RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7576
(481 letters)
>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 = 53.9 bits (129), Expect = 1e-07
Identities = 59/380 (15%), Positives = 112/380 (29%), Gaps = 121/380 (31%)
Query: 8 EEPVETRIDVLRPVPTCQADLEPL---GADQHR-LELTEV--GQEHLK------P-IGVL 54
+ ++ + L + D E + G + LE +++L P IGV+
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 55 QDHLGRIEVAA-----------DQLQGQTEVVQDLEAARVVQGEDLDHHLEALVALLLKL 103
Q L V A L+G T Q L A + D V + +
Sbjct: 245 Q--LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV 302
Query: 104 NAEALF--GDASDISTDDDDDGKLQVVEEEGDGEGERRERDEDARSDASR----RGSDRE 157
LF G + + + + + EG S +E
Sbjct: 303 ----LFFIGVRCYEAYPNTSLPPSILEDSLENNEGV-----------PSPMLSISNLTQE 347
Query: 158 DDE---DKENRTETGEDKEEEEPVE-------------------TRIDVEIPKISCDLG- 194
+ +K N + VE +++ + K G
Sbjct: 348 QVQDYVNKTNSH-----LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 195 ---------REMHFVKLPNFLSVETRPF--------DPETYEDEIEDEETLDEEGRARLK 237
R++ F FL V PF +D +++ + + + ++
Sbjct: 403 DQSRIPFSERKLKFSN--RFLPV-ASPFHSHLLVPASDLINKDLVKNNVSFNAK---DIQ 456
Query: 238 LKVENTIRWRDTFNKDGDLVK---ESNARL-VKW--SDGSLSLHL---G----SEIFDVY 284
+ V +T D G + + + RL VKW + + H+ G S + +
Sbjct: 457 IPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLT 516
Query: 285 KQPLQGDHNHLYIRQGTGLQ 304
+ + GTG++
Sbjct: 517 HR----------NKDGTGVR 526
Score = 49.7 bits (118), Expect = 2e-06
Identities = 39/214 (18%), Positives = 71/214 (33%), Gaps = 82/214 (38%)
Query: 33 ADQHRLELTEVGQEHLKP-IGVLQDHLGRIEVAADQLQGQTEVVQDLEAARVVQGEDLD- 90
+++ L T+ Q P + + +E AA +DL++ ++ +
Sbjct: 1721 SEKGLLSATQFTQ----PALTL-------MEKAA---------FEDLKSKGLIPADATFA 1760
Query: 91 -HHL-E--ALVALLLKLNAEAL-FGDASDISTDDDDDGKLQVVEEEGDGEGERRERDEDA 145
H L E AL +L A+ + ++VV G RDE
Sbjct: 1761 GHSLGEYAALASL-----ADVMSIESL------------VEVVFYRGMTMQVAVPRDELG 1803
Query: 146 RSD----ASRRGS-----DREDDED--KENRTETGEDKE---------------EEEPVE 179
RS+ A G +E + + TG E + ++
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALD 1863
Query: 180 TRIDV----EIPKISCDLGREMHFVKLPNFLSVE 209
T +V ++ KI D+ ++L LS+E
Sbjct: 1864 TVTNVLNFIKLQKI--DI------IELQKSLSLE 1889
Score = 38.9 bits (90), Expect = 0.004
Identities = 53/250 (21%), Positives = 81/250 (32%), Gaps = 70/250 (28%)
Query: 207 SVETRP---FDPETYEDEIEDEETLDEEGRARLKLKVENTIRWRDTFNKDGDLVKESNAR 263
E P P ED +E+ E G L + N T + D V ++N+
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNE-----GVPSPMLSISNL-----TQEQVQDYVNKTNSH 359
Query: 264 LVKWSDGSLSLHLGSEIFDV--YKQPLQGDHNHL-YIRQGTGL-QGQAVFRT-KLSFR-- 316
L +SL G++ V Q L G + L + +GL Q + F KL F
Sbjct: 360 LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNR 419
Query: 317 ------P-HS---TESFTHRKMTLSLADRSNKTTGIKILGQVGYDP-DANRYEKIKKEEE 365
P HS + L + S I+I V YD D ++
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI--PV-YDTFDG---SDLRVLSG 473
Query: 366 KLRQSL-----------RKETK--------------------TKRTREKGASSRL-SAGY 393
+ + + T+ T R ++ G R+ AG
Sbjct: 474 SISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD-GTGVRVIVAGT 532
Query: 394 LEGDDDDDEG 403
L+ + DDD G
Sbjct: 533 LDINPDDDYG 542
Score = 35.4 bits (81), Expect = 0.048
