RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15553
(489 letters)
>2g2k_A EIF-5, eukaryotic translation initiation factor 5; EIF125 fold; NMR
{Homo sapiens}
Length = 170
Score = 205 bits (523), Expect = 1e-64
Identities = 119/168 (70%), Positives = 135/168 (80%)
Query: 3 TVNVNRNVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCEL 62
+VNVNR+V D FYRYKMP+LIAKVEGKGNGIKTVIVNM DVAKA+ RPPTYPTKYFGCEL
Sbjct: 2 SVNVNRSVMDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCEL 61
Query: 63 GAQTKLDHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQV 122
GAQT+ D KNDR+IVNGSH+ KLQD+LDGFI+KFVLCPEC+NPETDL V+ KK TI
Sbjct: 62 GAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNS 121
Query: 123 CKACGFHGMLQFNHKLNTFILKNPPNLNPAVQGSSLTEGKRPKRISKK 170
CKACG+ GML +HKL TFILKNPP + + G E K K K+
Sbjct: 122 CKACGYRGMLDTHHKLCTFILKNPPENSDSGTGKKEKEKKNRKGKDKE 169
>2e9h_A EIF-5, eukaryotic translation initiation factor 5; zinc binding, C4
type zinc finger, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 157
Score = 205 bits (522), Expect = 2e-64
Identities = 114/145 (78%), Positives = 128/145 (88%)
Query: 3 TVNVNRNVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCEL 62
+VNVNR+V+D FYRYKMP+LIAKVEGKGNGIKTVIVNM DVAKA+ RPPTYPTKYFGCEL
Sbjct: 9 SVNVNRSVSDQFYRYKMPRLIAKVEGKGNGIKTVIVNMVDVAKALNRPPTYPTKYFGCEL 68
Query: 63 GAQTKLDHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQV 122
GAQT+ D KNDR+IVNGSH+ KLQD+LDGFI+KFVLCPEC+NPETDL V+ KK TI
Sbjct: 69 GAQTQFDVKNDRYIVNGSHEANKLQDMLDGFIKKFVLCPECENPETDLHVNPKKQTIGNS 128
Query: 123 CKACGFHGMLQFNHKLNTFILKNPP 147
CKACG+ GML +HKL TFILKNPP
Sbjct: 129 CKACGYRGMLDTHHKLCTFILKNPP 153
>2iu1_A EIF5, eukaryotic translation initiation factor 5; MFC, GTP-binding,
phosphorylation, protein biosynthesis, translation
inititation; 1.8A {Homo sapiens}
Length = 208
Score = 153 bits (388), Expect = 4e-44
Identities = 107/260 (41%), Positives = 148/260 (56%), Gaps = 64/260 (24%)
Query: 234 LEKTEKERMDIFYTCVKTALEKNNVDA--KELLSEAERLEVKTKAPLILAELLFADEDKI 291
LE+T +ER++I + VK E+ +D+ KE+++EAERL+VK PL+L E+LF +KI
Sbjct: 1 LERTIEERVNILFDFVKKKKEEGVIDSSDKEIVAEAERLDVKAMGPLVLTEVLF--NEKI 58
Query: 292 PIQAKKHRILFFGSNQFTWRSVGFYRRQINTIATLINQCQLILLDKQSTVLRFTHEDIKA 351
Q KK+R F LRF H + KA
Sbjct: 59 REQIKKYRRHF---------------------------------------LRFCHNNKKA 79
Query: 352 QRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKKYVSKELSAE 411
QRYLL+G+E V+A+H+ +L+S +P ILK YD D+LEE+V++ W+EK SKKYVSKEL+ E
Sbjct: 80 QRYLLHGLECVVAMHQAQLISKIPHILKEMYDADLLEEEVIISWSEKASKKYVSKELAKE 139
Query: 412 IRSRAEPFIKWLREAEEEDSDSEESDDD--LEIEYNDRARVTLQTETIKPKVIKKDEDED 469
IR +AEPFIKWL+EAEEE S EE D+D +E+ Y+ V K + +K D +D
Sbjct: 140 IRVKAEPFIKWLKEAEEESSGGEEEDEDENIEVVYSKLESVP------KVETVKSDNKDD 193
Query: 470 GTNDKDEDEDGTNDVDIDAI 489
D+DIDAI
Sbjct: 194 -------------DIDIDAI 200
>2d74_B Translation initiation factor 2 beta subunit; protein complex;
2.80A {Pyrococcus furiosus} PDB: 2dcu_B*
Length = 148
Score = 148 bits (374), Expect = 7e-43
Identities = 36/145 (24%), Positives = 66/145 (45%), Gaps = 10/145 (6%)
