RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15160
(366 letters)
>4fld_A Regulation of nuclear PRE-mRNA domain-containing 1B; structural
genomics consortium, SGC, protein binding; 2.00A {Homo
sapiens}
Length = 135
Score = 136 bits (343), Expect = 1e-39
Identities = 70/135 (51%), Positives = 88/135 (65%), Gaps = 1/135 (0%)
Query: 2 AGFTQSALISKLEELNASQQSIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRKLTLMY 61
+ F++SAL KL EL+ SQQS+QTLSLWLIHHRKH IV W E+ KA +RKLT +Y
Sbjct: 2 SSFSESALEKKLSELSNSQQSVQTLSLWLIHHRKHAGPIVSVWHRELRKAKSNRKLTFLY 61
Query: 62 LANDVIQNSKKKGPEYGKEFGHVLKQAFVSVGDVHCSEKTRSSLSRILNIWEERGVYDKQ 121
LANDVIQNSK+KGPE+ +EF VL AF V E + L R+LNIW+ER VY +
Sbjct: 62 LANDVIQNSKRKGPEFTREFESVLVDAFSHVAR-EADEGCKKPLERLLNIWQERSVYGGE 120
Query: 122 QIASFRTAFNAALEP 136
I + + + P
Sbjct: 121 FIQQLKLSMEDSKSP 135
Score = 44.6 bits (105), Expect = 5e-06
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 190 HCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAALEP 230
E + L R+LNIW+ER VY + I + + + P
Sbjct: 95 EADEGCKKPLERLLNIWQERSVYGGEFIQQLKLSMEDSKSP 135
>4flb_A Regulation of nuclear PRE-mRNA domain-containing; structural
genomics consortium, SGC, protein binding; 1.80A {Homo
sapiens}
Length = 132
Score = 134 bits (339), Expect = 4e-39
Identities = 51/135 (37%), Positives = 73/135 (54%), Gaps = 5/135 (3%)
Query: 1 MAGFTQSALISKLEELNASQQSIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRKLTLM 60
AG +S+L K + + + +SIQ LS W I ++KHHSTIV W+ + ++ +L L
Sbjct: 2 SAGALESSLDRKFQSVTNTMESIQGLSSWCIENKKHHSTIVYHWMKWLRRSAYPHRLNLF 61
Query: 61 YLANDVIQNSK-KKGPEYGKEFGHVLKQAFVSVGDVHCSEKTRSSLSRILNIWEERGVYD 119
YLANDVIQN K K + + F VL +A V D S+ RI IWE+R VY
Sbjct: 62 YLANDVIQNCKRKNAIIFRESFADVLPEAAALVKD----PSVSKSVERIFKIWEDRNVYP 117
Query: 120 KQQIASFRTAFNAAL 134
++ I + R A +
Sbjct: 118 EEMIVALREALSTTF 132
Score = 43.4 bits (102), Expect = 1e-05
Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 173 RRNKYDKKQAF----VSVGDVHCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAAL 228
R+N +++F + S+ RI IWE+R VY ++ I + R A +
Sbjct: 73 RKNAIIFRESFADVLPEAAALVKDPSVSKSVERIFKIWEDRNVYPEEMIVALREALSTTF 132
>2km4_A Regulator of TY1 transposition protein 103; CTD-interacting domain,
RNA polymerase II binding protein, phosphoprotein; NMR
{Saccharomyces cerevisiae} PDB: 2l0i_A*
Length = 142
Score = 130 bits (328), Expect = 2e-37
Identities = 40/140 (28%), Positives = 67/140 (47%), Gaps = 5/140 (3%)
Query: 1 MAGFTQSALISKLEELNASQQSIQTLSLWLIHHRKHHSTIVKTWIDEV--EKADDHRKLT 58
MA F+ +KL L SQ+SI + S WL+ + + + W + + + RKL
Sbjct: 1 MA-FSSEQFTTKLNTLEDSQESISSASKWLLLQYRDAPKVAEMWKEYMLRPSVNTRRKLL 59