Identities = 22/121 (18%), Positives = 35/121 (28%), Gaps = 43/121 (35%)
Query: 48 LKPIGVLQDHLGRIEV----------AADQLQGQ---------TEVVQDLE--------- 79
+P+ L H G +E A QLQ Q D E
Sbjct: 6 TRPL-TLS-H-GSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 80 -----AARVVQGEDLDHHLEALVALLLKLNAEALFGDASDI-----STDDDDDGKLQVVE 129
+ +V+ + + L L + L G+ DI ++D L +
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN--DIHALAAKLLQENDTTLVKTK 120
Query: 130 E 130
E
Sbjct: 121 E 121
Score = 33.9 bits (77), Expect = 0.13
Identities = 61/362 (16%), Positives = 102/362 (28%), Gaps = 134/362 (37%)
Query: 210 TRPFDPETYEDEIEDEETLDEEGRARLKLKVENTIRW------RDTFNKD---------G 254
TRP TL G L V T + ++ FNK
Sbjct: 6 TRPL-------------TL-SHGSLEHVLLVP-TASFFIASQLQEQFNKILPEPTEGFAA 50
Query: 255 DLVKESN-----------ARLVKWSDGS-----LSLHLGSEIFDVYKQPLQGDHNH---- 294
D + + LV+ S L+L L E + Y L+G+ H
Sbjct: 51 DDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLT-EFENCY---LEGNDIHALAA 106
Query: 295 --LYIRQGTGLQGQAVFRTKLSFRPHSTESFTHRKMTLSLADRSNKTTGIKIL----GQV 348
L T ++ + + + ++ R + F K + S R+ +++ GQ
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFD--KKSNSALFRAVGEGNAQLVAIFGGQ- 163
Query: 349 GYDPD-----ANRYEK--------IKKEEEKLRQSLRKETKTKRTREKG---------AS 386
G D + Y+ IK E L + +R ++ +G S
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS 223
Query: 387 SRLSAGYLEGDDDDDEGAISLSAI----------------KNKYNAKKNPAGASG----- 425
+ YL IS I + GA+G
Sbjct: 224 NTPDKDYL------LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL 277
Query: 426 --AAPSRNIYSSDEDASDLE-------------LRTKKH----DKPKRVLQDSDDEDEKS 466
A I +D S +R + P +L+DS + +E
Sbjct: 278 VTAVA---IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV 334
Query: 467 AA 468
+
Sbjct: 335 PS 336
Score = 29.6 bits (66), Expect = 2.9
Identities = 16/98 (16%), Positives = 28/98 (28%), Gaps = 32/98 (32%)
Query: 384 GASSR---LSAGYLEGDDDDDEGAISLSA--------IKNKYNAKKNPAGASGAAPSRNI 432
S+R LS G LE + + ++ ++N P+
Sbjct: 3 AYSTRPLTLSHGSLEH-------VLLVPTASFFIASQLQEQFNK-------ILPEPTEGF 48
Query: 433 YSSDEDASDLELRTKKHDKPKRVLQDSDDEDEKSAASR 470
+ DE + EL + L E S +
Sbjct: 49 AADDEPTTPAELVG-------KFLGYVSSLVEPSKVGQ 79
>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 = 37.5 bits (86), Expect = 0.009
Identities = 50/292 (17%), Positives = 81/292 (27%), Gaps = 71/292 (24%)
Query: 192 DLGREMHFVK--LPNFLSVETRPFDPETYEDE----IEDEE------TLDEEGRAR---- 235
+ G + K L F FD + +D + EE + D
Sbjct: 10 ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69
Query: 236 -LKLKVENTIRWRDTFNKDGDLVKESNARLVKWSDGSLSLHLGSEIFDVYKQPLQGDHNH 294
L K E ++ V+E K+ L S I +QP
Sbjct: 70 TLLSKQEEMVQ---------KFVEEVLRINYKF--------LMSPIKTEQRQP--SMMTR 110
Query: 295 LYIRQGTGLQGQAVFRTKLSF-RPHSTESFTHRKMTLSLADRSNKTTGIKILGQVGYDPD 353
+YI Q L K + R R+ L L R K + I G +G
Sbjct: 111 MYIEQRDRLYNDNQVFAKYNVSRLQPYLKL--RQALLEL--RPAK--NVLIDGVLG---- 160
Query: 354 ANRYEKIKKEEEKLRQSLRKETKTKRTREKGASSRLSAG--YLE-GDDDDDEGAISLSAI 410
K + + ++ +L + + E ++ +
Sbjct: 161 ------SGK------TWVALDV----CLSYKVQCKMDFKIFWLNLKNCNSPE---TVLEM 201
Query: 411 KNKYNAKKNPAGASGAAPSRNIYSSDEDASDLELRTKKHDKP-KRVLQDSDD 461
K + +P S + S NI ELR KP + L +
