A ++Y
Sbjct: 933 QRHAGAQLRRPANEIY 948
>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter
thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB:
1fxk_B
Length = 107
Score = 27.6 bits (61), Expect = 5.1
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 8/74 (10%)
Query: 288 NTQQSFEALSERAVAVVVDPIQSVKELAKHYNKALEEEEKMSPEQLAIKNVG-------K 340
+ F+ L ++A A+ V Q+V+ KALEE + + + K+ G K
Sbjct: 5 HQLAQFQQLQQQAQAISVQ-KQTVEMQINETQKALEELSRAADDAEVYKSSGNILIRVAK 63
Query: 341 QDPKRHLEEKVDTL 354
+ L+EK++TL
Sbjct: 64 DELTEELQEKLETL 77
>3s8f_A Cytochrome C oxidase subunit 1; complex IV, respiratory chain,
lipid cubic phase, monoolein, peroxide, electron
transport, proton pump; HET: HEM HAS OLC; 1.80A {Thermus
thermophilus} PDB: 3s8g_A* 1xme_A* 3qjq_A* 3qjr_A*
3qju_A* 3qjv_A* 4esl_A* 3qjs_A* 2qpd_A* 3bvd_A* 2qpe_A*
3qjt_A* 1ehk_A* 3eh5_A* 3eh3_A* 3eh4_A*
Length = 569
Score = 28.5 bits (64), Expect = 6.1
Identities = 5/53 (9%), Positives = 20/53 (37%), Gaps = 5/53 (9%)
Query: 416 GLTGYISGVLVAVKQIMPDHVILNTGLGKMTNRNIPLLV--ILIASILWLIGL 466
G + ++ V++ ++ + + PL+ ++ ++W +
Sbjct: 155 GASVFVLSTWVSIYIVL---DLWRRWKAANPGKVTPLVTYMAVVFWLMWFLAS 204
>3gjx_A Exportin-1; transport, cytoplasm, nucleus, RNA-binding,
acetylation, GTP-binding, HOST-virus interaction,
nucleotide-binding, phosphoprotein; HET: GTP; 2.50A {Mus
musculus} PDB: 3nby_A* 3nbz_A* 3nc0_A* 3nc1_A* 3gb8_A
Length = 1073
Score = 28.7 bits (63), Expect = 6.4
Identities = 18/99 (18%), Positives = 36/99 (36%), Gaps = 4/99 (4%)
Query: 432 MPDHVI-LNTGLGKMTNRNIPLLVILIASILWLIGLVDSIRPTMTLFGTLVSWIYLRF-Y 489
P+H L + + P + + + ++DSI V+ L+ +
Sbjct: 843 YPEHRTNFFLLLQAVNSHCFPAFLAIPPAQF--KLVLDSIIWAFKHTMRNVADTGLQILF 900
Query: 490 QYHTNGTRGDMADNFNFANFFPTIIQPPIAVVCNTIHEF 528
N + + A + +F I+Q +VV +T H
Sbjct: 901 TLLQNVAQEEAAAQSFYQTYFCDILQHIFSVVTDTSHTA 939
>3u07_A Uncharacterized protein VPA0106; structural genomics, PSI-biology,
protein structure initiati northeast structural genomics
consortium; 2.08A {Vibrio parahaemolyticus}
Length = 443
Score = 28.4 bits (62), Expect = 6.9
Identities = 12/42 (28%), Positives = 19/42 (45%)
Query: 162 RLLRLGSGMPGLSQAPPVSDGPVVDTAEQVYISSLALLKMLK 203
+LL G+ L +P + VD AE YI ++ + K
Sbjct: 4 KLLVTLLGLSALGASPVFAANTNVDLAEDAYIYGYSIDEAYK 45
>1qwg_A PSL synthase;, (2R)-phospho-3-sulfolactate synthase;
beta-alpha-barrel, lyase; 1.60A {Methanocaldococcus
jannaschii} SCOP: c.1.27.1
Length = 251
Score = 27.9 bits (62), Expect = 8.2
Identities = 8/42 (19%), Positives = 15/42 (35%)
Query: 343 PKRHLEEKVDTLMTANIIQCLGGKLIEPLWGSMEMMTFFAIV 384
+ ++EK++ I GG L E + + F
Sbjct: 53 DRDVVKEKINYYKDWGIKVYPGGTLFEYAYSKGKFDEFLNEC 94
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
0.321 0.137 0.407
Gapped
Lambda K H
0.267 0.0608 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,070,560
Number of extensions: 574182
Number of successful extensions: 1392
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1360
Number of HSP's successfully gapped: 47
Length of query: 574
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 475
Effective length of database: 3,937,614
Effective search space: 1870366650
Effective search space used: 1870366650
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 (21.9 bits)
S2: 60 (27.2 bits)