Query: 1 MATVNVNRNVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGC 60
A + NV R+++P + +EG KT+I N D+A A+ R P + K+
Sbjct: 14 KAYQELPENVKHHKSRFEVPGALVTIEGN----KTIIENFKDIADALNRDPQHLLKFLLR 69
Query: 61 ELGAQTKLDHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQ 120
E+ L+ R ++ G + + L +I+++V+CP C +P+T ++ +
Sbjct: 70 EIATAGTLE--GRRVVLQGRFTPYLIANKLKKYIKEYVICPVCGSPDTKIIK--RDRFHF 125
Query: 121 QVCKACGFHGMLQFNHKLNTFILKN 145
C+ACG +Q H L +
Sbjct: 126 LKCEACGAETPIQ--HLLEHHHHHH 148
>1nee_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
two domain protein, mixed alpha-beta structure; NMR
{Methanothermobacterthermautotrophicus} SCOP: d.241.1.1
g.59.1.1
Length = 138
Score = 143 bits (362), Expect = 2e-41
Identities = 33/129 (25%), Positives = 61/129 (47%), Gaps = 8/129 (6%)
Query: 5 NVNRNVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCELGA 64
+ R+++PK + ++G +T I N +VA A+ R P + K+ ELG
Sbjct: 16 DQLPPEVFETKRFEVPKAYSVIQGN----RTFIQNFREVADALNRDPQHLLKFLLRELGT 71
Query: 65 QTKLDHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQVCK 124
L+ R I+ G + + ++ ++ KFV+C EC+ P+T ++ + C+
Sbjct: 72 AGNLE--GGRAILQGKFTHFLINERIEDYVNKFVICHECNRPDTRIIR--EGRISLLKCE 127
Query: 125 ACGFHGMLQ 133
ACG L+
Sbjct: 128 ACGAKAPLK 136
>2ful_A EIF-5, eukaryotic translation initiation factor 5; atypical heat
motif; 1.50A {Saccharomyces cerevisiae}
Length = 177
Score = 137 bits (346), Expect = 2e-38
Identities = 51/221 (23%), Positives = 94/221 (42%), Gaps = 50/221 (22%)
Query: 231 SEDLEKTEKERMDIFYTCVKTALEKNNVDA---KELLSEAERLEV--KTKAPLILAELLF 285
S + +E ++D + + ++ + EL +A L+V K +LA+ LF
Sbjct: 2 SPEFVNSELTQLDEYGEWILEQAGEDKENLPSDVELYKKAAELDVLNDPKIGCVLAQCLF 61
Query: 286 ADEDKIPIQAKKHRILFFGSNQFTWRSVGFYRRQINTIATLINQCQLILLDKQSTVLRFT 345
+ I + +H F +
Sbjct: 62 DE--DIVNEIAEHNAFF---------------------------------------TKIL 80
Query: 346 HEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLLEWAEKTSKKYVS 405
+ ++ + GIE+ + L + L+ ++P IL Y+ DI+ E+ ++ + K+SKK+V
Sbjct: 81 VTP-EYEKNFMGGIERFLGLEHKDLIPLLPKILVQLYNNDIISEEEIMRFGTKSSKKFVP 139
Query: 406 KELSAEIRSRAEPFIKWLREAEEEDSDSEESDDDLEIEYND 446
KE+S ++R A+PFI WL AE + +E DD+LE + D
Sbjct: 140 KEVSKKVRRAAKPFITWLETAESD---DDEEDDELERPHRD 177
>3cw2_K Translation initiation factor 2 subunit beta; AIF2, intact AIF2,
initiation factor 2 alpha subunit, initiation factor 2
beta subunit; 2.80A {Sulfolobus solfataricus} PDB:
2nxu_A 2qmu_C* 3v11_C*
Length = 139
Score = 135 bits (342), Expect = 2e-38
Identities = 29/126 (23%), Positives = 47/126 (37%), Gaps = 7/126 (5%)
Query: 4 VNVNRNVTDAFYRYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRPPTYPTKYFGCELG 63
+ +P +I G T+I N A+ I R KY EL
Sbjct: 15 YSKLPEKGRKEGTQSLPNMIILNIGN----TTIIRNFAEYCDRIRREDKICMKYLLKELA 70
Query: 64 AQTKLDHKNDRFIVNGSHDVVKLQDLLDGFIRKFVLCPECDNPETDLVVSAKKGTIQQVC 123
A +D ++ G + L++ F++ +V C C + +T L +K + VC
Sbjct: 71 APGNVD-DKGELVIQGKFSSQVINTLMERFLKAYVECSTCKSLDTILKK--EKKSWYIVC 127
Query: 124 KACGFH 129
ACG
Sbjct: 128 LACGAQ 133
