RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3926
(512 letters)
>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 100
Score = 82.5 bits (203), Expect = 2e-19
Identities = 26/87 (29%), Positives = 48/87 (55%), Gaps = 2/87 (2%)
Query: 15 NAKLNPENYRLRIRWKSSSTDTD--VYTRESLTKIFSKYGKINILVISPKKRGSALLEFE 72
+ +L+++WK D Y+++ L ++ KYG++ LV+S KK G+A++EF
Sbjct: 3 SGSSGQGTPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSSKKPGTAVVEFA 62
Query: 73 HADSARRAKLYELGLPNCPLTLNYLNP 99
+A A E+GL + PL +++L
Sbjct: 63 TVKAAELAVQNEVGLVDNPLKISWLEG 89
Score = 82.5 bits (203), Expect = 2e-19
Identities = 26/87 (29%), Positives = 48/87 (55%), Gaps = 2/87 (2%)
Query: 403 NAKLNPENYRLRIRWKSSSTDTD--VYTRESLTKIFSKYGKINILVISPKKRGSALLEFE 460
+ +L+++WK D Y+++ L ++ KYG++ LV+S KK G+A++EF
Sbjct: 3 SGSSGQGTPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSSKKPGTAVVEFA 62
Query: 461 HADSARRAKLYELGLPNCPLTLNYLNP 487
+A A E+GL + PL +++L
Sbjct: 63 TVKAAELAVQNEVGLVDNPLKISWLEG 89
>1bq0_A DNAJ, HSP40; chaperone, heat shock, protein folding, DNAK; NMR
{Escherichia coli} SCOP: a.2.3.1 PDB: 1xbl_A 1bqz_A
Length = 103
Score = 81.5 bits (202), Expect = 4e-19
Identities = 28/63 (44%), Positives = 40/63 (63%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D Y +L ++ E++IR AY++ A+K HPD+N DK+A F + +A EVL D RA
Sbjct: 4 DYYEILGVSKTAEEREIRKAYKRLAMKYHPDRNQGDKEAEAKFKEIKEAYEVLTDSQKRA 63
Query: 313 AYD 315
AYD
Sbjct: 64 AYD 66
>2ctw_A DNAJ homolog subfamily C member 5; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Mus
musculus}
Length = 109
Score = 80.1 bits (198), Expect = 1e-18
Identities = 27/63 (42%), Positives = 39/63 (61%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
LY +L L + + DI+ +YRK ALK HPDKNPD+ +A + F ++ A +L D + R
Sbjct: 18 SLYHVLGLDKNATSDDIKKSYRKLALKYHPDKNPDNPEAADKFKEINNAHAILTDATKRN 77
Query: 313 AYD 315
YD
Sbjct: 78 IYD 80
>2ctq_A DNAJ homolog subfamily C member 12; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 112
Score = 79.8 bits (197), Expect = 2e-18
Identities = 28/63 (44%), Positives = 42/63 (66%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D Y LL S + I + ++ +AL+CHPDK+P++ KA+ETF L KA E+L ++ +RA
Sbjct: 21 DYYTLLGCDELSSVEQILAEFKVRALECHPDKHPENPKAVETFQKLQKAKEILTNEESRA 80
Query: 313 AYD 315
YD
Sbjct: 81 RYD 83
>2yua_A Williams-beuren syndrome chromosome region 18 protein; J domain,
all helix protein, chaperone, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 99
Score = 77.5 bits (191), Expect = 9e-18
Identities = 21/63 (33%), Positives = 33/63 (52%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
LY LL + ++ I++AY ++ HPD+N +A E F +S+A VL + R
Sbjct: 18 ALYDLLGVPSTATQAQIKAAYYRQCFLYHPDRNSGSAEAAERFTRISQAYVVLGSATLRR 77
Query: 313 AYD 315
YD
Sbjct: 78 KYD 80
>2lgw_A DNAJ homolog subfamily B member 2; J domain, HSJ1A, CO-chaperon,
chaperone; NMR {Homo sapiens}
Length = 99
Score = 76.2 bits (188), Expect = 3e-17
Identities = 30/64 (46%), Positives = 41/64 (64%), Gaps = 1/64 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIET-FHLLSKAIEVLLDKSAR 311
Y +L++ S DI+ AYR+KAL+ HPDKNPD+K+ E F +++A EVL DK R
Sbjct: 3 SYYEILDVPRSASADDIKKAYRRKALQWHPDKNPDNKEFAEKKFKEVAEAYEVLSDKHKR 62
Query: 312 AAYD 315
YD
Sbjct: 63 EIYD 66
>3apq_A DNAJ homolog subfamily C member 10; thioredoxin fold, DNAJ domain,
endoplasmic reticulum, oxidor; 1.84A {Mus musculus}
Length = 210
Score = 78.8 bits (194), Expect = 6e-17
Identities = 27/63 (42%), Positives = 40/63 (63%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
+ Y LL ++ S ++IR A++K ALK HPDKNP++ A F +++A EVL D+ R
Sbjct: 3 NFYSLLGVSKTASSREIRQAFKKLALKLHPDKNPNNPNAHGDFLKINRAYEVLKDEDLRK 62
Query: 313 AYD 315
YD
Sbjct: 63 KYD 65
>2dn9_A DNAJ homolog subfamily A member 3; J-domain, TID1, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 79
Score = 74.2 bits (183), Expect = 8e-17
Identities = 28/63 (44%), Positives = 39/63 (61%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D Y +L + + S+++I+ AY + A K HPD N DD KA E F L++A EVL D+ R