Query: 59 LMYLANDVIQNSK-KKGPEYGKEFGHVLKQAFVSVGDVHCSEKTRSSLSRILNIWEERGV 117
+YL N V+Q +K +K ++ FG V + + + LSR++NI +ER +
Sbjct: 60 GLYLMNHVVQQAKGQKIIQFQDSFGKVAAEVLGRINQ-EFPRDLKKKLSRVVNILKERNI 118
Query: 118 YDKQQIASFRTAFNAALEPQ 137
+ KQ + + AALE
Sbjct: 119 FSKQVVNDIERSLAAALEHH 138
Score = 46.6 bits (110), Expect = 1e-06
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 190 HCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAALEPQ 231
+ LSR++NI +ER ++ KQ + + AALE
Sbjct: 97 EFPRDLKKKLSRVVNILKERNIFSKQVVNDIERSLAAALEHH 138
>3d9j_A RNA-binding protein 16; SCAF8, RNA polymerase II CTD interacting
domain, arm repeats phospho-CTD, phosphoprotein,
transcription; 1.60A {Homo sapiens} PDB: 3d9k_A* 3d9l_A*
3d9m_A* 3d9n_A* 3d9p_A* 3d9i_A 3d9o_A* 2diw_A
Length = 145
Score = 97.9 bits (243), Expect = 5e-25
Identities = 23/140 (16%), Positives = 57/140 (40%), Gaps = 11/140 (7%)
Query: 7 SALISKLEELNA-----SQQSIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRKLTLMY 61
S+L LN S+ + ++ I K + +V++ ++K K+ +Y
Sbjct: 5 KTFNSELYSLNDYKPPISKAKMTQITKAAIKAIKFYKHVVQSVEKFIQKCKPEYKVPGLY 64
Query: 62 LANDVIQNSKKKGPE----YGKEFGHVLKQAFVSVGDVHCSEKTRSSLSRILNIWEERGV 117
+ + +++ S+ + + + F + + F ++ C +S + R+LN+W++ V
Sbjct: 65 VIDSIVRQSRHQFGQEKDVFAPRFSNNIISTFQNL--YRCPGDDKSKIVRVLNLWQKNNV 122
Query: 118 YDKQQIASFRTAFNAALEPQ 137
+ + I A
Sbjct: 123 FKSEIIQPLLDMAAALEHHH 142
Score = 40.5 bits (94), Expect = 2e-04
Identities = 9/42 (21%), Positives = 17/42 (40%)
Query: 190 HCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAALEPQ 231
C +S + R+LN+W++ V+ + I A
Sbjct: 101 RCPGDDKSKIVRVLNLWQKNNVFKSEIIQPLLDMAAALEHHH 142
>1sz9_A PCF11 protein; RNA polymerase II CTD interacting domain, arm
repeats, transcription; 2.10A {Saccharomyces cerevisiae}
SCOP: a.118.9.4 PDB: 1sza_A* 2bf0_X
Length = 144
Score = 85.9 bits (212), Expect = 1e-20
Identities = 27/142 (19%), Positives = 45/142 (31%), Gaps = 13/142 (9%)
Query: 1 MAGFTQSAL---ISKLEELNA-SQQSIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRK 56
M T+ + S LEEL S+ I TL+ + V +EK +K
Sbjct: 1 MDHDTEVIVKDFNSILEELTFNSRPIITTLTKLAEENISCAQYFVDAIESRIEKCMPKQK 60
Query: 57 LTLMYLANDVIQNSKKKGPEYGKEFGHVLKQAFVSVGDVHCSEKTRSSLSRILNIWEERG 116
L Y + + +N G Y F L + TR+ L + +W
Sbjct: 61 LYAFYALDSICKNV---GSPYTIYFSRNLFNLYKRTYL-LVDNTTRTKLINMFKLWLNPN 116
Query: 117 -----VYDKQQIASFRTAFNAA 133
+++ + A
Sbjct: 117 DTGLPLFEGSALEKIEQFLIKA 138
Score = 30.4 bits (68), Expect = 0.42
Identities = 5/43 (11%), Positives = 12/43 (27%), Gaps = 5/43 (11%)
Query: 190 HCSEKTRSSLSRILNIWEERG-----VYDKQQIASFRTAFNAA 227
TR+ L + +W +++ + A
Sbjct: 96 LVDNTTRTKLINMFKLWLNPNDTGLPLFEGSALEKIEQFLIKA 138
>3clj_A Protein NRD1; CTD-interacting domain, nucleus, phosphoprotein, RNA