>1paq_A Translation initiation factor EIF-2B epsilon subunit; heat repeat,
AA motif; 2.30A {Saccharomyces cerevisiae} SCOP:
a.118.1.14
Length = 189
Score = 87.4 bits (216), Expect = 3e-20
Identities = 25/103 (24%), Positives = 49/103 (47%), Gaps = 5/103 (4%)
Query: 334 LLDKQSTVLRFTHEDIKAQRYLLNGI-EQVIALHKEKLLSMVPGILKLFYDYDILEEKVL 392
+ ++ + + D + L+N I E+++ +K ++ L YD DI+EE V+
Sbjct: 91 VFNQWGLLFKRQAFDEEEYIDLMNIIMEKIVEQSFDKPDLILFSALVSLYDNDIIEEDVI 150
Query: 393 LEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSEE 435
+W + S E++ +++WL+ A+EE S EE
Sbjct: 151 YKWWDNVST----DPRYDEVKKLTVKWVEWLQNADEESSSEEE 189
>3jui_A Translation initiation factor EIF-2B subunit EPSI; heat repeat,
guanine nucleotide exchange factor, disease mutation,
leukodystrophy; 2.00A {Homo sapiens}
Length = 182
Score = 86.2 bits (213), Expect = 7e-20
Identities = 29/101 (28%), Positives = 42/101 (41%), Gaps = 3/101 (2%)
Query: 334 LLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLL 393
LL S V R + L IE L E L + +L FY +IL + +L
Sbjct: 85 LLKAWSPVFRNYIKRAADHLEALAAIEDFF-LEHEALGISMAKVLMAFYQLEILAGETIL 143
Query: 394 EWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSE 434
W + K + + FI+WL+EAEEE S+ +
Sbjct: 144 SWFS--QRDTTDKGQQLRKNQQLQRFIQWLKEAEEESSEDD 182
>3d3m_A Eukaryotic translation initiation factor 4 gamma 2; heat repeat
domain, structural genomics, PSI, protein structure
initiative; 1.90A {Homo sapiens}
Length = 168
Score = 69.7 bits (170), Expect = 3e-14
Identities = 21/94 (22%), Positives = 40/94 (42%), Gaps = 5/94 (5%)
Query: 334 LLDKQSTVL-RFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVL 392
LL V+ +F H+ + Q L ++ + M+ FYD +I+EE+
Sbjct: 79 LLLSFKPVMQKFLHDHVDLQVSALYALQVHCY-NSNFPKGMLLRFFVHFYDMEIIEEEAF 137
Query: 393 LEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREA 426
L W E ++++ K + + ++ WL A
Sbjct: 138 LAWKEDITQEFPGKGKA---LFQVNQWLTWLETA 168
>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 = 64.5 bits (156), Expect = 5e-11
Identities = 84/514 (16%), Positives = 154/514 (29%), Gaps = 127/514 (24%)
Query: 5 NVNR-----NVTDAFYRYKMPKLIAKVEG-KGNGIKTVIVNMADVAKAIGRPPTYPTKYF 58
NV+R + A + K + ++G G+G KT + DV + K F
Sbjct: 130 NVSRLQPYLKLRQALLELRPAKNVL-IDGVLGSG-KTWVA--LDVCLSYKVQCKMDFKIF 185
Query: 59 ----GCE------LGAQTKLDHKNDR-------FIVNGSHDVVKLQDLLDGFIRKFVLCP 101
L KL ++ D N + +Q L ++
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY-E 244
Query: 102 EC----DNPETDLVVSAKKGTIQQVCKACGFHGMLQFNHKLNTFILKNPPNLNPAVQGSS 157
C N V K A FN + + +
Sbjct: 245 NCLLVLLN------VQNAK-----AWNA--------FNLSCKILLTTRFKQVTDFLSA-- 283
Query: 158 LTEGKRPKRISKKQESNGDMTKSDEESDPTVVAPEKVADEVNDDDGGWLADVSEEAVRAR 217
IS S +T + +S ++ K D D + E +
Sbjct: 284 ----ATTTHISLDHHSMT-LTPDEVKS---LLL--KYLDCRPQD-------LPREVLTTN 326
Query: 218 ALDLSSGVKGLTISEDLEKTEKERMDIF--YTC--VKTALEK--NNVDAKELLSEAERLE 271
LS I+E + + D + C + T +E N ++ E +RL
Sbjct: 327 PRRLS------IIAESI-RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 272 V---KTKAPLILAELLFAD---EDKIPIQAKKHR--ILFFGSNQFTWRSVGFYRRQINTI 323