Sbjct: 8 DYYQILGVPRNASQKEIKKAYYQLAKKYHPDTNKDDPKAKEKFSQLAEAYEVLSDEVKRK 67
Query: 313 AYD 315
YD
Sbjct: 68 QYD 70
>2l6l_A DNAJ homolog subfamily C member 24; DPH4, Zn-CSL, J-domain,
chaperone; NMR {Homo sapiens}
Length = 155
Score = 76.4 bits (188), Expect = 1e-16
Identities = 17/70 (24%), Positives = 33/70 (47%), Gaps = 6/70 (8%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDD------KKAIETFHLLSKAIEVLL 306
D Y +L + D++ Y+K L HPDK D ++ ++ F + +A ++L
Sbjct: 11 DWYSILGADPSANISDLKQKYQKLILMYHPDKQSTDVPAGTVEECVQKFIEIDQAWKILG 70
Query: 307 DKSARAAYDS 316
++ + YD
Sbjct: 71 NEETKREYDL 80
>2ej7_A HCG3 gene; HCG3 protein, DNAJ domain, NPPSFA, national project on
protein structural and functional analyses; NMR {Homo
sapiens}
Length = 82
Score = 73.8 bits (182), Expect = 1e-16
Identities = 29/64 (45%), Positives = 40/64 (62%), Gaps = 1/64 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIET-FHLLSKAIEVLLDKSAR 311
D Y +L++ S + I+ AYRK ALK HPDKNP++K+ E F +++A EVL D R
Sbjct: 10 DYYEVLDVPRQASSEAIKKAYRKLALKWHPDKNPENKEEAERRFKQVAEAYEVLSDAKKR 69
Query: 312 AAYD 315
YD
Sbjct: 70 DIYD 73
>2o37_A Protein SIS1; HSP40, J-domain, cochaperone, APC90055.5, structural
genomics, PSI-2, protein structure initiative; 1.25A
{Saccharomyces cerevisiae}
Length = 92
Score = 74.3 bits (183), Expect = 1e-16
Identities = 30/73 (41%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Query: 243 SSIMADIKDLDLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAI 302
S+ M K+ LY LL ++ +EQ+++ YRK ALK HPDK D E F +S+A
Sbjct: 1 SNAMV--KETKLYDLLGVSPSANEQELKKGYRKAALKYHPDKPTGDT---EKFKEISEAF 55
Query: 303 EVLLDKSARAAYD 315
E+L D R YD
Sbjct: 56 EILNDPQKREIYD 68
>2dmx_A DNAJ homolog subfamily B member 8; DNAJ J domain, helix-turn-helix
motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 74.3 bits (183), Expect = 1e-16
Identities = 31/64 (48%), Positives = 42/64 (65%), Gaps = 1/64 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIET-FHLLSKAIEVLLDKSAR 311
+ Y +L + S +DI+ AYRK AL+ HPDKNPD+K+ E F L+S+A EVL D R
Sbjct: 10 NYYEVLGVQASASPEDIKKAYRKLALRWHPDKNPDNKEEAEKKFKLVSEAYEVLSDSKKR 69
Query: 312 AAYD 315
+ YD
Sbjct: 70 SLYD 73
>1hdj_A Human HSP40, HDJ-1; molecular chaperone; NMR {Homo sapiens} SCOP:
a.2.3.1
Length = 77
Score = 72.2 bits (178), Expect = 4e-16
Identities = 25/63 (39%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D Y L L S+++I+ AYR++AL+ HPDKN + A E F +++A +VL D R
Sbjct: 4 DYYQTLGLARGASDEEIKRAYRRQALRYHPDKNK-EPGAEEKFKEIAEAYDVLSDPRKRE 62
Query: 313 AYD 315
+D
Sbjct: 63 IFD 65
>2ctr_A DNAJ homolog subfamily B member 9; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 88
Score = 70.4 bits (173), Expect = 2e-15
Identities = 23/63 (36%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
Y +L + SE+ I+ A+ K A+K HPDKN A F +++A E L D + R
Sbjct: 8 SYYDILGVPKSASERQIKKAFHKLAMKYHPDKNK-SPDAEAKFREIAEAYETLSDANRRK 66
Query: 313 AYD 315
YD
Sbjct: 67 EYD 69
>2och_A Hypothetical protein DNJ-12; HSP40, J-domain, chaperone,
APC90013.2, structural genomics, protein structure
initiative; 1.86A {Caenorhabditis elegans} PDB: 2lo1_A
Length = 73
Score = 68.8 bits (169), Expect = 6e-15
Identities = 32/73 (43%), Positives = 43/73 (58%), Gaps = 5/73 (6%)
Query: 243 SSIMADIKDLDLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAI 302
S+ M K+ Y +L + D S+ +++ AYRK ALK HPDKNPD E F +S+A
Sbjct: 1 SNAMV--KETGYYDVLGVKPDASDNELKKAYRKMALKFHPDKNPD---GAEQFKQISQAY 55
Query: 303 EVLLDKSARAAYD 315
EVL D+ R YD
Sbjct: 56 EVLSDEKKRQIYD 68
>2ctp_A DNAJ homolog subfamily B member 12; J-domain, chaperone,
helix-turn-helix, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 78
Score = 67.3 bits (165), Expect = 2e-14
Identities = 25/63 (39%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D Y +L ++ S++D++ AYR+ ALK HPDKN A E F + A VL + R
Sbjct: 8 DYYEILGVSRGASDEDLKKAYRRLALKFHPDKNH-APGATEAFKAIGTAYAVLSNPEKRK 66
Query: 313 AYD 315
YD
Sbjct: 67 QYD 69
>1iur_A KIAA0730 protein; DNAJ like domain, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, unknown function; NMR {Homo sapiens} SCOP:
