RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17674
(302 letters)
>2fim_A Tubby related protein 1; tubby filled-barrel, beta-barrel,
filled-beta-roll, 12-stran barrel, helix-filled-barrel,
retinitis pigmentosa; HET: 3DP; 1.90A {Homo sapiens}
PDB: 1s31_A*
Length = 276
Score = 195 bits (496), Expect = 2e-61
Identities = 91/134 (67%), Positives = 111/134 (82%)
Query: 169 DTNVLGFKGPRKMTVLIPGMTQSYERVSITPLEISETLIECWNSKNMDNIIELHNKTPTW 228
+TNVLGF+GPR+MTV+IPGM+ ERV I P S+ L+ W +K ++++IELHNK P W
Sbjct: 143 ETNVLGFRGPRRMTVIIPGMSAENERVPIRPRNASDGLLVRWQNKTLESLIELHNKPPVW 202
Query: 229 NEDTQSYVLNFHGRVTQASVKNFQIIHDNDPEYIVLQFGRTSEDVFTMDYRYPLCPLQAF 288
N+D+ SY LNF GRVTQASVKNFQI+H +DP+YIVLQFGR +ED FT+DYRYPLC LQAF
Sbjct: 203 NDDSGSYTLNFQGRVTQASVKNFQIVHADDPDYIVLQFGRVAEDAFTLDYRYPLCALQAF 262
Query: 289 SIALSSFDSKLACE 302
+IALSSFD KLACE
Sbjct: 263 AIALSSFDGKLACE 276
Score = 54.0 bits (129), Expect = 1e-08
Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 123 NLERFVLEPAAQKVSYKCRITRDRKGVDRGLYPTYFLHLERD 164
FVL PA Q + +CR+TRD+KG+DRG+YP+YFLHL+ +
Sbjct: 24 EPREFVLRPAPQGRTVRCRLTRDKKGMDRGMYPSYFLHLDTE 65
>3c5n_A Tubby-related protein 1; inositol, signalling, alternative
splicing, disease mutation, polymorphism, retinitis
pigmentosa, sensory transduction; HET: I3P; 1.80A {Homo
sapiens} PDB: 1i7e_A* 1c8z_A
Length = 246
Score = 185 bits (471), Expect = 5e-58
Identities = 86/128 (67%), Positives = 106/128 (82%)
Query: 169 DTNVLGFKGPRKMTVLIPGMTQSYERVSITPLEISETLIECWNSKNMDNIIELHNKTPTW 228
+TNVLGF+GPR+MTV+IPGM+ ERV I P S+ L+ W +K ++++IELHNK P W
Sbjct: 119 ETNVLGFRGPRRMTVIIPGMSAENERVPIRPRNASDGLLVRWQNKTLESLIELHNKPPVW 178
Query: 229 NEDTQSYVLNFHGRVTQASVKNFQIIHDNDPEYIVLQFGRTSEDVFTMDYRYPLCPLQAF 288
N+D+ SY LNF GRVTQASVKNFQI+H +DP+YIVLQFGR +ED FT+DYRYPLC LQAF
Sbjct: 179 NDDSGSYTLNFQGRVTQASVKNFQIVHADDPDYIVLQFGRVAEDAFTLDYRYPLCALQAF 238
Query: 289 SIALSSFD 296
+IALSSFD
Sbjct: 239 AIALSSFD 246
Score = 52.8 bits (126), Expect = 2e-08
Identities = 25/58 (43%), Positives = 38/58 (65%), Gaps = 3/58 (5%)
Query: 126 RFVLEPAAQKVSYKCRITRDRKGVDRGLYPTYFLHLERDYGKKDTNVLGFKGPRKMTV 183
FVL PA Q + +CR+TRD+KG+DRG+YP+YFLHL+ + K +L + ++
Sbjct: 3 EFVLRPAPQGRTVRCRLTRDKKGMDRGMYPSYFLHLDTE---KKVFLLAGRKRKRSKT 57
>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 = 49.1 bits (116), Expect = 1e-06
Identities = 51/283 (18%), Positives = 88/283 (31%), Gaps = 76/283 (26%)
Query: 57 TDTSDYGSGYPDRSSQDDEDD--DDDDEDDIEQELSDI-SLHRGSHVISDPDEINSGSLP 113
+T ++ Y D ED D+ D D++ I S H+I D ++
Sbjct: 9 FETGEHQYQYKD-ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRL 67
Query: 114 IEM----QGEVVGNLERFV---LEP----AAQKVSYKCRI----------TRDRKGVDRG 152
Q E+V ++FV L + + R RDR D
