RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10825
(140 letters)
>3f1p_A Endothelial PAS domain-containing protein 1; PAS domain,
heterodimer, internal cavity, activator, angiogenesis,
congenital erythrocytosis; 1.17A {Homo sapiens} PDB:
3f1o_A* 3f1n_A 3h7w_A* 3h82_A* 1p97_A 2a24_A
Length = 117
Score = 132 bits (334), Expect = 3e-41
Identities = 31/85 (36%), Positives = 51/85 (60%)
Query: 24 APPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQ 83
+IGY P E+LG S Y++YH D +++ H+ L KG+ S YR L K ++WL+
Sbjct: 28 ITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVVSGQYRMLAKHGGYVWLE 87
Query: 84 TRFYITYHQWNSKPEFIVCTHRVVS 108
T+ + Y+ N +P+ I+C + V+S
Sbjct: 88 TQGTVIYNPRNLQPQCIMCVNYVLS 112
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS,
circadian rhythm proteins, transcription-activato; 2.27A
{Mus musculus}
Length = 361
Score = 130 bits (327), Expect = 1e-37
Identities = 74/90 (82%), Positives = 80/90 (88%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWI 80
D APPIIGYLPFEVLGTSGYDYYHVDDL+++ CHE LMQ G+G SCYYRFLTKGQQWI
Sbjct: 267 DHRAPPIIGYLPFEVLGTSGYDYYHVDDLENLAKCHEHLMQYGKGKSCYYRFLTKGQQWI 326
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYV 110
WLQT +YITYHQWNS+PEFIVCTH VVSY
Sbjct: 327 WLQTHYYITYHQWNSRPEFIVCTHTVVSYA 356
Score = 28.4 bits (63), Expect = 0.87
Identities = 3/25 (12%), Positives = 13/25 (52%)
Query: 24 APPIIGYLPFEVLGTSGYDYYHVDD 48
++ +LP +++ S +++ +
Sbjct: 115 VTSLLEHLPSDLVDQSIFNFIPEGE 139
>3f1p_B ARYL hydrocarbon receptor nuclear translocator; PAS domain,
heterodimer, internal cavity, activator, angiogenesis,
congenital erythrocytosis; 1.17A {Homo sapiens} PDB:
3f1o_B* 3f1n_B 3h7w_B* 3h82_B* 1x0o_A 2hv1_A 2b02_A*
2k7s_A 2a24_B
Length = 121
Score = 121 bits (305), Expect = 8e-37
Identities = 23/86 (26%), Positives = 49/86 (56%), Gaps = 1/86 (1%)
Query: 24 APPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKGQQWIWL 82
+GY P E+LG + ++ H +D + + +++ KG+ S +RF +K Q+W+W+
Sbjct: 31 CVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKNQEWLWM 90
Query: 83 QTRFYITYHQWNSKPEFIVCTHRVVS 108
+T + + ++ + E+I+CT+ V
Sbjct: 91 RTSSFTFQNPYSDEIEYIICTNTNVK 116
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 125 bits (316), Expect = 8e-36
Identities = 34/107 (31%), Positives = 59/107 (55%), Gaps = 3/107 (2%)
Query: 5 KPVTFCMSDLMNSTIY--DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ- 61
K + + ++ D A I+ YLP E+LGTS Y+Y+H DD+ + CH ++Q
Sbjct: 276 KSMEYVSRHAIDGKFVFVDQRATAILAYLPQELLGTSCYEYFHQDDIGHLAECHRQVLQT 335
Query: 62 KGEGTSCYYRFLTKGQQWIWLQTRFYITYHQWNSKPEFIVCTHRVVS 108
+ + T+ Y+F K +I L++R++ + W + E+IV T+ VV
Sbjct: 336 REKITTNCYKFKIKDGSFITLRSRWFSFMNPWTKEVEYIVSTNTVVL 382
Score = 28.4 bits (63), Expect = 0.69
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 24 APPIIGYLPFEVLGTSGYDYYHVDD 48
I+ Y +++G S +DY H D
Sbjct: 116 VFKILNYSQNDLIGQSLFDYLHPKD 140
Score = 25.4 bits (55), Expect = 9.5
Identities = 4/17 (23%), Positives = 11/17 (64%)