V P IL L++ D D + + K H+ ++ + T + +
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST---ISIPSIYLELK 436
Query: 324 ATLINQCQL--ILLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALH-----KEKLLSMVPG 376
L N+ L ++D + F +D+ YL I H + +++
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPP-YLDQYFYSHIGHHLKNIEHPERMTLFR- 494
Query: 377 ILKLFYDYDILEEKVLLE---WAEKTS-----------KKYVSKELSAEIRSRAEPFIKW 422
+F D+ LE+K+ + W S K Y+ + + +
Sbjct: 495 --MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDN-DPKYERLVNAILDF 551
Query: 423 LREAEEEDSDSEESD-------DDLEIEYNDRAR 449
L + EE S+ +D + E + + +
Sbjct: 552 LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHK 585
Score = 51.8 bits (123), Expect = 4e-07
Identities = 52/339 (15%), Positives = 100/339 (29%), Gaps = 98/339 (28%)
Query: 176 DMTK---SDEESDPTVVAPEKVA---------------------DEVNDDDGGWLADVSE 211
DM K S EE D +++ + V+ +EV + +L +
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99
Query: 212 EAVRARALDLSSGV----KGLTISEDLEKTEKERMDIFYTCVKTALEKNNVDAKELLSEA 267
R ++ + + ++ K R+ + ++ AL + L A
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK-LRQALLE--------LRPA 150
Query: 268 ERLEV-------KTKAPLILAELLFADEDKIPIQAKKHRILFFGSNQFTWRSVGFYRR-- 318
+ + + KT +A + +Q K F W ++
Sbjct: 151 KNVLIDGVLGSGKT----WVALDVCLSYK---VQCK------MDFKIF-WLNLKNCNSPE 196
Query: 319 ----QINTIATLINQCQLILLDKQSTVLRFTHEDIKAQ-RYLLNGIEQVIALHKEKLLSM 373
+ + I+ D S+ ++ I+A+ R LL ++ LL
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSD-HSSNIKLRIHSIQAELRRLL-----KSKPYENCLL-- 248
Query: 374 VPGILKLFYDYDILEE-----KVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEE 428
+L + K+LL T K V+ LSA + +
Sbjct: 249 ---VLLNVQNAKAWNAFNLSCKILL----TTRFKQVTDFLSAATTT--HISLDHHSMTLT 299
Query: 429 EDSDSEESDD----DLEIEYNDRARVTLQTETIKPKVIK 463
D E L+ D R + T P+ +
Sbjct: 300 PD----EVKSLLLKYLDCRPQDLPR---EVLTTNPRRLS 331
>3l6a_A Eukaryotic translation initiation factor 4 gamma; C-terminal
region, MA2 domain, W2 domain, EIF4G2, EIF family
translation; HET: MES PG4; 2.00A {Homo sapiens}
Length = 364
Score = 61.5 bits (148), Expect = 2e-10
Identities = 23/102 (22%), Positives = 45/102 (44%), Gaps = 4/102 (3%)
Query: 325 TLINQCQLILLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDY 384
+ Q + +LL + + +F H+ + Q L + QV + M+ FYD
Sbjct: 267 EQLEQEKQLLLSFKPVMQKFLHDHVDLQVSALYAL-QVHCYNSNFPKGMLLRFFVHFYDM 325
Query: 385 DILEEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREA 426
+I+EE+ L W E ++++ K + + ++ WL A
Sbjct: 326 EIIEEEAFLAWKEDITQEFPGKGKALF---QVNQWLTWLETA 364
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 50.8 bits (121), Expect = 1e-07
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 100 CPECDNPETDLVVSAKKGTIQQVCKACGF 128
CPEC +V +G + VC CG
Sbjct: 24 CPECKVYPPKIVERFSEGDV--VCALCGL 50
>1k8b_A EIF-2-beta, probable translation initiation factor 2 beta
subunit; N-terminal domain, AIF2 subunit beta; NMR
{Methanocaldococcus jannaschii} SCOP: d.241.1.1
Length = 52
Score = 38.2 bits (89), Expect = 2e-04