Sbjct: 68 FWTLLSKQEEMV---QKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ 124
Query: 153 LYPTYFL-----------HLERDYGKKDTNVL--GFKGPRKMTVLIPGMTQSYERVSITP 199
++ Y + L + NVL G G K T + + SY+
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLEL--RPAKNVLIDGVLGSGK-TWVALDVCLSYKVQCKMD 181
Query: 200 LEISETLIECW----NSKNMDNIIE-----LHNKTPTWN---EDTQSYVLNFHGRVTQAS 247
+I W N + + ++E L+ P W + + + L H QA
Sbjct: 182 FKIF------WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH--SIQAE 233
Query: 248 VKNFQIIHDNDPEYIVLQFGRTSEDVFTMDYRYPLCPLQAFSI 290
++ + +VL +V AF++
Sbjct: 234 LRRLLKSKPYENCLLVL------LNVQNAKA------WNAFNL 264
Score = 38.3 bits (88), Expect = 0.003
Identities = 48/249 (19%), Positives = 77/249 (30%), Gaps = 84/249 (33%)
Query: 75 EDDDDDDEDDIEQELSDISLHRGSHVISDPDE----INSGSLPIEMQGEVVGNLERFVLE 130
D D + +L SL V P E I S L ++++ E L R +++
Sbjct: 397 FDVIKSDVMVVVNKLHKYSL-----VEKQPKESTISIPSIYLELKVKLENEYALHRSIVD 451
Query: 131 PAAQKVSYKCRITRDRKGVDRGLYPT--YFL-----HLERDYGKKDTNVLGFKGPRKMTV 183
Y I + D YF HL+
Sbjct: 452 ------HY--NIPKTFDSDDLIPPYLDQYFYSHIGHHLKN-------------------- 483
Query: 184 LIPGMTQSYERVSITP---LEISETLIECWNSKNMDNIIELHNKTPTWNEDTQSYVLNFH 240
+ ER+++ L+ + ++ I H+ T WN +LN
Sbjct: 484 -----IEHPERMTLFRMVFLDFR------F----LEQKIR-HDSTA-WN--ASGSILN-- 522
Query: 241 GRVTQASVKNF-QIIHDNDPEY-----IVLQFGRTSEDVFTMDYRYP-LCPLQAFSIALS 293
T +K + I DNDP+Y +L F E+ L+ IAL
Sbjct: 523 ---TLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL---ICSKYTDLLR---IALM 573
Query: 294 SFDSKLACE 302
+ D + E
Sbjct: 574 AEDEAIFEE 582
>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 = 35.0 bits (80), Expect = 0.029
Identities = 60/328 (18%), Positives = 106/328 (32%), Gaps = 92/328 (28%)
Query: 25 ISGRGLRPLSSSSSREFYCYNGPLQFTRTQASTDTSDYGSG------YPDRSSQDDEDDD 78
+ RPL+ S +G L+ T+ + + + E
Sbjct: 1 MDAYSTRPLTLS--------HGSLEHV---LLVPTASFFIASQLQEQFNKILPEPTEGFA 49
Query: 79 DDDEDDIEQELSDISLHRGSHVISDPDEINSGSLPIEMQGEVVGNLERFVLEP------A 132
DDE EL L +V S + G ++ + E LE A
Sbjct: 50 ADDEPTTPAELVGKFL---GYVSSLVEPSKVGQFD-QVLNLCLTEFENCYLEGNDIHALA 105
Query: 133 AQKVSYKCRITRDRKGVDRGLYPTYF---LHLERDYGKKDTNVLGFKGPRKMTV-LIP-- 186
A+ + K + + Y + +R + KK + L F+ + L+
Sbjct: 106 AKLLQENDTTLVKTKELIK----NYITARIMAKRPFDKKSNSAL-FRAVGEGNAQLVAIF 160
Query: 187 ---GMTQSY--E--------RVSITPL--EISETLIEC---------WNSKNMDNIIE-L 221
G T Y E V + L +ETL E ++ ++ I+E L
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN-ILEWL 219
Query: 222 HNKTPTWNED-----TQSYVLNFHGRVTQASVKNFQI---IHDNDPEYIVLQF-GRT--S 270
N + T ++D S L V Q + ++ + + P + G T S
Sbjct: 220 ENPSNTPDKDYLLSIPISCPLIG---VIQLA--HYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 271 EDVFTMDYRYPLCPLQAFSIALS-SFDS 297
+ + T A +IA + S++S