polymer binding protein, RNA binding protein; 2.10A
{Saccharomyces cerevisiae}
Length = 157
Score = 57.1 bits (137), Expect = 3e-10
Identities = 23/130 (17%), Positives = 49/130 (37%), Gaps = 13/130 (10%)
Query: 17 NASQQSIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRKLTLMYLANDVIQNSK---KK 73
S I+ L+ + + H S I+ ID D KL +Y+ + + + +
Sbjct: 19 GISGSRIKKLTTYALDHIDIESKIISLIIDYSRLCPDSHKLGSLYIIDSIGRAYLDETRS 78
Query: 74 GPEYGKEFGHVLKQAFVSVGDV----------HCSEKTRSSLSRILNIWEERGVYDKQQI 123
A ++G+V ++ + + +L+IW+ G++ K +
Sbjct: 79 NSNSSSNKPGTCAHAINTLGEVIQELLSDAIAKSNQDHKEKIRMLLDIWDRSGLFQKSYL 138
Query: 124 ASFRTAFNAA 133
+ R+ AA
Sbjct: 139 NAIRSKCFAA 148
Score = 38.2 bits (88), Expect = 0.001
Identities = 8/38 (21%), Positives = 20/38 (52%)
Query: 190 HCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAA 227
++ + + +L+IW+ G++ K + + R+ AA
Sbjct: 111 KSNQDHKEKIRMLLDIWDRSGLFQKSYLNAIRSKCFAA 148
>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 = 59.9 bits (144), Expect = 6e-10
Identities = 45/376 (11%), Positives = 111/376 (29%), Gaps = 100/376 (26%)
Query: 10 ISKLEELNASQQSIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRKLTL--M------Y 61
I + + L Q ++ R ++ + + + + + + +
Sbjct: 113 IEQRDRLYNDNQVFAKYNVS----RLQPYLKLRQAL---LELRPAKNVLIDGVLGSGKTW 165
Query: 62 LANDVIQNSKKKGPEYGKEFGHVLKQAFVSVGDVHCSEKTRSSLSRILNIWEERGVYDKQ 121
+A DV + K + K F ++++ + + E L ++L +
Sbjct: 166 VALDVCLSYKVQCKMDFKIF-------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 122 QIASFRTAFNAALEPQTKRRKL--SESNTEVLYDVDGNVPIGYFTFFHIDGKGRRNKYDK 179
++ + ++ Q + R+L S+ L + NV +
Sbjct: 219 HSSNIKLRIHSI---QAELRRLLKSKPYENCLLVLL-NV------------------QNA 256
Query: 180 K--QAFVSVGDVHCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAALEPQTKRRKL 237
K AF ++ C +IL + V D L T
Sbjct: 257 KAWNAF----NLSC---------KILLTTRFKQVTD-------------FLSAATTTHIS 290
Query: 238 SESNTEVLYDVDELETSASSDANIREKIAKLPPEVSEIQ-LLSKVQGKNITGQPDR---- 292
+ ++ L + + + LP EV + ++I
Sbjct: 291 LDHHSMTLTPDEVKSLLLK---YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW 347
Query: 293 --VAAENLSIQVNEAVDLLTNYNTRLVTEMEDRKRASAMLKD--YIAAQRELLEQAEQRL 348
V + L+ + ++++L E ++ +I LL +
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPA------EYRKMFDRLSVFPPSAHIPTI--LLS----LI 395
Query: 349 --EVSETEIFLFLKKF 362
+V ++++ + + K
Sbjct: 396 WFDVIKSDVMVVVNKL 411
Score = 36.8 bits (84), Expect = 0.013
Identities = 26/110 (23%), Positives = 43/110 (39%), Gaps = 23/110 (20%)
Query: 271 EVSEI--QLLSKVQGKNITGQPDRVAAENLSI---------QVNEAVD--LLTNYN---T 314
+V ++ +LSK + +I D V+ V + V+ L NY +
Sbjct: 37 DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS 96