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 32 GIKTVIVNMADVAKAIGRPPTYPTKYFGCELGAQTKLDHKNDRFIVNG 79
G +T+I N ++AKA+ R + KY E G+ L+ R I+
Sbjct: 6 GNRTIIRNFRELAKAVNRDEEFFAKYLLKETGSAGNLE--GGRLILQR 51
>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit;
zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP:
g.59.1.1
Length = 36
Score = 32.9 bits (75), Expect = 0.010
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 98 VLCPECDNPETDLVVSAKKGTIQQVCKACG 127
V+C EC P+T ++ + C ACG
Sbjct: 1 VICRECGKPDTKII--KEGRVHLLKCMACG 28
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 35.5 bits (81), Expect = 0.020
Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 22/91 (24%)
Query: 388 EEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSEESDDDLEIEYNDR 447
E + + +W E+ K ++ E E++ DLE E+N R
Sbjct: 83 EPESIRKWREEQRK---------RLQELDA------ASKVMEQEWREKAKKDLE-EWNQR 126
Query: 448 ARVTLQTETI-KPKVIKKDEDEDGTNDKDED 477
Q+E + K K+ + D+ D D
Sbjct: 127 -----QSEQVEKNKINNRIADKAFYQQPDAD 152
Score = 30.1 bits (67), Expect = 1.1
Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 10/59 (16%)
Query: 385 DILEEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWL---REAEEEDSDSEESDDDL 440
D + + EW EK K+L + ++E K R A++ ++ D D+
Sbjct: 102 DAASKVMEQEWREKA-----KKDLEEWNQRQSEQVEKNKINNRIADKA--FYQQPDADI 153
Score = 28.2 bits (62), Expect = 5.1
Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 17/81 (20%)
Query: 191 PEKVADEVNDDDGGWLADVSEEAVRARALDLSSGVKGLTISEDLEKTEKERMDIFYTCVK 250
PE + W E+ R + LD +S V E EK +K+ ++ +
Sbjct: 84 PESIRK--------WRE---EQRKRLQELDAASKVM---EQEWREKAKKD-LEEWNQRQS 128
Query: 251 TALEKNNVDAKELLSEAERLE 271
+EKN ++ + ++ +
Sbjct: 129 EQVEKNKINNRI--ADKAFYQ 147
>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 = 32.7 bits (74), Expect = 0.33
Identities = 58/324 (17%), Positives = 95/324 (29%), Gaps = 118/324 (36%)
Query: 113 SAKKG----------TIQQVCKACGFHGMLQFNHKLNTFILKNPPNLNPAVQGSSLTEGK 162
S ++G Q V H + + ++ NP NL + G+
Sbjct: 1626 SQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNL------TIHFGGE 1679
Query: 163 RPKRISKKQESNGDMTKSDEESDPTVVAPEKVADEVNDDDGGWLADVSEEAVRA-----R 217
+ KRI +E+ M + D + EK+ E+N+ + + + A
Sbjct: 1680 KGKRI---RENYSAMIF-ETIVDGKLKT-EKIFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 218 ALDLSSGVKGLTIS----EDL-EKTEKERMDIF-------YTCVKTAL---------EKN 256
AL + EDL K F Y AL E
Sbjct: 1735 AL--------TLMEKAAFEDLKSKGLIPADATFAGHSLGEY----AALASLADVMSIE-- 1780
Query: 257 NVDAKELL--------SEAERLEVKTKAPLILA------ELLFADEDKIPIQAKKHRILF 302
E++ R E+ ++A F+ E +Q R+
Sbjct: 1781 --SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEA---LQYVVERV-- 1833
Query: 303 FGSNQFTWRSVGFYRRQI---NTIATLINQCQLIL------LDKQSTVLRFTHEDIKAQR 353
+ W V +I N NQ Q + LD + VL F IK Q+
Sbjct: 1834 --GKRTGW-LV-----EIVNYNV----ENQ-QYVAAGDLRALDTVTNVLNF----IKLQK 1876
Query: 354 YLLN------GIEQVIALHKEKLL 371
+ +E+V + L
Sbjct: 1877 IDIIELQKSLSLEEV----EGHLF 1896
>1ug3_A EIF4GI, eukaryotic protein synthesis initiation factor 4G; heat
repeat, translation; 2.24A {Homo sapiens} SCOP:
a.118.1.14 a.118.1.14
Length = 339