a.2.3.1
Length = 88
Score = 67.4 bits (165), Expect = 3e-14
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKK-AIETFHLLSKAIEVLLDKSAR 311
++ ++E E + + R+ LK HPDKNP++ A E F L I L +
Sbjct: 17 EVTSVVEQAWKLPESERKKIIRRLYLKWHPDKNPENHDIANEVFKHLQNEINRL---EKQ 73
Query: 312 AAYD 315
A D
Sbjct: 74 AFLD 77
>2cug_A Mkiaa0962 protein; DNAJ-like domain, structural genomics, molecular
chaperone, NPPSFA; NMR {Mus musculus}
Length = 88
Score = 67.0 bits (164), Expect = 3e-14
Identities = 26/63 (41%), Positives = 38/63 (60%), Gaps = 1/63 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D Y +L ++ S+ DI+ AY+K A + HPDKN D A + F +SKA E+L ++ R
Sbjct: 18 DPYRVLGVSRTASQADIKKAYKKLAREWHPDKNK-DPGAEDRFIQISKAYEILSNEEKRT 76
Query: 313 AYD 315
YD
Sbjct: 77 NYD 79
>3apo_A DNAJ homolog subfamily C member 10; PDI family, thioredoxin,
endoplasmic reticulum, oxidoreducta; 2.40A {Mus
musculus}
Length = 780
Score = 73.6 bits (180), Expect = 5e-14
Identities = 29/74 (39%), Positives = 43/74 (58%)
Query: 242 LSSIMADIKDLDLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKA 301
S + D + Y LL ++ S ++IR A++K ALK HPDKNP++ A F +++A
Sbjct: 11 SSGHIEGRHDQNFYSLLGVSKTASSREIRQAFKKLALKLHPDKNPNNPNAHGDFLKINRA 70
Query: 302 IEVLLDKSARAAYD 315
EVL D+ R YD
Sbjct: 71 YEVLKDEDLRKKYD 84
>2qsa_A DNAJ homolog DNJ-2; J-domain, HSP40, APC90001.8, structural
genomics, PSI-2, Pro structure initiative; 1.68A
{Caenorhabditis elegans}
Length = 109
Score = 66.7 bits (163), Expect = 8e-14
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 253 DLYGLLELTID-CSEQDIRSAYRKKALKCHPDKNPDDKK---AIETFHLLSKAIEVLLDK 308
+ Y +LE+ + +Q + AYR A K HPD+ + ++ A E F +++ A E L D
Sbjct: 16 NCYDVLEVNREEFDKQKLAKAYRALARKHHPDRVKNKEEKLLAEERFRVIATAYETLKDD 75
Query: 309 SARAAYD 315
A+ YD
Sbjct: 76 EAKTNYD 82
>1wjz_A 1700030A21RIK protein; J-domain, DNAJ like protein, structural
genomics, riken structural genomics/proteomics
initiative, RSGI, chaperone; NMR {Mus musculus} SCOP:
a.2.3.1
Length = 94
Score = 65.9 bits (161), Expect = 9e-14
Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 246 MADIKDLDLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDD------KKAIETFHLLS 299
+ D Y +L + D++ Y+K L HPDK D ++ ++ F +
Sbjct: 10 LEQTLKKDWYSILGADPSANMSDLKQKYQKLILLYHPDKQSADVPAGTMEECMQKFIEID 69
Query: 300 KAIEVLLDKSARAAYD 315
+A ++L ++ + YD
Sbjct: 70 QAWKILGNEETKKKYD 85
>2pf4_E Small T antigen; PP2A, SV40, DNAJ, aalpha subunit, hydrolase
regulat protein complex; 3.10A {Simian virus 40} PDB:
2pkg_C
Length = 174
Score = 66.1 bits (161), Expect = 6e-13
Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 253 DLYGLLELTIDC--SEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSA 310
L LL L + +R AY KK + HPDK D++K ++ + + D
Sbjct: 12 QLMDLLGLERSAWGNIPLMRKAYLKKCKEFHPDKGGDEEK----MKKMNTLYKKMEDGVK 67
Query: 311 RAAYD 315
A
Sbjct: 68 YAHQP 72
>3lz8_A Putative chaperone DNAJ; structure genomics, structural genomics,
PSI-2, protein STRU initiative; 2.90A {Klebsiella
pneumoniae subsp} PDB: 2kqx_A
Length = 329
Score = 68.8 bits (169), Expect = 6e-13
Identities = 24/63 (38%), Positives = 35/63 (55%), Gaps = 1/63 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D Y +L + + I++AYR+ A K HPD + + A F L++A EVL D+ RA
Sbjct: 29 DYYAILGVQPTDDLKTIKTAYRRLARKYHPDVSK-ENDAEAKFKDLAEAWEVLKDEQRRA 87
Query: 313 AYD 315
YD
Sbjct: 88 EYD 90
>2ys8_A RAB-related GTP-binding protein RABJ; DNAJ domain, RAS-associated
protein RAP1, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 90
Score = 63.2 bits (154), Expect = 8e-13
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 1/63 (1%)
Query: 253 DLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARA 312
D + +L + S ++ AYRK A+ HPDK + + F + A LL
Sbjct: 28 DSWDMLGVKPGASRDEVNKAYRKLAVLLHPDKCV-APGSEDAFKAVVNARTALLKNIKSG 86
Query: 313 AYD 315
Sbjct: 87 PSS 89
>1gh6_A Large T antigen; tumor suppressor, oncoprotein, antitumor protein;
3.20A {Simian virus 40} SCOP: a.2.3.1
Length = 114