Query: 315 RLVTEMEDRKRASAMLKDYIAAQRELLEQAEQRLE---VSETEIFLFLKK 361
+ TE S M + YI QR+ L Q VS + +L L++
Sbjct: 97 PIKTEQRQP---SMMTRMYI-EQRDRLYNDNQVFAKYNVSRLQPYLKLRQ 142
>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 = 53.1 bits (127), Expect = 9e-08
Identities = 61/430 (14%), Positives = 128/430 (29%), Gaps = 154/430 (35%)
Query: 16 LNASQQSIQT-----LSLWLIH---HRKHHSTIVKTWIDEVEKADDHR---KLT---LMY 61
L S S++ + + ++ + I+ + D+ +L L Y
Sbjct: 9 LTLSHGSLEHVLLVPTASF-FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 62 LANDVIQNSKKKGPEYGKEFGHVLK-------QAFVSVGDVHCSEKTRSSLSRILNIWEE 114
+++ V + +F VL ++ D+H + +++L +
Sbjct: 68 VSSLVEPSKVG-------QFDQVLNLCLTEFENCYLEGNDIH------ALAAKLLQENDT 114
Query: 115 RGVYDKQQIASFRTAFNAALEPQTKRRK--LSESNTEVLYDVDGNVPIGYFTFFHIDGKG 172
V K+ I ++ TA A P K+ L + +GN + F G+G
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVG------EGNAQL--VAIF--GGQG 164
Query: 173 RRNKYDKKQAFVSVGDVHCSEKTRSSLSRILNIWEE-RGVYD--KQQIASFRTAFNAALE 229
+ Y +EE R +Y + L
Sbjct: 165 NTDDY----------------------------FEELRDLYQTYHVLVGDLIKFSAETLS 196
Query: 230 PQTKRRKLSESNTEVLY----DVDE-LETSASSDANIREKIAKLPPE-------VS--EI 275
+ + + E ++ ++ E LE +++ P + +S I
Sbjct: 197 ELIR----TTLDAEKVFTQGLNILEWLENPSNT-----------PDKDYLLSIPISCPLI 241
Query: 276 QLLS--------KVQGKN----------ITGQ-PDRVAA---------ENLSIQVNEAVD 307
++ K+ G TG V A E+ + V +A+
Sbjct: 242 GVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAIT 301
Query: 308 LL-------------TNYNTRLVTEMEDR--KRASAML--KDYIAAQ-RELLEQAEQRLE 349
+L T+ ++ + + S ML + Q ++ + + L
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLP 361
Query: 350 VSET-EIFLF 358
+ EI L
Sbjct: 362 AGKQVEISLV 371
Score = 49.7 bits (118), Expect = 1e-06
Identities = 61/348 (17%), Positives = 107/348 (30%), Gaps = 128/348 (36%)
Query: 38 STIVK-TWIDEVEKADDHRKLTLMYLANDVIQ-NSKKKGPEYGKEFGHVLKQ-----AFV 90
S + W +AD+H K T + D++ N +G E G +++ F
Sbjct: 1639 SKAAQDVW----NRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 91 SVGDVHC-SEKTRSSLSRILN--IWE-ERGVYDK---QQIASFRTAFNAALEPQTKRRKL 143
++ D +EK ++ + E+G+ Q A AA E L
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK-AAFE------DL 1747
Query: 144 SESNTEVLYDVDGNVPIGYFTFF--HIDGKGRRNKYDKKQAFVSVGD----VHCSEKTRS 197
G +P F H S+G+ ++
Sbjct: 1748 KS---------KGLIPADA--TFAGH-----------------SLGEYAALASLAD---- 1775
Query: 198 SLS-----RILNIWEERGVYDKQQIASFRTAFN------AALEPQTKRRKLSESNTEVLY 246
+S ++ RG+ Q+A R A+ P S+
Sbjct: 1776 VMSIESLVEVVFY---RGMT--MQVAVPRDELGRSNYGMIAINPGRVAASFSQ------- 1823
Query: 247 DVDELETSASSDANIREKIAKLPPEVSEIQLLSKVQGKNITGQPDRVAAENLSIQV---- 302
+ L+ + E++ K + EI V N+ Q Q
Sbjct: 1824 --EALQ-------YVVERVGKRTGWLVEI-----VN-YNVENQ-----------QYVAAG 1857