Score = 32.1 bits (72), Expect = 0.33
Identities = 11/64 (17%), Positives = 28/64 (43%), Gaps = 1/64 (1%)
Query: 334 LLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVPGILKLFYDYDILEEKVLL 393
+L ++ +L+ D + + L + Q + + E+ +++ YD D+++E
Sbjct: 271 VLKARAKLLQKYLCDEQKELQALYAL-QALVVTLEQPPNLLRMFFDALYDEDVVKEDAFY 329
Query: 394 EWAE 397
W
Sbjct: 330 SWES 333
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
DNA-binding, DNA- directed RNA polymerase, isopeptide
bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Length = 345
Score = 32.2 bits (72), Expect = 0.40
Identities = 10/29 (34%), Positives = 13/29 (44%), Gaps = 2/29 (6%)
Query: 100 CPECDNPETDLVVSAKKGTIQQVCKACGF 128
CPEC +V +G + VC CG
Sbjct: 24 CPECKVYPPKIVERFSEGDV--VCALCGL 50
>2h9a_A Carbon monoxide dehydrogenase corrinoid/iron- sulfur protein, gamma
subunit; heterodimer, beta-alpha-barrels,
oxidoreductase; HET: B12; 1.90A {Carboxydothermus
hydrogenoformans} PDB: 2ycl_A*
Length = 445
Score = 31.4 bits (71), Expect = 0.68
Identities = 31/198 (15%), Positives = 57/198 (28%), Gaps = 27/198 (13%)
Query: 123 CKACGFHGMLQFNHKLNTFI--LKNPPNLNPAVQGSSLTEGKRPKRISKKQESNGDMTKS 180
CK CG L F ++ L P ++ + + P + K + +
Sbjct: 17 CKECGQPTCLAFAMQIAAGKAGLDACPYVSDEAKELLESASAPPVALIKVGKGEKVLEIG 76
Query: 181 DEES----DPTVVAPEKVADEVNDDDGGWLADVSEEAVRARALDLSSGVKGLTISEDLEK 236
E D P +A V D SE ++ R E + K
Sbjct: 77 HETVLFRHDKRFEHPCGLAILVEDTL-------SEGEIKERV-------------EKINK 116
Query: 237 TEKERMDIFYTCVKTALEKNNVDAKELLSEAERLEVKTKAPLILAELLFADEDKIPIQAK 296
+R+ ++ AL+ ++ DA T P IL +
Sbjct: 117 LVFDRVGQMHSVNLVALKGSSQDAATFAKAVATAREVTDLPFILIGTPEQLAAALET-EG 175
Query: 297 KHRILFFGSNQFTWRSVG 314
+ L + + + +
Sbjct: 176 ANNPLLYAATADNYEQMV 193
>3pyi_B Spindle assembly abnormal protein 6; beta-sandwich, dimer,
alpha-beta protein, structural protein cytoplasmic,
centriolar; HET: PG4 MES; 2.10A {Caenorhabditis elegans}
Length = 170
Score = 30.2 bits (67), Expect = 0.93
Identities = 23/91 (25%), Positives = 41/91 (45%), Gaps = 2/91 (2%)
Query: 383 DYDILEEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSEESDDDLEI 442
D+ + KV L+ +E+ ++ KEL EI + + E D DL +
Sbjct: 28 DFKAYKTKVKLKISEQRNETSGEKELKFEISRSDDFEFLFSETLNNEKYQILARDHDLTV 87
Query: 443 EYNDRARVTLQTETIKPKVIKKDEDEDGTND 473
+++ +V +Q + K I K+ +EDG D
Sbjct: 88 DFDAFPKVIIQ--HLLCKNIVKNLEEDGEVD 116
>1u4q_A Spectrin alpha chain, brain; alpha spectrin, three repeats of
spectrin, alpha-helical linker region, 3-helix
coiled-coil, structural protein; 2.50A {Gallus gallus}
SCOP: a.7.1.1 a.7.1.1 a.7.1.1
Length = 322
Score = 30.2 bits (68), Expect = 1.5
Identities = 16/141 (11%), Positives = 42/141 (29%), Gaps = 16/141 (11%)
Query: 316 YRRQINTIATLINQCQLILLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVP 375
+ I +++ + +L S + +E I+ H+++L +
Sbjct: 8 FNTGIKDFDFWLSEVEALL---ASEDYGKDLASVNNLLKKHQLLEADISAHEDRLKDLNS 64
Query: 376 GILKLF----YDYDILEEKV---------LLEWAEKTSKKYVSKELSAEIRSRAEPFIKW 422
L +D +++K + A K + + W
Sbjct: 65 QADSLMTSSAFDTSQVKDKRETINGRFQRIKSMAAARRAKLNESHRLHQFFRDMDDEESW 124