Sbjct: 202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA-ELRRLLKSKPYENCLLVLLN 252
Score = 36.0 bits (82), Expect = 0.029
Identities = 22/139 (15%), Positives = 45/139 (32%), Gaps = 27/139 (19%)
Query: 352 PDANRYEKIKKEE-EKLRQSLRKETKTKRT----REKGASSRLSAGYLEGDDDDDEGAIS 406
D + + KEE + + S + T R K + ++E + +
Sbjct: 39 QDMPK-SILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ--EEMVQKFVEEVLRINYKFL- 94
Query: 407 LSAIKNKYNAKKNPAGASGAAPSRNIYSSDEDA--SDLEL-------RTKKHDKPKRVLQ 457
+S IK + + +Y D +D ++ R + + K ++ L
Sbjct: 95 MSPIKTEQRQP---------SMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL 145
Query: 458 DSDDEDEKSAASRSGSGKS 476
+ GSGK+
Sbjct: 146 ELRPAKNVLIDGVLGSGKT 164
>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 = 29.9 bits (66), Expect = 1.0
Identities = 13/73 (17%), Positives = 23/73 (31%), Gaps = 43/73 (58%)
Query: 365 EKLRQSLRKETKTKRTREKGASSRLSAGYLEGDDDDDEGAISLSAIKNKYNAKKNPAGAS 424
EK Q+L+K L+ +++K Y A
Sbjct: 18 EK--QALKK--------------------LQ------------ASLK-LY--------AD 34
Query: 425 GAAPSRNIYSSDE 437
+AP+ I ++ E
Sbjct: 35 DSAPALAIKATME 47
Score = 26.8 bits (58), Expect = 9.6
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 23/49 (46%)
Query: 361 KKEEEKLRQSLRKETKTKRTREKGASSRLSAGYLEGDDDDDEGAISLSA 409
K+ +KL+ SL +L A DD A+++ A
Sbjct: 19 KQALKKLQASL----------------KLYA-------DDSAPALAIKA 44
>2eo9_A Roundabout homolog 1; beta-sandwich, IG-fold, H-ROBO-1, deleted in
U twenty twenty, neurogenesis, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 118
Score = 29.0 bits (65), Expect = 1.3
Identities = 13/44 (29%), Positives = 19/44 (43%), Gaps = 10/44 (22%)
Query: 243 TIRWRDTFNKDGDLVKESNARLVKWSDGSLSLHLGSEIFDVYKQ 286
TI WR KDG LV ++R+ + +G L +I
Sbjct: 39 TILWR----KDGVLVSTQDSRIKQLENGVL------QIRYAKLG 72
>2edj_A Roundabout homolog 2; KIAA1568 protein, beta sandwich, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 100
Score = 28.1 bits (63), Expect = 2.1
Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 14/64 (21%)
Query: 227 TLDEEGRARLKLKVEN----TIRWRDTFNKDGDLVKESNARLVKWSDGSLSLHLGSEIFD 282
TL +G A LK K I W K+G + R G+L +I +
Sbjct: 19 TLAVDGTALLKCKATGDPLPVISWL----KEGFTFPGRDPRATIQEQGTL------QIKN 68
Query: 283 VYKQ 286
+
Sbjct: 69 LRIS 72
>1u6g_C TIP120 protein, CAND1; cullin repeat, heat repeat, ring finger,
ligase; 3.10A {Homo sapiens} SCOP: a.118.1.2 PDB: 4a0c_A
Length = 1230
Score = 29.7 bits (65), Expect = 2.9
Identities = 38/279 (13%), Positives = 83/279 (29%), Gaps = 17/279 (6%)
Query: 76 QDLEAARVVQGEDLDHHLEALVALLLKLNAEALFGDASDISTDDDDDGKL--QVVEEEGD 133
Q E+ +++ H+ ++ + LK L D + D+D+D ++ D
Sbjct: 277 QAFESFVRRCPKEVYPHVSTIINICLK----YLTYDPNYNYDDEDEDENAMDADGGDDDD 332
Query: 134 GEGERRERDEDARSDASRRGSDREDDEDKENRTETGEDKEEE--EPVETRIDVEIPKISC 191
+ D+D S RR + + D R E + + + +R +
Sbjct: 333 QGSDDEYSDDDDMSWKVRRAAAKCLDAVVSTRHEMLPEFYKTVSPALISRFKEREENV-- 390
Query: 192 DLGREMHFVKLPNFLSVETRPFDPETYEDEIEDEETLDEEGRARLKLKVENTIR-WRDTF 250
+ F + L D +E ET ++++ V+ + ++
Sbjct: 391 ---KADVFHAYLSLLKQTRPVQSWLCDPDAMEQGETPLTMLQSQVPNIVKALHKQMKEKS 447
Query: 251 NKDGDLVKESNARLVKWSDGSLSLHLGSEIFDVYKQPLQGDHNHLYIRQGTGLQGQAVFR 310
K LV G+L+ H+ + L + ++ +
Sbjct: 448 VKTRQCCFNMLTELVNVLPGALTQHIP-VLVPGIIFSLNDKSSSSNLKIDALSCLYVILC 506