Query: 303 -NEAVDLLTNYNTRLVTEMEDRKRASAMLKDYIAAQREL-LEQAEQRL 348
A+D +TN ++ ++ +K D I Q+ L LE+ E L
Sbjct: 1858 DLRALDTVTN----VLNFIKLQK------IDIIELQKSLSLEEVEGHL 1895
Score = 36.2 bits (83), Expect = 0.017
Identities = 38/242 (15%), Positives = 73/242 (30%), Gaps = 93/242 (38%)
Query: 1 M---AGFTQSALISKLEELNASQQSIQTLSLWLIHHRKHHSTIV----------KTWIDE 47
M + TQ + + + N+ + + + + L++ K+ +V + +
Sbjct: 338 MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNL--VVSGPPQSLYGLNLTLRK 395
Query: 48 VEKA----DDHRKLTLMYLANDVIQNSKKKGPEYGKEFG--------HVLKQAFVSV-GD 94
KA D R I S++K ++ F H+L A + D
Sbjct: 396 A-KAPSGLDQSR-----------IPFSERK-LKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 95 VHCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAALEPQTKRRKLSESNTEVLYD- 153
+ + + ++ + I VYD + R LS S +E + D
Sbjct: 443 LVKNNVSFNAKD--IQI----PVYD------TFDGSDL--------RVLSGSISERIVDC 482
Query: 154 -----VD-----------------GNVP-IGYFTFFHIDGKGRRNKYDKKQAFVSVGDVH 190
V G +G T + DG G R + G +
Sbjct: 483 IIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVR--------VIVAGTLD 534
Query: 191 CS 192
+
Sbjct: 535 IN 536
Score = 32.7 bits (74), Expect = 0.20
Identities = 37/258 (14%), Positives = 78/258 (30%), Gaps = 98/258 (37%)
Query: 127 RTAFNAALEPQTKRRKLSE---SNTEVL--YDVDGNVPIGYFTFFHIDGKGRRNKYDK-- 179
+ FN L T+ + + E++ + +GY + + + ++D+
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAELVGKF-------LGYVS--SLVEPSKVGQFDQVL 84
Query: 180 -------KQAFVSVGDVHCSEKTRSSLSRILNIWEERGVYDKQQIASFRTAFNAALEPQT 232
+ ++ D+H + +++L + V K+ I ++ TA A P
Sbjct: 85 NLCLTEFENCYLEGNDIH------ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFD 138
Query: 233 KRRKLSESNTEVLYDVDELETSASSDANIREKIAKLPPEVSEIQLLSKV---QGKNITGQ 289
K+ S S L +A + +A + QG
Sbjct: 139 KK---SNS---AL-----FRAVGEGNAQL---VA--------------IFGGQGNTDDY- 169
Query: 290 PDRVAAENLSIQVNEAVDLLTNYNTRLVTEMEDRKRASAMLKDYIAAQRELLEQAEQRL- 348
E DL Y T Y +L++ + + L
Sbjct: 170 ------------FEELRDL---YQT------------------YHVLVGDLIKFSAETLS 196
Query: 349 EVSETEI---FLFLKKFD 363
E+ T + +F + +
Sbjct: 197 ELIRTTLDAEKVFTQGLN 214
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.99
Identities = 20/87 (22%), Positives = 36/87 (41%), Gaps = 18/87 (20%)
Query: 288 GQPDRVAAENLSIQV-NEAVDLLTNYNTRL--------VTEMEDRKRASAMLKDYIAAQR 338
Q DR+ E SI+ E RL V E E R++A L+++ Q
Sbjct: 75 AQADRLTQEPESIRKWRE------EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQS 128
Query: 339 ELLEQAEQRLEVSETEIFLFLKKFDGE 365
E +E+ + +++ F ++ D +
Sbjct: 129 EQVEKNKINNRIADKA---FYQQPDAD 152
>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 = 30.1 bits (68), Expect = 1.3
Identities = 6/31 (19%), Positives = 12/31 (38%), Gaps = 4/31 (12%)