Score = 62.1 bits (151), Expect = 3e-12
Identities = 17/65 (26%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 253 DLYGLLELTIDC--SEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSA 310
L LL L + +R AY KK + HPDK D++K ++ + + D
Sbjct: 9 QLMDLLGLERSAWGNIPLMRKAYLKKCKEFHPDKGGDEEK----MKKMNTLYKKMEDGVK 64
Query: 311 RAAYD 315
A
Sbjct: 65 YAHQP 69
>3hho_A CO-chaperone protein HSCB homolog; structural genomics, IDP01304,
center for structural genomics of infectious diseases,
CSGI; 2.15A {Vibrio cholerae}
Length = 174
Score = 59.6 bits (144), Expect = 1e-10
Identities = 25/157 (15%), Positives = 54/157 (34%), Gaps = 14/157 (8%)
Query: 250 KDLDLYGLLEL--TIDCSEQDIRSAYRKKALKCHPDKNPDD-----KKAIETFHLLSKAI 302
++ + L L + + S +R + HPD A++ ++ A
Sbjct: 2 NAMNYFELFGLPIQFELDGSLLSSQFRALQKRFHPDNFATASERDRLMAVQQAAQINDAY 61
Query: 303 EVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKS 362
+ L D RA Y ++ E + + D E +E RE+ ++
Sbjct: 62 QTLKDPLRRAEYLLSLQGIEMNAEQQTLQDP--MFLMEQMELREELESVTACAD---PEA 116
Query: 363 EEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKEL 399
++ +++ +LQ ++ E AA +
Sbjct: 117 ALVAFDTKVTAMQRHYLAQLQGQLA--QSEWLAAADQ 151
>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic
reticulum, protein folding, tetratricopeptiderepeat, J
domain, unfolded protein respons; 3.00A {Homo sapiens}
PDB: 2y4u_A
Length = 450
Score = 62.4 bits (152), Expect = 1e-10
Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 250 KDLDLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDD---KKAIETFHLLSKAIEVLL 306
+ D Y +L + + +Q+I AYRK AL+ HPD ++ KKA + F ++ A EVL
Sbjct: 380 QKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLS 439
Query: 307 DKSARAAYDS 316
D R +D
Sbjct: 440 DPEMRKKFDD 449
>1fpo_A HSC20, chaperone protein HSCB; molecular chaperone; 1.80A
{Escherichia coli} SCOP: a.2.3.1 a.23.1.1
Length = 171
Score = 59.2 bits (143), Expect = 1e-10
Identities = 28/155 (18%), Positives = 59/155 (38%), Gaps = 15/155 (9%)
Query: 252 LDLYGLLEL--TIDCSEQDIRSAYRKKALKCHPDKNPDD-----KKAIETFHLLSKAIEV 304
+D + L L Q + ++ + HPDK A++ +++A +
Sbjct: 1 MDYFTLFGLPARYQLDTQALSLRFQDLQRQYHPDKFASGSQAEQLAAVQQSATINQAWQT 60
Query: 305 LLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEE 364
L RA Y + + +++ D E LE RE+ E E+ K +++
Sbjct: 61 LRHPLMRAEYLLSLHGFDLASEQHTVRDT--AFLMEQLELREELDEIEQAK----DEARL 114
Query: 365 EILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKEL 399
E + + ++ + E++ E +AA +
Sbjct: 115 ESFIKRVKKMFDTRHQLMVEQLD--NETWDAAADT 147
>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 = 61.4 bits (148), Expect = 5e-10
Identities = 79/529 (14%), Positives = 151/529 (28%), Gaps = 165/529 (31%)
Query: 14 LNAKLNPENY-----RLRIRWKSSSTDTDVY--TRESL---TKIFSKYGKINILVISPKK 63
+ L NY ++ + S T +Y R+ L ++F+KY N+
Sbjct: 83 VEEVLRI-NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY---NV------S 132
Query: 64 RGSALLEFEHADSARRAKLYEL---------GLPNC---PLTLNYLNPDVEREESRK-QP 110
R L+ R L EL G+ + L DV + +
Sbjct: 133 RLQPYLKL-------RQALLELRPAKNVLIDGVLGSGKTWVAL-----DVCLSYKVQCKM 180
Query: 111 KNPVFSNIDFSGPRDSDSKNVESSNGSDSDSTPNLFPSANKSSNIFPSADKSSNLFPTAD 170
+F ++ +S +E PN ++ SSNI +
Sbjct: 181 DFKIFW-LNL-KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI------KLRIHSIQA 232
Query: 171 KSSHLFPIADKSSNLFPSA----D--KSSNI---FSSSSK----PRNVFPSGLFPSANVS 217
+ L S + + +++ F+ S K R V+
Sbjct: 233 ELRRLL-----KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF---------KQVT 278
Query: 218 SNIFASSDRTLPEPHISWSFPAIPLSSIMADIKDLDLYGLLELTIDCSEQDIRSAYRKKA 277
+ A++ + H S + D ++ LL +DC QD+ ++
Sbjct: 279 DFLSAATTTHISLDHHSMTL-----------TPD-EVKSLLLKYLDCRPQDL----PREV 322
Query: 278 LKCHP-------DKNPDDKKAIETF---------HLLSKAIEVLLDKSARAAYD--SVIR 319
L +P + D + + ++ ++ VL R +D SV
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP 382
Query: 320 RKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGS 379
I L D+ + + VNK + L +++ KE +
Sbjct: 383 --PSAHIPTILL----SLIWFDVIKSDVMVV--------VNKLHKYSL---VEKQPKEST 425