Sbjct: 275 QGLVT-----------AVAIAETDSWES 291
Score = 33.9 bits (77), Expect = 0.068
Identities = 33/200 (16%), Positives = 58/200 (29%), Gaps = 71/200 (35%)
Query: 117 QG-EVVG-NLERFVLEPAAQKVSYKCRITRDRKGVDRGLYPTYFLHLERDYGKKDTNVLG 174
QG + G ++ + AAQ V +R D H + YG +++
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDV-------WNR--ADN--------HFKDTYGFSILDIV- 1665
Query: 175 FKGPRKMTVLIPGMTQSYERVSITPLEISETLIECWNSKNMDNIIELHNKTPTWNED--- 231
P +T+ G R + + + + ++ + I H+ + T+ +
Sbjct: 1666 INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL 1725
Query: 232 ---TQSYVLNFHGRVTQ-----ASVKNFQIIHD--NDP-----------EYI-------V 263
TQ TQ F+ + P EY V
Sbjct: 1726 LSATQ---------FTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADV 1776
Query: 264 LQFGRTSED----VFTMDYR 279
+ E VF YR
Sbjct: 1777 MSI----ESLVEVVF---YR 1789
Score = 29.6 bits (66), Expect = 1.4
Identities = 16/83 (19%), Positives = 31/83 (37%), Gaps = 25/83 (30%)
Query: 212 SKNMDNIIELHNKTPT----WNE-DTQSYVLNFHGRVTQASVKNFQI--IHDNDPEYIVL 264
+ M ++L+ + WN D ++ + +G F I I N+P + +
Sbjct: 1628 EQGMG--MDLYKTSKAAQDVWNRAD--NHFKDTYG---------FSILDIVINNPVNLTI 1674
Query: 265 QFG-----RTSEDVFTMDYRYPL 282
FG R E+ M + +
Sbjct: 1675 HFGGEKGKRIRENYSAMIFETIV 1697
>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain,
EF-hand domain; 1.8A {Listeria monocytogenes} SCOP:
b.1.18.15 c.10.2.1
Length = 308
Score = 32.0 bits (73), Expect = 0.20
Identities = 12/51 (23%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 197 ITPLEISETLIECWNSKNMDNIIELHNKTPTWNEDTQ--SYVLNFHGRVTQ 245
I P IS+ + + ++N + T+N+ + + F G VTQ
Sbjct: 254 IAPATISDNGTYASPNLTWNLTSFINNVSYTFNQSVTFKNTTVPFSGTVTQ 304
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 30.5 bits (68), Expect = 0.57
Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 192 YERVSIT--PLEISETLIECWNSKNMDNIIELHNKTPT-WNEDTQSYVLNFH 240
+E ++I P EI + ++ N ++ NK T W+ ++ Y + F
Sbjct: 171 FENIAIELPPNEILFSENNDMDNNNDG--VDELNKKCTFWDAISKLYYVQFF 220
>3cx5_F Cytochrome B-C1 complex subunit 6; complex III, electron transfer
complex, cytochrome BC1 complex,
mitochondrialtransmembrane complex; HET: M3L SUC 6PH
UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
cerevisiae} SCOP: f.28.1.1 PDB: 3cxh_F* 1ezv_H* 1kb9_F*
1p84_F* 2ibz_H* 1kyo_F*
Length = 146
Score = 29.5 bits (65), Expect = 0.72
Identities = 11/39 (28%), Positives = 22/39 (56%)
Query: 54 QASTDTSDYGSGYPDRSSQDDEDDDDDDEDDIEQELSDI 92
+ + G D +D+DDDDD++++ E+E++D
Sbjct: 38 EGEEKEEENGDEDEDEDEDEDDDDDDDEDEEEEEEVTDQ 76
>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 = 29.5 bits (65), Expect = 0.76
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 7/35 (20%)
Query: 8 QKMKLKRQTSSM-IQATDISGRGLRP-LSSSSSRE 40