Query: 9 FCMSDLMNSTIYDLVAP 25
+ +DL+ +++D + P
Sbjct: 122 YSQNDLIGQSLFDYLHP 138
>2kdk_A ARYL hydrocarbon receptor nuclear translocator-LI 2; circadian
clock, PAS domain, transcription, activator, biolo
rhythms, DNA-binding, nucleus; NMR {Homo sapiens}
Length = 121
Score = 117 bits (296), Expect = 2e-35
Identities = 28/86 (32%), Positives = 53/86 (61%), Gaps = 1/86 (1%)
Query: 24 APPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQ-KGEGTSCYYRFLTKGQQWIWL 82
A I+GYLP E+LGTS Y+Y+H DD +++ H+A++Q K + + Y+F K ++ L
Sbjct: 32 ATAILGYLPQELLGTSCYEYFHQDDHNNLTDKHKAVLQSKEKILTDSYKFRAKDGSFVTL 91
Query: 83 QTRFYITYHQWNSKPEFIVCTHRVVS 108
+++++ + + E+IV + +V
Sbjct: 92 KSQWFSFTNPDTKELEYIVSVNTLVL 117
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological
rhythms, cytoplasm, nucleus, phosphoprotein,
transcription; 2.40A {Mus musculus}
Length = 309
Score = 119 bits (299), Expect = 6e-34
Identities = 30/110 (27%), Positives = 49/110 (44%), Gaps = 4/110 (3%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCY--YRFLTKGQQ 78
D A P++GYLP +++ T H D ++ H+ ++Q G Y RF T+ +
Sbjct: 181 DERAVPLLGYLPQDLIETPVLVQLHPSDRPLMLAIHKKILQAGGQPFDYSPIRFRTRNGE 240
Query: 79 WIWLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQVPDSEEQSN 128
+I L T + + W+ K FI+ H+V L D P E+
Sbjct: 241 YITLDTSWSSFINPWSRKISFIIGRHKVRV--GPLNEDVFAAPPCPEEKT 288
Score = 28.4 bits (63), Expect = 0.83
Identities = 2/23 (8%), Positives = 4/23 (17%)
Query: 26 PIIGYLPFEVLGTSGYDYYHVDD 48
I ++ D
Sbjct: 47 SIFHCKKDAFSDAKFVEFLAPHD 69
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm,
protein binding; 2.50A {Mus musculus}
Length = 317
Score = 117 bits (293), Expect = 6e-33
Identities = 30/112 (26%), Positives = 54/112 (48%), Gaps = 5/112 (4%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCY---YRFLTKGQ 77
D A P++GYLP +++GTS Y H +D +V H+ +++ RF T+
Sbjct: 190 DERAVPLLGYLPQDLIGTSILTYLHPEDRPLMVAIHQKVLKYAGHPPFEHSPVRFCTQNG 249
Query: 78 QWIWLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQVPDSEEQSND 129
+++ L + + + W+ K FI+ H+V + + L D + SND
Sbjct: 250 EYVILDSSWSSFVNPWSRKVSFIIGRHKVRT--SPLNEDVFATRIKKAASND 299
Score = 28.5 bits (63), Expect = 0.82
Identities = 5/94 (5%), Positives = 15/94 (15%)
Query: 26 PIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQTR 85
I+ + D D+ + + R
Sbjct: 58 LILNSKRGFLKSVHFVDLLAPQDVRAFYAHTAPTQLPFWNNWTQRASQYECAPAKPFFCR 117
Query: 86 FYITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQ 119
+ +V + + +
Sbjct: 118 ICGGGDREKRHYSPFRILPYLVHVHSSAQPEPEP 151
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock
protein, protein binding; 2.75A {Mus musculus}
Length = 320
Score = 113 bits (284), Expect = 1e-31
Identities = 25/110 (22%), Positives = 48/110 (43%), Gaps = 4/110 (3%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEG--TSCYYRFLTKGQQ 78
D A P++GYLP ++LG + H +D ++ H+ ++Q RF + +
Sbjct: 192 DERAAPLLGYLPQDLLGAPVLLFLHPEDRPLMLAIHKKILQLAGQPFDHSPIRFCARNGE 251