Query: 380 IRLQEEIKLMTEELNAAKELSELNAKLNPENYRLRIRWKS---SSTDTDVYTRESLTKIF 436
I + + E + L+ + ++Y + + S D Y +
Sbjct: 426 ISIPS---IYLELKVKLENEYALHRSI-VDHYNIPKTFDSDDLIPPYLDQY-------FY 474
Query: 437 SKYGKINILVISPKKRGSALLEFEHADSARRAKLYELGLPNCPLTLNYL 485
S G H + + L L +L
Sbjct: 475 SHIGH-------------------HLKNIEHPERMTL-FRMVFLDFRFL 503
Score = 50.2 bits (119), Expect = 1e-06
Identities = 37/260 (14%), Positives = 83/260 (31%), Gaps = 47/260 (18%)
Query: 249 IKDLDLYGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDK 308
+ + D + ++ +S K+ + H + D + L LL K
Sbjct: 30 VDNFDCKDVQDMP--------KSILSKEEID-HIIMSKDA---VSGTLRL---FWTLLSK 74
Query: 309 SARAAY---DSVIRR-----KEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVN 360
+ V+R +K + + + E +R +N+ + Y V+
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN--DNQVFAKYNVS 132
Query: 361 KSEEEI-LQQEIDRLRKEGSIRLQEEI---K--LMTEELNAAKELSELNAKLNPENYRLR 414
+ + + L+Q + LR ++ + + K + + + K +++ K
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK--------- 183
Query: 415 IRW-KSSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYEL 473
I W + ++ E L K+ + + L + R L
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDP--NWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 474 GLPNCPLTLNYLNPDVEREE 493
NC L L +V+ +
Sbjct: 242 PYENCLLVLL----NVQNAK 257
>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 = 59.3 bits (143), Expect = 2e-09
Identities = 54/345 (15%), Positives = 96/345 (27%), Gaps = 105/345 (30%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYELGLPNCPLTL 94
+TD Y E L ++ Y ++LV K + L + K++ GL
Sbjct: 165 NTDDYFEE-LRDLYQTY---HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL------- 213
Query: 95 NYLNPDVER--EESRKQPKNPVFSNIDFSGP----------------RDSDSKNVESSNG 136
++ E P +I S P + S
Sbjct: 214 -----NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Query: 137 SDSDSTPNLFPSANKSSNIFPSADKSSNLFPTADKSSH-LFPIADKSSNLFPSADKSSNI 195
+ + L + D + F + K+ LF I + +P+ +I
Sbjct: 269 GATGHSQGLVTAV-----AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 196 FSSSSKPRNVFPS------GLFPSANVSSNIFASSDRTLPE-PHISWS-------F---- 237
S + PS L V + ++ LP + S
Sbjct: 324 LEDSLENNEGVPSPMLSISNL-TQEQVQDYV-NKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 238 PAIPLSSIMADIKDLDLYGLLELTIDCSEQDIRSAYRKKALKCHPDKN----PDDKKAIE 293
P P S LYGL RK K + P ++ ++
Sbjct: 382 P--PQS----------LYGL------------NLTLRK--AKAPSGLDQSRIPFSERKLK 415
Query: 294 T----------FH--LLSKAIEVLLDKSARAAYDSVIRRKEEVKI 326
FH LL A +++ ++V ++++I
Sbjct: 416 FSNRFLPVASPFHSHLLVPASDLINK---DLVKNNVSFNAKDIQI 457
Score = 45.0 bits (106), Expect = 6e-05
Identities = 34/224 (15%), Positives = 71/224 (31%), Gaps = 65/224 (29%)
Query: 335 RKKFKEDLER--REKEAENE---------RYKGY---KVNKSE----EEILQQEIDRLRK 376
+++F + L A++E ++ GY V S+ +++L +
Sbjct: 34 QEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF-- 91
Query: 377 EGSIRLQEEIKLMTEELNAAKELSELNAKLNPENY---RLRIR-----------WKSSST 422
E +I + +L + + + K +NY R+ + +++
Sbjct: 92 ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE 151
Query: 423 -------------DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
+TD Y E L ++ Y ++LV K + L + K
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEE-LRDLYQTY---HVLVGDLIKFSAETLSELIRTTLDAEK 207
Query: 470 LYELGLPNCPLTLNYLNPDVER--EESRKQPKNPVFSNIDFSGP 511
++ GL ++ E P +I S P
Sbjct: 208 VFTQGL------------NILEWLENPSNTPDKDYLLSIPISCP 239
Score = 37.3 bits (86), Expect = 0.015
Identities = 26/149 (17%), Positives = 42/149 (28%), Gaps = 64/149 (42%)
Query: 378 GSIRLQEEIKLMTEEL----NAAKELSELNAKLNPENYRLRIRWKSSSTDTDVYTRESLT 433
GS QE + M +L AA+++ W D + ++
Sbjct: 1625 GS---QE--QGMGMDLYKTSKAAQDV-----------------WN----RADNHFKD--- 1655
Query: 434 KIFSKYGKINILVI---SPKKRGSALLEFEHADSARRAKLYELGLPNCPLTLNYLNPDVE 490
YG +IL I +P L H + ++ E NY E
Sbjct: 1656 ----TYG-FSILDIVINNPVN-----LTI-HFGGEKGKRIRE----------NYSAMIFE 1694
Query: 491 REESRKQPKNPVFSNID-------FSGPR 512
K +F I+ F +
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTFRSEK 1723