+K LK+ +S+ + A D S P L+ ++ E
Sbjct: 18 EKQALKKLQASLKLYADD-SA----PALAIKATME 47
>2ayu_A Nucleosome assembly protein; histone chaperone; 3.00A
{Saccharomyces cerevisiae} SCOP: d.305.1.1 PDB: 2z2r_A
Length = 417
Score = 29.9 bits (66), Expect = 1.0
Identities = 9/45 (20%), Positives = 16/45 (35%)
Query: 47 PLQFTRTQASTDTSDYGSGYPDRSSQDDEDDDDDDEDDIEQELSD 91
+ + A + D ++EDDD EDD + +
Sbjct: 356 AVDWFTGAALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEE 400
Score = 29.5 bits (65), Expect = 1.5
Identities = 7/42 (16%), Positives = 16/42 (38%)
Query: 50 FTRTQASTDTSDYGSGYPDRSSQDDEDDDDDDEDDIEQELSD 91
FT + + + ++++DD ++DD E
Sbjct: 360 FTGAALEFEFEEDEEEADEDEDEEEDDDHGLEDDDGESAEEQ 401
>2zd7_A VPS75, vacuolar protein sorting-associated protein 75; histone
chaperone, VPS75, NAP1, nucleus, phosphoprotein; 1.85A
{Saccharomyces cerevisiae} PDB: 3q66_A* 3q68_A* 3c9d_A
3c9b_A 3q33_B* 3q35_B* 3dm7_A
Length = 264
Score = 28.5 bits (63), Expect = 2.6
Identities = 10/42 (23%), Positives = 17/42 (40%), Gaps = 3/42 (7%)
Query: 50 FTRTQASTDTSDYGSGYPDRSSQDDEDDDDDDEDDIEQELSD 91
+ Q + + SG D +DDD +++ LSD
Sbjct: 216 YAEAQRDLEDEEGESGLSA---DGDSEDDDGSLGEVDLPLSD 254
>2y8k_A Arabinoxylanase, carbohydrate binding family 6; hydrolase; 1.47A
{Clostridium thermocellum}
Length = 491
Score = 28.1 bits (61), Expect = 3.7
Identities = 12/59 (20%), Positives = 20/59 (33%), Gaps = 2/59 (3%)
Query: 213 KNMDNII-ELHNKTPTWNEDTQSYVLNFHGRVTQASVKNFQIIHDNDPEYIVLQFGRTS 270
+++ E+HN+ P S + ++II PE VL F
Sbjct: 126 AKETHVLYEIHNE-PVAWGPPYSSSTANPPGAVDMEIDVYRIIRTYAPETPVLLFSYAV 183
>3onh_A Ubiquitin-activating enzyme E1-like; ligase, SUMO conjugation,
UBC9; 1.60A {Saccharomyces cerevisiae} PDB: 3ong_A
Length = 127
Score = 26.9 bits (59), Expect = 4.2
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 65 GYPDRSSQDDEDD-----DDDDEDDIEQELSDISLHRGSHV-ISDPDEINSGSLPIEM 116
YP S D + D D ED ++ LS+I+L GS + SD + IE+
Sbjct: 34 SYPQDISLLDASNQRLLFDYDFEDLNDRTLSEINLGNGSIILFSDEEGDTMIRKAIEL 91
>3f40_A Uncharacterized NTF2-like protein; YP_677363.1, NTF2-like protein
of unknown function, structural genomics; HET: MSE;
1.27A {Cytophaga hutchinsonii atcc 33406}
Length = 114
Score = 26.6 bits (58), Expect = 4.5
Identities = 5/26 (19%), Positives = 10/26 (38%)
Query: 196 SITPLEISETLIECWNSKNMDNIIEL 221
IT ++ I N++N +
Sbjct: 5 QITTRDLVLEFIHALNTENFPAAKKR 30
>1twf_F ABC23, DNA-directed RNA polymerases I, II, and III 23 KD
polypeptide; transcription, mRNA, multiprotein complex;
HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP:
a.143.1.2 PDB: 1i3q_F 1i6h_F 1k83_F* 1nik_F 1nt9_F
1pqv_F 1r5u_F 1r9s_F* 1r9t_F* 1sfo_F* 1twa_F* 1twc_F*
1i50_F* 1twg_F* 1twh_F* 1wcm_F 1y1v_F 1y1w_F 1y1y_F
1y77_F* ...