Query: 79 WIWLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQVPDSEEQSN 128
++ + T + H W+ K F++ H+V + L D P +
Sbjct: 252 YVTMDTSWAGFVHPWSRKVAFVLGRHKVRT--APLNEDVFTPPAPSPAPS 299
Score = 29.2 bits (65), Expect = 0.46
Identities = 2/23 (8%), Positives = 5/23 (21%)
Query: 26 PIIGYLPFEVLGTSGYDYYHVDD 48
++ G + D
Sbjct: 58 VLLRCKRDVFRGARFSELLAPQD 80
>3rty_A Period circadian protein; PAS domain, signalling, timeless,
circadian clock protein; 2.85A {Drosophila melanogaster}
PDB: 1wa9_A 3gec_A
Length = 339
Score = 113 bits (284), Expect = 2e-31
Identities = 32/112 (28%), Positives = 56/112 (50%), Gaps = 7/112 (6%)
Query: 21 DLVAPPIIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGT-----SCYYRFLTK 75
D A +GYLP +++G S D+YH +DL + +E +M+KG+ S YRFL +
Sbjct: 170 DSAAVSALGYLPQDLIGRSIMDFYHHEDLSVMKETYETVMKKGQTAGASFCSKPYRFLIQ 229
Query: 76 GQQWIWLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQVPDSEEQS 127
++ L+T + + W+ K EF+V HRV + + + + +
Sbjct: 230 NGCYVLLETEWTSFVNPWSRKLEFVVGHHRVFQ--GPKQCNVFEAAPTCKLK 279
Score = 27.7 bits (61), Expect = 1.5
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 24 APPIIGYLPFEVLGTSGYDYYHVDD 48
++GY LG S D+ H+ D
Sbjct: 23 ITDVLGYPRDMWLGRSFIDFVHLKD 47
>1oj5_A Steroid receptor coactivator 1A; transcriptional coactivator,
complex, LXXLL motif, transcriptional regulation; 2.2A
{Mus musculus} SCOP: d.110.3.8
Length = 132
Score = 88.8 bits (220), Expect = 7e-24
Identities = 15/95 (15%), Positives = 33/95 (34%), Gaps = 2/95 (2%)
Query: 29 GYLPFEVLGTSGYDYYHVDDLDSVV--TCHEALMQKGEGTSCYYRFLTKGQQWIWLQTRF 86
+++ Y ++ + + +M +G +S YRF+ + TR
Sbjct: 32 RTGWEDLVRKCIYAFFQPQGREPSYARQLFQEVMTRGTASSPSYRFILNDGTMLSAHTRC 91
Query: 87 YITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQVP 121
+ Y Q FI+ H + + L ++
Sbjct: 92 KLCYPQSPDMQPFIMGIHIIDREHSGLSPQDDTNS 126
>2vlg_A Sporulation kinase A; histidine kinase, two-component regulatory
system, two-component signal transduction, transferase,
phosphorylation, SCOD; 1.7A {Bacillus subtilis}
Length = 111
Score = 61.3 bits (149), Expect = 2e-13
Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 3/80 (3%)
Query: 27 IIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQTRF 86
+GYL E++G+ + H +D V + C +RF+ K +W++
Sbjct: 31 HLGYLQGEMIGSFLKTFLHEEDQFLV---ESYFYNEHHLMPCTFRFIKKDHTIVWVEAAV 87
Query: 87 YITYHQWNSKPEFIVCTHRV 106
I + I+ +V
Sbjct: 88 EIVTTRAERTEREIILKMKV 107
>3h9w_A Diguanylate cyclase with PAS/PAC sensor; alpha-beta protein.,
structural genomics, PSI-2, protein STR initiative;
1.90A {Marinobacter aquaeolei}
Length = 115
Score = 38.7 bits (91), Expect = 6e-05
Identities = 11/80 (13%), Positives = 29/80 (36%), Gaps = 2/80 (2%)
Query: 27 IIGYLPFEVLGTSGY-DYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQTR 85
++G+ + H +D + VV + G YR L + ++W++
Sbjct: 26 LLGWPQGSWKSVEDWATRMHPEDQEWVVNFCVKQSECGVDHEADYRALHRDGHYVWIRDV 85
Query: 86 FYITYHQWNSKPEFIVCTHR 105
++ + + E ++
Sbjct: 86 VHVVRDD-SGEVEALIGFMF 104