Score = 36.6 bits (84), Expect = 0.025
Identities = 22/139 (15%), Positives = 37/139 (26%), Gaps = 59/139 (42%)
Query: 1 MTEEL----NAAKELSELNAKLNPENYRLRIRWKSSSTDTDVYTRESLTKIFSKYGKINI 56
M +L AA+++ W D + ++ YG +I
Sbjct: 1631 MGMDLYKTSKAAQDV-----------------WN----RADNHFKD-------TYG-FSI 1661
Query: 57 LVI---SPKKRGSALLEFEHADSARRAKLYELGLPNCPLTLNYLNPDVEREESRKQPKNP 113
L I +P L H + ++ E NY E K
Sbjct: 1662 LDIVINNPVN-----LTI-HFGGEKGKRIRE----------NYSAMIFETIVDGKLKTEK 1705
Query: 114 VFSNID-------FSGPRD 125
+F I+ F +
Sbjct: 1706 IFKEINEHSTSYTFRSEKG 1724
Score = 34.3 bits (78), Expect = 0.12
Identities = 61/398 (15%), Positives = 113/398 (28%), Gaps = 149/398 (37%)
Query: 173 SHLFPIADKSSNLFPSADKSSNIFSSS-SKPRNVFPSGLFPSANVSSNIFAS-----SDR 226
H+ + + F A + F+ +P F + P+ + S
Sbjct: 17 EHVLLV---PTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE--LVGKFLGYVSSL 71
Query: 227 TLPEPHISWSFPAIPLSSIMA----------DIKDL--DLYGLLELTIDCSEQDIRSAYR 274
EP F + L+ + DI L L + T+ +++ I++
Sbjct: 72 V--EPSKVGQFDQV-LNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 275 KKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSAR-----------AAYDSVIRRKEE 323
+ + P + L +A+ + +A+ Y
Sbjct: 129 ARIMAKRPFDKKSN-------SALFRAVG---EGNAQLVAIFGGQGNTDDY--------- 169
Query: 324 VKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQ 383
F+E L + Y+ Y V +
Sbjct: 170 --------------FEE-LR--------DLYQTYHVL---------------------VG 185
Query: 384 EEIKLMTEELNAAKELSELNA---KLNPENYRLRIRW---KSSSTDTDVYTRE---SLTK 434
+ IK E L+ EL K+ + + + W S++ D D Y S
Sbjct: 186 DLIKFSAETLS---ELIRTTLDAEKVFTQGLNI-LEWLENPSNTPDKD-YLLSIPISCPL 240
Query: 435 I----FSKYGKI-NILVISPKK-----RG---------SALLEFEHADS-------ARRA 468
I + Y +L +P + +G +A+ DS R+A
Sbjct: 241 IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA-IAETDSWESFFVSVRKA 299
Query: 469 --KLYELGL------PNCPLTLNYLNPDVEREESRKQP 498
L+ +G+ PN L + L +E E P
Sbjct: 300 ITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSP 337
>1faf_A Large T antigen; J domain, HPD motif, anti-parallel hairpin of
helices, viral protein; NMR {Murine polyomavirus} SCOP:
a.2.3.1
Length = 79
Score = 51.1 bits (122), Expect = 1e-08
Identities = 12/73 (16%), Positives = 25/73 (34%), Gaps = 6/73 (8%)
Query: 245 IMADIKDLDLYGLLELTIDC--SEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAI 302
+++ L LL+L ++ AY++++L HPDK L+
Sbjct: 4 VLSRADKERLLELLKLPRQLWGDFGRMQQAYKQQSLLLHPDKGGSH----ALMQELNSLW 59
Query: 303 EVLLDKSARAAYD 315
+ +
Sbjct: 60 GTFKTEVYNLRMN 72
>3uo3_A J-type CO-chaperone JAC1, mitochondrial; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG,
J-protein; 1.85A {Saccharomyces cerevisiae} PDB: 3uo2_A
Length = 181
Score = 51.1 bits (122), Expect = 9e-08
Identities = 22/142 (15%), Positives = 55/142 (38%), Gaps = 19/142 (13%)
Query: 263 DCSEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARAAYDSVIRR-- 320
+ +R YR+ + HPD E L++A L D R+ Y + R
Sbjct: 29 TIDQSRLRKEYRQLQAQHHPDMAQQ---GSEQSSTLNQAYHTLKDPLRRSQYMLKLLRNI 85
Query: 321 ---KEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKE 377
+E+ + D + L+ ++ ++ + +++ ++L+++ ++
Sbjct: 86 DLTQEQTSNEVTTSDPQ--LLLKVLDIHDELSQMD-------DEAGVKLLEKQNKERIQD 136
Query: 378 GSIRLQEEIKLMTEELNAAKEL 399
+L + ++ AA +L
Sbjct: 137 IEAQLGQCYN--DKDYAAAVKL 156
>3bvo_A CO-chaperone protein HSCB, mitochondrial precurso; structural
genomics medical relev protein structure initiative,
PSI-2; 3.00A {Homo sapiens}
Length = 207
Score = 47.8 bits (113), Expect = 2e-06
Identities = 26/157 (16%), Positives = 60/157 (38%), Gaps = 18/157 (11%)
Query: 250 KDLDLYGLLEL--TIDCSEQDIRSAYRKKALKCHPDKNPDD-----KKAIETFHLLSKAI 302
D + L++ + ++ Y++ HPD + + L++ A
Sbjct: 41 PTRDYFSLMDCNRSFRVDTAKLQHRYQQLQRLVHPDFFSQRSQTEKDFSEKHSTLVNDAY 100
Query: 303 EVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKS 362
+ LL +R Y + E + + ++D E +E EK AE E +++
Sbjct: 101 KTLLAPLSRGLYLLKLHGIEIPERTDYEMDRQF--LIEIMEINEKLAEAE-------SEA 151
Query: 363 EEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKEL 399