Query: 423 LREAEEEDSDSEESDDDLEIE 443
++E + S + D ++
Sbjct: 125 IKEKKLLVSSEDYGRDLTGVQ 145
>3bch_A 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein,
acetylation, cytoplasm, phosphorylation, polymorphism;
2.15A {Homo sapiens}
Length = 253
Score = 29.2 bits (65), Expect = 2.8
Identities = 17/97 (17%), Positives = 33/97 (34%), Gaps = 16/97 (16%)
Query: 59 GCELGAQTKLDHKNDRFI----VNGSH--DVVKLQDLLDG---FIRKFVLCPECDNPETD 109
G LG LD + +++I +G + ++ + + L I +NP
Sbjct: 55 GTHLGGTN-LDFQMEQYIYKRKSDGIYIINLKRTWEKLLLAARAIVAI------ENPADV 107
Query: 110 LVVSAKKGTIQQVCKACGFHGMLQFNHKLNTFILKNP 146
V+S++ + V K G + N
Sbjct: 108 SVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTNQ 144
>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal
nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO
MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G*
3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 3bdm_F* 1fnt_G* 2zcy_F*
Length = 288
Score = 29.2 bits (66), Expect = 2.9
Identities = 12/100 (12%), Positives = 33/100 (33%), Gaps = 22/100 (22%)
Query: 388 EEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSEESDDDLEIEYNDR 447
+ ++ + W + + K + ++ + I + ++ D D +E D D +
Sbjct: 211 DFELEISWCSLSETNGLHKFVKGDLL---QEAIDFAQKEINGDDDEDEDDSDNVMS---- 263
Query: 448 ARVTLQTETIKPKVIKKDEDEDGTNDKDEDEDGTNDVDID 487
DE+ + + D D+ ++
Sbjct: 264 ---------------SDDENAPVATNANATTDQEGDIHLE 288
>3oqu_A Abscisic acid receptor PYL9; RCAR1, hormone receptor; HET: A8S;
2.68A {Arabidopsis thaliana}
Length = 205
Score = 29.0 bits (64), Expect = 3.1
Identities = 9/44 (20%), Positives = 18/44 (40%)
Query: 217 RALDLSSGVKGLTISEDLEKTEKERMDIFYTCVKTALEKNNVDA 260
R +++ SG+ T +E LE + E + + N +
Sbjct: 99 REVNVKSGLPATTSTERLELLDDEEHILGIKIIGGDHRLKNYSS 142
>1y8q_B Anthracycline-, ubiquitin-like 2 activating enzyme E1B; SUMO,
heterodimer, UBL, ligase; HET: ATP; 2.25A {Homo sapiens}
PDB: 1y8r_B* 3kyc_B* 3kyd_B* 2px9_A
Length = 640
Score = 29.3 bits (65), Expect = 3.4
Identities = 18/116 (15%), Positives = 45/116 (38%), Gaps = 8/116 (6%)
Query: 377 ILKLFYDYDILEEKVLLEWAEKTSKKYVSKELSAEIRSRAEPFIKWLREAEEEDSDSEES 436
+L + L + V E +K K+ +S A+ S ++E
Sbjct: 528 LLINILHSEDLGKDVEFEVVGDAPEKVGPKQAEDAAKSITNGSDD---GAQPSTSTAQEQ 584
Query: 437 DDDLEIEYNDRARVTLQTETIKPKVIK-KDEDEDGTNDK----DEDEDGTNDVDID 487
DD L ++ ++ + + + K K ++++ + K ++ E+ + + +D
Sbjct: 585 DDVLIVDSDEEDSSNNADVSEEERSRKRKLDEKENLSAKRSRIEQKEELDDVIALD 640
>1u5p_A Spectrin alpha chain, brain; alpha spectrin, two repeats of
spectrin, alpha-helical linker region, 3-helix coiled
coil, structural protein; 2.00A {Gallus gallus} SCOP:
a.7.1.1 a.7.1.1
Length = 216
Score = 28.3 bits (63), Expect = 4.4
Identities = 16/141 (11%), Positives = 42/141 (29%), Gaps = 16/141 (11%)
Query: 316 YRRQINTIATLINQCQLILLDKQSTVLRFTHEDIKAQRYLLNGIEQVIALHKEKLLSMVP 375
+ I +++ + +L S + +E I+ H+++L +
Sbjct: 8 FNTGIKDFDFWLSEVEALL---ASEDYGKDLASVNNLLKKHQLLEADISAHEDRLKDLNS 64
Query: 376 GILKLF----YDYDILEEKV---------LLEWAEKTSKKYVSKELSAEIRSRAEPFIKW 422
L +D +++K + A K + + W