>3icy_A Sensor protein; sensory box histidine kinase/response regulator
domain, kinase, chlorobium tepidum TLS, PSI-2; 2.68A
{Chlorobaculum tepidum}
Length = 118
Score = 36.5 bits (85), Expect = 6e-04
Identities = 15/83 (18%), Positives = 27/83 (32%), Gaps = 3/83 (3%)
Query: 6 PVTFCMSDLMNSTIYDLVAPPIIGYLPFEVLGTSGYDYY---HVDDLDSVVTCHEALMQK 62
P D+ P + L E GT+ + H DD + + L +
Sbjct: 14 PAAIYHLDVSGQATIRFRPPAFLKTLVSEHAGTTRLNTLSMIHHDDRHMLSNAYSKLREA 73
Query: 63 GEGTSCYYRFLTKGQQWIWLQTR 85
+ YR +T + W++
Sbjct: 74 KHSLTLVYRIVTPEGKLHWIEDH 96
>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 = 37.1 bits (85), Expect = 0.001
Identities = 16/104 (15%), Positives = 31/104 (29%), Gaps = 30/104 (28%)
Query: 41 YDYYHVDD-LDSVVTCHE-------------------ALMQKGEGTSCYYRFLTKGQQ-- 78
+D V D S+++ E L+ K E +F+ + +
Sbjct: 33 FDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE--EMVQKFVEEVLRIN 90
Query: 79 WIWLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVLRRDNNQVPD 122
+ +L + Q P + T + + L DN
Sbjct: 91 YKFLMSPIKTEQRQ----PSMM--TRMYIEQRDRLYNDNQVFAK 128
>3mr0_A Sensory box histidine kinase/response regulator; PAS fold,
structural genomics, PSI-2; HET: PG5; 1.49A
{Burkholderia thailandensis}
Length = 142
Score = 35.2 bits (82), Expect = 0.002
Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 2/61 (3%)
Query: 27 IIGYLPFEVLGTSG--YDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQT 84
I+GY E+ + H DD V+ +A ++ + YR T+ + W+Q+
Sbjct: 41 IMGYEDHELPDEITGHRESIHPDDRARVLAALKAHLEHRDTYDVEYRVRTRSGDFRWIQS 100
Query: 85 R 85
R
Sbjct: 101 R 101
>3eeh_A Putative light and redox sensing histidine kinase; structural
genomic MCSG, protein structure initiative, midwest
center for STRU genomics; HET: PG5; 1.95A {Haloarcula
marismortui}
Length = 125
Score = 34.4 bits (80), Expect = 0.003
Identities = 10/61 (16%), Positives = 21/61 (34%), Gaps = 3/61 (4%)
Query: 27 IIGYLPFEVLGTSG--YDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQT 84
I G ++ + H +D + + ++LM GE R + W+
Sbjct: 44 IWGRSVAKLRENPHDFLNGIHPEDRELMKDTMQSLMD-GESADVECRVNATEEYQRWVWI 102
Query: 85 R 85
+
Sbjct: 103 Q 103
>3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein
structure initiative, MI center for structural genomics,
MCSG; 2.37A {Chromobacterium violaceum}
Length = 125
Score = 34.0 bits (79), Expect = 0.005
Identities = 13/66 (19%), Positives = 18/66 (27%), Gaps = 2/66 (3%)
Query: 27 IIGYLPFEVLGTSG--YDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIWLQT 84
I G T + H DD V + + YR + Q L
Sbjct: 39 IFGTDSATFDATEDAYFQRVHPDDRARVRRELDRHVLGDRPFDVEYRIVRPDGQVRELLE 98
Query: 85 RFYITY 90
R +I
Sbjct: 99 RNHIQR 104
>2r78_A Sensor protein; sensory box sensor histidine kinase/response
regulator, structural genomics, PSI, MCSG; 1.60A
{Geobacter sulfurreducens pca}
Length = 117
Score = 29.1 bits (66), Expect = 0.25
Identities = 9/55 (16%), Positives = 13/55 (23%), Gaps = 1/55 (1%)
Query: 27 IIGYLPFEVLGTSGYDYYHVDDLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIW 81