Length = 155
Score = 27.3 bits (60), Expect = 4.7
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 1/56 (1%)
Query: 60 SDYGSGYPDRSSQDDEDDDDDDEDDIEQELSDISLHRGSHVISDPDEINSGSLPIE 115
SDY + D +++ ED D + D E G ++ I +G E
Sbjct: 2 SDYEEAFND-GNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPE 56
>2c9k_A Pesticidal crystal protein CRY4AA; toxin, insect toxin,
bioinsecticicide, pore formation, receptor recognition,
sporulation; 2.8A {Bacillus thuringiensis}
Length = 612
Score = 27.9 bits (61), Expect = 5.4
Identities = 9/92 (9%), Positives = 24/92 (26%)
Query: 20 IQATDISGRGLRPLSSSSSREFYCYNGPLQFTRTQASTDTSDYGSGYPDRSSQDDEDDDD 79
+ + + L ++ S +F+ NG + + + +
Sbjct: 357 LNVISLDNKYLNDYNNISKMDFFITNGTRLLEKELTAGSGQITYDVNKNIFGLPILKRRE 416
Query: 80 DDEDDIEQELSDISLHRGSHVISDPDEINSGS 111
+ + D H S + S +
Sbjct: 417 EQGNPTLFPTYDNYSHILSFIKSLSIPATYKT 448
>3k6g_A Telomeric repeat-binding factor 2-interacting Pro; helix,
chromosomal protein, nucleus, phosphoprotein, telomer
cycle, DNA-binding, protein binding; 1.95A {Homo
sapiens}
Length = 111
Score = 26.2 bits (57), Expect = 6.4
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 35 SSSSREFYCYNGPLQFTRTQASTDTSDYGSGYPDRSSQDDEDDDDDDEDDIEQ 87
S+ ++ F +G L+ T ++ GYP S QDD D DDED E
Sbjct: 29 STVTQAFLKNSGELEATSAFLASGQRA--DGYPIWSRQDDIDLQKDDEDTREA 79
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding,
exonucle binding, mitochondrion, rRNA processing; 3.00A
{Saccharomyces cerevisiae}
Length = 977
Score = 27.4 bits (61), Expect = 7.4
Identities = 11/75 (14%), Positives = 26/75 (34%), Gaps = 6/75 (8%)
Query: 52 RTQASTDTSDYGSGYPDRSSQDDEDDDDDDEDDIEQELSDISLHRGSHVISDPDEINSGS 111
+ + PD + DD+D+++ + + + +++ I S
Sbjct: 306 SSIVLDSEHFDVNDNPDIEAGDDDDNNESSSNT------TVISDKQRRLLAKDAMIAQRS 359
Query: 112 LPIEMQGEVVGNLER 126
I+ +VV R
Sbjct: 360 KKIQPTAKVVYIQRR 374
>3brk_X Glucose-1-phosphate adenylyltransferase; ADP-glucose
pyrophosphorylase, allostery, kinetics,
structure-function relationships; 2.10A {Agrobacterium
tumefaciens}
Length = 420
Score = 27.2 bits (61), Expect = 8.2
Identities = 11/32 (34%), Positives = 17/32 (53%), Gaps = 5/32 (15%)
Query: 249 KNFQIIHDNDPEYIVLQFGRTSED-VFTMDYR 279
+N II PEY+V+ + D ++ MDY
Sbjct: 116 QNIDIIEPYAPEYMVI----LAGDHIYKMDYE 143
>2ful_A EIF-5, eukaryotic translation initiation factor 5; atypical heat
motif; 1.50A {Saccharomyces cerevisiae}
Length = 177
Score = 26.2 bits (57), Expect = 10.0
Identities = 7/20 (35%), Positives = 14/20 (70%)
Query: 72 QDDEDDDDDDEDDIEQELSD 91
+ E DDD+++D++E+ D
Sbjct: 158 ETAESDDDEEDDELERPHRD 177
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
0.315 0.133 0.387
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,478,462
Number of extensions: 259510
Number of successful extensions: 1062
Number of sequences better than 10.0: 1
Number of HSP's gapped: 972
Number of HSP's successfully gapped: 55
Length of query: 302
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 209
Effective length of database: 4,105,140
Effective search space: 857974260
Effective search space used: 857974260
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 (21.6 bits)
S2: 57 (26.2 bits)