Query: 32 HHRKHHSTIVKTWIDEVEKADDHRKLTLMYL 62
HH ++ + + +K TL +L
Sbjct: 6 HHHAVRASEISRVYEAY----PEKKATLYFL 32
>3rn4_A Superoxide dismutase [MN], mitochondrial; mitochondrial manganese
superoxide dismutase, iron-binding, mitochondrion,
oxidoreductase; 1.79A {Saccharomyces cerevisiae} PDB:
3bfr_A 3lsu_A*
Length = 215
Score = 29.1 bits (66), Expect = 1.8
Identities = 8/46 (17%), Positives = 16/46 (34%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTLMYLANDVIQNSKKKGPE 76
+H+ KHH T V + V++ + L + +
Sbjct: 33 LHYTKHHQTYVNGFNTAVDQFQELSDLLAKEPSPANARKMIAIQQN 78
>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 = 28.4 bits (62), Expect = 2.2
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 13/30 (43%)
Query: 119 DKQQI----ASFRT---------AFNAALE 135
+KQ + AS + A A +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
Score = 28.4 bits (62), Expect = 2.2
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 13/30 (43%)
Query: 213 DKQQI----ASFRT---------AFNAALE 229
+KQ + AS + A A +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>1zyb_A Transcription regulator, CRP family; NP_813211.1, structural
genomics, joint center for structura genomics, JCSG;
2.15A {Bacteroides thetaiotaomicron} SCOP: a.4.5.4
b.82.3.2
Length = 232
Score = 28.8 bits (65), Expect = 2.2
Identities = 7/25 (28%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 101 TRSSLSRILNIWEERGV--YDKQQI 123
TR ++S+ LN ++ G+ +++I
Sbjct: 199 TRLNISKTLNELQDNGLIELHRKEI 223
Score = 28.8 bits (65), Expect = 2.2
Identities = 7/25 (28%), Positives = 16/25 (64%), Gaps = 2/25 (8%)
Query: 195 TRSSLSRILNIWEERGV--YDKQQI 217
TR ++S+ LN ++ G+ +++I
Sbjct: 199 TRLNISKTLNELQDNGLIELHRKEI 223
>1txj_A Translationally controlled tumour-associated protein (TCTP) from
plasmodium knowlesi,...; structural genomics consortium,
SGC; 2.00A {Plasmodium knowlesi} SCOP: b.88.1.2 PDB:
3p3k_A
Length = 171
Score = 28.4 bits (63), Expect = 2.7
Identities = 17/119 (14%), Positives = 44/119 (36%), Gaps = 14/119 (11%)
Query: 257 SDANIREKIAKLPPEVSEIQLLSKVQGKNIT--------GQPDRVAAENLSIQVNEAVDL 308
SD+ ++ +V+ A + + V + +D+
Sbjct: 15 SDSY---NQEDPFGIADFREIAFEVKSNKRIKGNDDYGIADNSEEAVDGMGADVEQVIDI 71
Query: 309 LTNYNTRLVTEMEDRKRASAMLKDYIAAQRELL-EQAEQRLEVSETEIFLFLKKFDGEY 366
+ ++ +L + +K S +K+Y+ + L E+ R++V +T+ +K +
Sbjct: 72 VDSF--QLTSTSLSKKEYSVYIKNYMQKILKYLEEKKPDRVDVFKTKAQPLIKHILTNF 128
>1b06_A Protein (superoxide dismutase); oxidoreductase; 2.20A {Sulfolobus
acidocaldarius} SCOP: a.2.11.1 d.44.1.1 PDB: 1wb8_A*
1wb7_A
Length = 210
Score = 27.9 bits (63), Expect = 3.7
Identities = 7/41 (17%), Positives = 15/41 (36%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTLMYLANDVIQNSK 71
+H+ HH V +++ + K L D+ +
Sbjct: 32 VHYNGHHKGYVNGANSLLDRLEKLIKGDLPQGQYDLQGILR 72
>1mng_A Manganese superoxide dismutase; oxidoreductase(superoxide
acceptor); 1.80A {Thermus thermophilus} SCOP: a.2.11.1
d.44.1.1 PDB: 3mds_A
Length = 203
Score = 27.9 bits (63), Expect = 3.8
Identities = 10/45 (22%), Positives = 16/45 (35%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTLMYLANDVIQNSKKKGP 75
IHH+KHH V +EK + + L + +
Sbjct: 27 IHHQKHHGAYVTNLNAALEKYPYLHGVEVEVLLRHLAALPQDIQT 71
>1coj_A Protein (superoxide dismutase); oxidoreductase; 1.90A {Aquifex
pyrophilus} SCOP: a.2.11.1 d.44.1.1
Length = 212
Score = 28.0 bits (63), Expect = 4.1
Identities = 6/36 (16%), Positives = 10/36 (27%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTLMYLANDV 66
H H+ V + + EK D +
Sbjct: 26 PHFEAHYKGYVAKYNEIQEKLADQNFADRSKANQNY 61
>3ak2_A Superoxide dismutase [MN/FE]; cambialistic, oxidoreductase; 1.35A
{Aeropyrum pernix} PDB: 3ak1_A 3ak3_A 1p7g_A 3evk_A
Length = 214
Score = 27.9 bits (63), Expect = 4.1
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRK 56
+HH+KHH+T VK +EK + H K
Sbjct: 30 LHHQKHHNTYVKGANAALEKIEKHLK 55
>2gpc_A Iron superoxide dismutase; alpha+beta structure, oxidoreductase;
1.90A {Trypanosoma cruzi} PDB: 3esf_A
Length = 194
Score = 27.9 bits (63), Expect = 4.6
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 22 SIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRKLTLMYLANDVIQNSK 71
S Q ++ +H+ KHH V + ++ ++I+ K
Sbjct: 20 SKQQVT---LHYDKHHQGYVTKLNAAAQTNSALATKSI----EEIIRTEK 62
>2cw2_A Superoxide dismutase 1; SOD, oxidoreductase; 1.86A {Perkinsus
marinus}
Length = 226
Score = 28.0 bits (63), Expect = 4.6
Identities = 14/51 (27%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 22 SIQTLSLWLIHHRKHHSTIVKTWIDEVEKADDHRKLTLMYLANDVIQNSKK 72
S +TL+ HH KHH T V T + TL +I+
Sbjct: 50 SAETLT---YHHDKHHQTYVDTLNSIAAENSTIASKTL----EQIIKTETG 93
>3tze_A Tryptophanyl-tRNA synthetase; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, amino acylation; HET: TRP; 2.60A
{Encephalitozoon cuniculi}
Length = 406
Score = 28.1 bits (62), Expect = 5.7
Identities = 13/72 (18%), Positives = 27/72 (37%), Gaps = 8/72 (11%)
Query: 153 DVDGNVPIGYFTFFHIDGKGRRNKYDK-KQAFVS--VGDVHCSEKTRSSLSRIL-NIWEE 208
D+D +VP Y +F D + + +K + ++ + EK + + E
Sbjct: 333 DIDVDVPFEYLKYFLDDDQ----ELEKYRSGYIKGEITSKEMKEKCVVVIQEFVSRYQES 388
Query: 209 RGVYDKQQIASF 220
R + +F
Sbjct: 389 RKRVTDDDLRAF 400
>4ffk_A Superoxide dismutase; oxidoreductase, superoxide acceptor; 1.76A
{Acidilobus saccharovorans}
Length = 223
Score = 27.6 bits (62), Expect = 5.8
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTL 59
HH KHH V ++K + + L