IGY E L D ++ GE T+ +
Sbjct: 43 AIGYTRDEFLALDWGVLSRGVDSGWAAASLARIVG-GEPLREERTVWTRNGDQLT 96
>3b1d_A Betac-S lyase; HET: PLP PLS EPE; 1.66A {Streptococcus anginosus}
PDB: 3b1c_A* 3b1e_A*
Length = 392
Score = 28.2 bits (64), Expect = 0.95
Identities = 8/33 (24%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
W ++ HQ++ E IV VV +++
Sbjct: 78 WEKSE-----HQYSFDKEDIVFVEGVVPAISIA 105
>3l8a_A METC, putative aminotransferase, probable beta-cystathi;
beta-cystathionase, lyase; HET: PLP; 1.54A
{Streptococcus mutans}
Length = 421
Score = 28.3 bits (64), Expect = 0.96
Identities = 6/33 (18%), Positives = 12/33 (36%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
W + H + E I+ VV +++
Sbjct: 108 WERKE-----HDYAVVKEDILFIDGVVPAISIA 135
>4dq6_A Putative pyridoxal phosphate-dependent transferas; structural
genomics, niaid, national institute of allergy AN
infectious diseases; HET: PLP; 1.50A {Clostridium
difficile} PDB: 4dgt_A*
Length = 391
Score = 27.9 bits (63), Expect = 1.0
Identities = 9/33 (27%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
WL R H W K E+++ + V+ +++L
Sbjct: 79 WLYRR-----HNWKIKSEWLIYSPGVIPAISLL 106
>1c7n_A Cystalysin; transferase, aminotransferase, pyridoxal phosphate;
HET: PLP; 1.90A {Treponema denticola} SCOP: c.67.1.3
PDB: 1c7o_A*
Length = 399
Score = 27.9 bits (63), Expect = 1.0
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
W++ R HQW+ + ++I+ T VV V
Sbjct: 78 WMKDR-----HQWDIQTDWIINTAGVVPAVFNA 105
>3kax_A Aminotransferase, classes I and II; PLP, C-S lyase, transf
structural genomics, center for structural genomics of
INFE diseases, csgid; HET: LLP MSE PLP; 1.70A {Bacillus
anthracis str} PDB: 3t32_A*
Length = 383
Score = 27.8 bits (63), Expect = 1.0
Identities = 6/33 (18%), Positives = 16/33 (48%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
W + + + W+ + E+IV + +V ++
Sbjct: 71 WTKKQ-----YNWDIQKEWIVFSAGIVPALSTS 98
>1d2f_A MALY protein; aminotransferase fold, large PLP-binding domain,
small C-TER domain, open alpha-beta structure.,
transferase; HET: PLP; 2.50A {Escherichia coli} SCOP:
c.67.1.3
Length = 390
Score = 27.9 bits (63), Expect = 1.1
Identities = 7/33 (21%), Positives = 12/33 (36%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
W T+ H + +V V+ V+ L
Sbjct: 76 WFSTQ-----HYTAIDSQTVVYGPSVIYMVSEL 103
>3dzz_A Putative pyridoxal 5'-phosphate-dependent C-S LYA; putative
PLP-dependent aminotransferase; HET: MSE LLP PG4; 1.61A
{Lactobacillus delbrueckii subsp}
Length = 391
Score = 27.8 bits (63), Expect = 1.1
Identities = 6/33 (18%), Positives = 13/33 (39%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
W + H+ K ++ V VV ++ +
Sbjct: 74 WEEIE-----HRARPKEDWCVFASGVVPAISAM 101
>3u5e_L 60S ribosomal protein L13-A, 60S ribosomal protein L11-A;
translation, ribosome, ribosomal R ribosomal protein,
STM1, eukaryotic ribosome; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5i_L