Query: 311 TKLS--FRPHSTESFTHRKMTLSLADRSNKTTGIKILGQ 347
F PH + + + + Q
Sbjct: 507 NHSPQVFHPHVQALVPPVVACVGDPFYKITSEALLVTQQ 545
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.0 bits (64), Expect = 2.9
Identities = 9/34 (26%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 355 NRYEKIKKEEEKLRQSLRKETKTKRTREKGASSR 388
+ +++ +E E +R+ +E + KR +E A+S+
Sbjct: 75 AQADRLTQEPESIRK--WREEQRKRLQELDAASK 106
>3b0g_A NII3, nitrite reductase; siroheme, Fe4S4 binding protein,
oxidoreductase; HET: SRM; 1.25A {Nicotiana tabacum} PDB:
3vkp_A* 3vkq_A* 3vkr_A* 3vks_A* 3vkt_A* 3b0n_A* 3b0m_A*
3b0j_A* 3b0l_A* 3b0h_A*
Length = 591
Score = 29.2 bits (66), Expect = 3.9
Identities = 14/67 (20%), Positives = 23/67 (34%), Gaps = 4/67 (5%)
Query: 334 DRSNKTTGIKILGQVGYDPDANRYEKIKKEEEKLRQSLRKETKTKRTREKGASSRLSAGY 393
R + G IL + N EK+K E+E ++ + + +
Sbjct: 54 PRVEEKDGYWILKEQFRKG-INPQEKVKIEKEPMKLFMENGIEELAK---IPIEEIDQSK 109
Query: 394 LEGDDDD 400
L DD D
Sbjct: 110 LTKDDID 116
>3kgl_A Cruciferin; 11S SEED globulin, rapeseed, SEED storage protein,
storage protein, plant protein; 2.98A {Brassica napus}
Length = 466
Score = 28.3 bits (62), Expect = 6.2
Identities = 15/124 (12%), Positives = 38/124 (30%), Gaps = 7/124 (5%)
Query: 295 LYIRQGTGLQGQAVFRTKLSFRPHSTESFTHRKMTLSLADRSNKTTGIKILGQVGYDPDA 354
++ +G GL G+ V +F+ +S + S
Sbjct: 67 SFVAKGEGLMGRVVPGCAETFQ----DSSVFQPGGGSPFGEGQGQGQQGQGQGHQGQGQG 122
Query: 355 NRYEKIKKEEEKLRQSLRKETKTKRTREKGASSRLSAG---YLEGDDDDDEGAISLSAIK 411
+ ++ ++ ++ Q R + G + G + D + +S+ +
Sbjct: 123 QQGQQGQQGQQSQGQGFRDMHQKVEHIRTGDTIATHPGVAQWFYNDGNQPLVIVSVLDLA 182
Query: 412 NKYN 415
+ N
Sbjct: 183 SHQN 186
>2akj_A Ferredoxin--nitrite reductase, chloroplast; X-RAY crystallography,
heme, electron transport, oxidoreductase; HET: SRM;
2.80A {Spinacia oleracea} SCOP: d.58.36.1 d.58.36.1
d.134.1.1 d.134.1.1
Length = 608
Score = 28.5 bits (64), Expect = 6.6
Identities = 12/66 (18%), Positives = 23/66 (34%), Gaps = 4/66 (6%)
Query: 335 RSNKTTGIKILGQVGYDPDANRYEKIKKEEEKLRQSLRKETKTKRTREKGASSRLSAGYL 394
R + G +L + N EK+K E++ ++ + T + +
Sbjct: 72 RVEERDGFWVLKEEFRSG-INPAEKVKIEKDPMKLFIEDGISDLAT---LSMEEVDKSKH 127
Query: 395 EGDDDD 400
DD D
Sbjct: 128 NKDDID 133
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z
1pnu_T 1pny_T 1vor_W ...
Length = 237
Score = 27.4 bits (61), Expect = 8.9
Identities = 8/51 (15%), Positives = 17/51 (33%)
Query: 129 EEEGDGEGERRERDEDARSDASRRGSDREDDEDKENRTETGEDKEEEEPVE 179
+ G E E+A + E+ + + + G D E+ +
Sbjct: 187 AAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDAQ 237
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
0.308 0.130 0.356
Gapped
Lambda K H
0.267 0.0476 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,303,712
Number of extensions: 462539
Number of successful extensions: 839
Number of sequences better than 10.0: 1
Number of HSP's gapped: 804
Number of HSP's successfully gapped: 57
Length of query: 481
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 384
Effective length of database: 3,993,456
Effective search space: 1533487104
Effective search space used: 1533487104
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 59 (27.1 bits)