Sbjct: 42 YHHDKHHLGYVNGANAALDKLEKYLNGQL 70
>1xre_A SODA-2, superoxide dismutase; spine, oxidoreductase; 1.80A
{Bacillus anthracis}
Length = 217
Score = 27.5 bits (62), Expect = 6.1
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTL 59
IHH KHH+T V +E + +L
Sbjct: 36 IHHGKHHATYVNNLNAALENYSELHNKSL 64
>1bsm_A Superoxide dismutase; oxidoreductase; 1.35A {Propionibacterium
freudenreichii subspshermanii} SCOP: a.2.11.1 d.44.1.1
PDB: 1ar4_A 1ar5_A 1bs3_A 1avm_A 1bt8_A
Length = 201
Score = 27.1 bits (61), Expect = 7.4
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTL 59
+HH KHH V ++K + R
Sbjct: 26 LHHDKHHKAYVDGANTALDKLAEARDKAD 54
>1ids_A Iron superoxide dismutase; 2.00A {Mycobacterium tuberculosis}
SCOP: a.2.11.1 d.44.1.1 PDB: 1gn2_A 1gn3_A 1gn6_A
1gn4_A
Length = 207
Score = 27.1 bits (61), Expect = 7.5
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRK 56
+HH KHH+T VK D V K ++ R
Sbjct: 27 LHHSKHHATYVKGANDAVAKLEEARA 52
>1gv3_A Manganese superoxide dismutase; anabaena PCC 7120,; 2.0A
{Anabaena SP} SCOP: a.2.11.1 d.44.1.1
Length = 248
Score = 27.3 bits (61), Expect = 7.7
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTL 59
+HH KHH+ V + ++K + + ++
Sbjct: 61 LHHDKHHAAYVNNLNNALKKHPELQNSSV 89
>1ma1_A Superoxide dismutase; metal specificity, azide inhibition,
peroxide inactivation, oxidoreductase; 2.60A
{Methanothermobacterthermautotrophicus} SCOP: a.2.11.1
d.44.1.1
Length = 205
Score = 27.1 bits (61), Expect = 8.7
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRK 56
IHH+KHH V + K D+ R+
Sbjct: 32 IHHQKHHQAYVDGANALLRKLDEARE 57
>1ix9_A Mnsod, superoxide dismutase; manganese superoxide dismutase,
Y174F mutant, hydrogen bond, reactivity, ultra-high
resolution, oxidoreductase; 0.90A {Escherichia coli}
SCOP: a.2.11.1 d.44.1.1 PDB: 1i0h_A 1ixb_A 1zlz_A
1d5n_A 1mmm_A 1vew_A 3k9s_A 3ot7_A 1en5_A 1en4_A 1i08_A
1en6_A
Length = 205
Score = 26.7 bits (60), Expect = 9.4
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 31 IHHRKHHSTIVKTWIDEVEKADDHRKLTL 59
IHH KHH T V +E + L +
Sbjct: 25 IHHTKHHQTYVNNANAALESLPEFANLPV 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
0.314 0.130 0.358
Gapped
Lambda K H
0.267 0.0570 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,347,034
Number of extensions: 312151
Number of successful extensions: 944
Number of sequences better than 10.0: 1
Number of HSP's gapped: 931
Number of HSP's successfully gapped: 72
Length of query: 366
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 271
Effective length of database: 4,049,298
Effective search space: 1097359758
Effective search space used: 1097359758
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: 58 (26.5 bits)