Length = 199
Score = 25.9 bits (57), Expect = 1.1
Identities = 0/34 (0%), Positives = 4/34 (11%), Gaps = 10/34 (29%)
Query: 71 RFLTKGQ-------QWIWLQTRFYITYHQWNSKP 97
+ + + +
Sbjct: 11 KNHFRKHWQERVKVHFDQAGKKVSRRN---ARAT 41
>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation
factor 6, EIF6, transla large ribosomal subunit, rRNA;
3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B
4a1d_B
Length = 52
Score = 25.5 bits (56), Expect = 1.8
Identities = 6/34 (17%), Positives = 10/34 (29%), Gaps = 10/34 (29%)
Query: 71 RFLTKGQ-------QWIWLQTRFYITYHQWNSKP 97
+ + W ++ I Y NSK
Sbjct: 11 KRFGRKIKQNRPLPNWYRYKSDTNIRY---NSKR 41
>3iz5_O 60S ribosomal protein L27A (L15P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_O
Length = 144
Score = 25.6 bits (56), Expect = 1.9
Identities = 1/33 (3%), Positives = 2/33 (6%), Gaps = 10/33 (30%)
Query: 71 RFLTKGQ-------QWIWLQTRFYITYHQWNSK 96
+ R
Sbjct: 11 KRGHVSAGHGRIGKHRKHPGGRGNAGG---MHH 40
>3fdb_A Beta C-S lyase, putative PLP-dependent beta-cystathionase;
PLP-dependent transferase-like fold, structural
genomics; HET: LLP; 1.99A {Corynebacterium diphtheriae}
Length = 377
Score = 27.1 bits (61), Expect = 2.1
Identities = 6/33 (18%), Positives = 14/33 (42%), Gaps = 5/33 (15%)
Query: 81 WLQTRFYITYHQWNSKPEFIVCTHRVVSYVNVL 113
+ R + + ++PE+I VV + +
Sbjct: 70 FYADR-----YGYQARPEWIFPIPDVVRGLYIA 97
>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP,
signaling protein; HET: GNP; 2.00A {Thermotoga maritima}
PDB: 3cnn_A* 3cno_A*
Length = 262
Score = 26.1 bits (58), Expect = 4.9
Identities = 7/15 (46%), Positives = 8/15 (53%)
Query: 74 TKGQQWIWLQTRFYI 88
TKG QW L+ I
Sbjct: 134 TKGIQWFSLENGVKI 148
>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG,
structural genomics, center for structural genomics;
1.65A {Burkholderia thailandensis} PDB: 3mqo_A
Length = 120
Score = 25.2 bits (56), Expect = 5.1
Identities = 7/56 (12%), Positives = 16/56 (28%), Gaps = 1/56 (1%)
Query: 27 IIGYLPFEVLGTSGYDYYHVD-DLDSVVTCHEALMQKGEGTSCYYRFLTKGQQWIW 81
I +++G S Y + + + +M + G + W
Sbjct: 34 IFRCARADLIGRSFEVLYPSSDEFERIGERISPVMIAHGSYADDRIMKRAGGELFW 89
>2bq4_A Cytochrome C3, basic cytochrome C3; electron transfer, sulfate
reducing bacteria, SAD, heme, iron, electron transport;
HET: HEC; 1.68A {Desulfovibrio africanus}
Length = 116
Score = 24.6 bits (52), Expect = 9.6
Identities = 5/29 (17%), Positives = 9/29 (31%)
Query: 38 TSGYDYYHVDDLDSVVTCHEALMQKGEGT 66
+H S CH+ + + T
Sbjct: 76 KFLMTAFHSKSPMSCQGCHKEMKTAKKTT 104
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 0.442
Gapped
Lambda K H
0.267 0.0557 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,239,316
Number of extensions: 121599
Number of successful extensions: 259
Number of sequences better than 10.0: 1
Number of HSP's gapped: 250
Number of HSP's successfully gapped: 43
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
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: 52 (24.2 bits)