Sbjct: 65 QADSLMTSSAFDTSQVKDKRETINGRFQRIKSMAAARRAKLNESHRLHQFFRDMDDEESW 124
Query: 423 LREAEEEDSDSEESDDDLEIE 443
++E + S + D ++
Sbjct: 125 IKEKKLLVSSEDYGRDLTGVQ 145
>2bto_A Tubulin btuba; bacterial tubulin, polymerization, cytoskeleton,
protein COM cytoskeletal protein; HET: GTP; 2.5A
{Prosthecobacter dejongeii} SCOP: c.32.1.1 d.79.2.1 PDB:
2btq_A*
Length = 473
Score = 29.0 bits (65), Expect = 4.6
Identities = 13/74 (17%), Positives = 20/74 (27%), Gaps = 14/74 (18%)
Query: 413 RSRAEPFIKWLREA---EEEDSDSEESDDDLEIEYNDRARVTLQTETIKPKVIKKDEDED 469
+ +A F W EE+ + S +L Y K +D
Sbjct: 395 QRKA--FANWYLNEGMSEEQINVLRASAQELVQSYQVAEESG---------AKAKVQDSA 443
Query: 470 GTNDKDEDEDGTND 483
G G +D
Sbjct: 444 GDTGMRAAAAGVSD 457
>3n74_A 3-ketoacyl-(acyl-carrier-protein) reductase; seattle structural
genomics center for infectious disease, S brucellosis;
2.20A {Brucella melitensis biovar abortus}
Length = 261
Score = 27.9 bits (63), Expect = 6.3
Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 5/44 (11%)
Query: 9 NVTDAFY--RYKMPKLIAKVEGKGNGIKTVIVNMADVAKAIGRP 50
NV + +P G + VI+N+A RP
Sbjct: 115 NVRGVYLMTSKLIPHFKEN---GAKGQECVILNVASTGAGRPRP 155
>3iz6_A 40S ribosomal protein SA (S2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 305
Score = 27.8 bits (61), Expect = 9.1
Identities = 17/97 (17%), Positives = 34/97 (35%), Gaps = 16/97 (16%)
Query: 59 GCELGAQTKLDHKNDRFI----VNGSH--DVVKLQDLLDG---FIRKFVLCPECDNPETD 109
LG + D + +R++ +G + ++ K + L I +NP+
Sbjct: 26 DVHLGTKN-CDFQMERYVYKRRTDGIYIINLGKTWEKLQLAARVIVAI------ENPQDI 78
Query: 110 LVVSAKKGTIQQVCKACGFHGMLQFNHKLNTFILKNP 146
+V SA+ + V K + G + N
Sbjct: 79 IVQSARPYGQRAVLKFAQYTGAHAIAGRHTPGTFTNQ 115
>3fs3_A Nucleosome assembly protein 1, putative; protein localization,
histone recognition, structural analysis, CHA; 2.30A
{Plasmodium falciparum} PDB: 3hfd_A 3gyw_A 3gyv_A
Length = 359
Score = 27.6 bits (60), Expect = 9.3
Identities = 9/59 (15%), Positives = 22/59 (37%)
Query: 427 EEEDSDSEESDDDLEIEYNDRARVTLQTETIKPKVIKKDEDEDGTNDKDEDEDGTNDVD 485
E +S + D N+ + ++ + D + +D +E+E+G +
Sbjct: 296 SESNSIVSDVDSSYSSSENNSNYNSYESNNSAYNDENSNVDTNEYDDNEEEEEGAKSNE 354
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 295
Score = 27.7 bits (61), Expect = 9.7
Identities = 17/97 (17%), Positives = 33/97 (34%), Gaps = 16/97 (16%)
Query: 59 GCELGAQTKLDHKNDRFI----VNGSH--DVVKLQDLLDG---FIRKFVLCPECDNPETD 109
G LG LD + +++I +G + ++ + + L I +NP
Sbjct: 22 GTHLGGTN-LDFQMEQYIYKRKSDGIYIINLKRTWEKLLLAARAIVAI------ENPADV 74
Query: 110 LVVSAKKGTIQQVCKACGFHGMLQFNHKLNTFILKNP 146
V+S++ + V K G + N
Sbjct: 75 SVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTNQ 111
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 0.133 0.377
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: 7,500,721
Number of extensions: 471616
Number of successful extensions: 1045
Number of sequences better than 10.0: 1
Number of HSP's gapped: 976
Number of HSP's successfully gapped: 48
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: 42 (22.0 bits)
S2: 59 (27.2 bits)