+ ++ + +KE + + + ++ AKE+
Sbjct: 152 AMKEIESIVKAKQKEFTDNVSSAFE--QDDFEEAKEI 186
>1n4c_A Auxilin; four helix bundle, protein binding; NMR {Bos taurus} SCOP:
a.2.3.1 PDB: 1xi5_J
Length = 182
Score = 46.4 bits (109), Expect = 5e-06
Identities = 13/63 (20%), Positives = 25/63 (39%), Gaps = 3/63 (4%)
Query: 255 YGLLELTIDCSEQDIRSAYRKKALKCHPDKNPDD---KKAIETFHLLSKAIEVLLDKSAR 311
+ + + + + ++ YRK L HPDK + A F L+ A ++ +
Sbjct: 120 WKPVGMADLVTPEQVKKVYRKAVLVVHPDKATGQPYEQYAKMIFMELNDAWSEFENQGQK 179
Query: 312 AAY 314
Y
Sbjct: 180 PLY 182
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 45.9 bits (108), Expect = 6e-06
Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 9/65 (13%)
Query: 317 VIRR-KEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGY--------KVNKSEEEIL 367
IR+ +EE + R +LDA K +++ + K+ E + N+ ++
Sbjct: 86 SIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAF 145
Query: 368 QQEID 372
Q+ D
Sbjct: 146 YQQPD 150
Score = 32.1 bits (72), Expect = 0.27
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 8/54 (14%)
Query: 362 SEEEILQQEIDRLRK---EGSIRLQE---EIKLMTEEL--NAAKELSELNAKLN 407
++ + L QE + +RK E RLQE K+M +E A K+L E N + +
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQS 128
Score = 30.1 bits (67), Expect = 1.0
Identities = 19/98 (19%), Positives = 41/98 (41%), Gaps = 22/98 (22%)
Query: 312 AAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERR--EKEAENERYKGYKVNKSEEEILQQ 369
A D + +E IR K++E+ +R E +A ++ + K+++++ +
Sbjct: 75 AQADRL--TQEPESIR---------KWREEQRKRLQELDAASKVMEQEWREKAKKDL--E 121
Query: 370 EIDRLRKEGSIRLQEEIKLMTEELNAAKE-LSELNAKL 406
E ++ + E Q E K A K + +A +
Sbjct: 122 EWNQRQSE-----QVE-KNKINNRIADKAFYQQPDADI 153
>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 124
Score = 43.9 bits (103), Expect = 1e-05
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYELGLP----NCPLTLN 95
T + L + + GK+ +VI + A++EFE A++AK G C L +
Sbjct: 38 TVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIE 97
Query: 96 YLNPD 100
Y P
Sbjct: 98 YARPT 102
Score = 43.9 bits (103), Expect = 1e-05
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYELGLP----NCPLTLN 483
T + L + + GK+ +VI + A++EFE A++AK G C L +
Sbjct: 38 TVDVLYTVCNPVGKVQRIVIFKRNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIE 97
Query: 484 YLNPD 488
Y P
Sbjct: 98 YARPT 102
>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like,
structural genomics, joint center for struc genomics,
JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A
Length = 205
Score = 45.5 bits (107), Expect = 1e-05
Identities = 18/123 (14%), Positives = 38/123 (30%), Gaps = 2/123 (1%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYELGLP--NCPL 92
D + + +F YG + + K G+A++E + RA + +
Sbjct: 13 DQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKM 72
Query: 93 TLNYLNPDVEREESRKQPKNPVFSNIDFSGPRDSDSKNVESSNGSDSDSTPNLFPSANKS 152
+ ++ S DFS R++ E + + N+ N
Sbjct: 73 NVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAP 132
Query: 153 SNI 155
+
Sbjct: 133 LEV 135
Score = 42.8 bits (100), Expect = 8e-05
Identities = 15/92 (16%), Positives = 29/92 (31%), Gaps = 2/92 (2%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYELGLP--NCPL 480
D + + +F YG + + K G+A++E + RA + +
Sbjct: 13 DQSKMNCDRVFNVFCLYGNVEKVKFMKSKPGAAMVEMADGYAVDRAITHLNNNFMFGQKM 72
Query: 481 TLNYLNPDVEREESRKQPKNPVFSNIDFSGPR 512
+ ++ S DFS R
Sbjct: 73 NVCVSKQPAIMPGQSYGLEDGSCSYKDFSESR 104
Score = 35.8 bits (82), Expect = 0.020
Identities = 9/46 (19%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T E+ +I + G + ++ S LLE++ A
Sbjct: 136 TEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALET 181
Score = 35.8 bits (82), Expect = 0.020
Identities = 9/46 (19%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T E+ +I + G + ++ S LLE++ A
Sbjct: 136 TEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALET 181
>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA
splicing, adenine, mRNA processing, nucleus,
phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo
sapiens} PDB: 2f9d_A 2f9j_A 2fho_B
Length = 115
Score = 42.7 bits (101), Expect = 2e-05
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 4/76 (5%)
Query: 40 TRESLTKIFSKYGKIN--ILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTLN 95
T E + IF KYG I + +P+ RG+A + +E A+ A L + N L +
Sbjct: 21 TAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVL 80
Query: 96 YLNPDVEREESRKQPK 111
Y N + ++ + K
Sbjct: 81 YYNANRAFQKMDTKKK 96
Score = 42.7 bits (101), Expect = 2e-05
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 4/76 (5%)
Query: 428 TRESLTKIFSKYGKIN--ILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTLN 483
T E + IF KYG I + +P+ RG+A + +E A+ A L + N L +
Sbjct: 21 TAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVL 80
Query: 484 YLNPDVEREESRKQPK 499
Y N + ++ + K
Sbjct: 81 YYNANRAFQKMDTKKK 96
>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A
Length = 229
Score = 44.6 bits (105), Expect = 3e-05
Identities = 23/101 (22%), Positives = 40/101 (39%), Gaps = 5/101 (4%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 92
+ + T +SL +F YG + + I K+ +AL++ + A+ A L L P+
Sbjct: 43 NPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPI 102
Query: 93 TLNYL---NPDVEREESRKQPKNPVFSNIDFSGPRDSDSKN 130
+ N + RE Q + N + SKN
Sbjct: 103 RITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKN 143
Score = 43.8 bits (103), Expect = 5e-05
Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 5/88 (5%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 480
+ + T +SL +F YG + + I K+ +AL++ + A+ A L L P+
Sbjct: 43 NPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPI 102
Query: 481 TLNYL---NPDVEREESRKQPKNPVFSN 505
+ N + RE Q + N
Sbjct: 103 RITLSKHQNVQLPREGQEDQGLTKDYGN 130
Score = 38.4 bits (89), Expect = 0.003
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKKRGSALLEFEHADSARRAKL----YELGLPNCPLTL 94
+ E L +FS G + K R AL++ + A +A + ++LG N L +
Sbjct: 164 SEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLG-ENHHLRV 222
Query: 95 NY 96
++
Sbjct: 223 SF 224
Score = 38.4 bits (89), Expect = 0.003
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKKRGSALLEFEHADSARRAKL----YELGLPNCPLTL 482
+ E L +FS G + K R AL++ + A +A + ++LG N L +
Sbjct: 164 SEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLG-ENHHLRV 222
Query: 483 NY 484
++
Sbjct: 223 SF 224
>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
2adb_A
Length = 164
Score = 43.2 bits (101), Expect = 3e-05
Identities = 31/122 (25%), Positives = 46/122 (37%), Gaps = 28/122 (22%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRG-SALLEFEHADSARRAKLYELGLP--NCPLTLNY 96
T + L +IFSK+G + ++ K ALL++ SA+ AKL G N TL
Sbjct: 59 TLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTL-- 116
Query: 97 LNPDVEREESRKQPKNPVFSNIDFSGPRDSDSKNVESSNGSDSDSTPNLFPSANKSSNIF 156
IDFS NV+ +N D T PS + ++
Sbjct: 117 --------------------RIDFSKLTS---LNVKYNNDKSRDYTRPDLPSGDSQPSLD 153
Query: 157 PS 158
+
Sbjct: 154 QT 155
Score = 42.0 bits (98), Expect = 1e-04
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 5/66 (7%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRG-SALLEFEHADSARRAKLYELGLP----NCPLTL 482
T + L +IFSK+G + ++ K ALL++ SA+ AKL G C L +
Sbjct: 59 TLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRI 118
Query: 483 NYLNPD 488
++
Sbjct: 119 DFSKLT 124
>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA
recognition motif, vincu alpha-actinin, nucleus, RNA
binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E
Length = 284
Score = 44.2 bits (105), Expect = 4e-05
Identities = 17/137 (12%), Positives = 42/137 (30%), Gaps = 21/137 (15%)
Query: 1 MTEELNAAKELSELN-AKLNPENYRLRIRWKSSSTDTDVY--------TRESLTKIFSKY 51
+ A ++ + ++L L ++ TD + T++ ++ +
Sbjct: 64 LLNGEQAEAAINAFHQSRLR--ERELSVQL--QPTDALLCVANLPPSLTQQQFEELVRPF 119
Query: 52 GKINILVISP-----KKRGSALLEFEHADSARRA--KLYELGLPNCPLTLNYLNPDVERE 104
G + + + +G E+ DSA RA L L L +++ +
Sbjct: 120 GSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTP 179
Query: 105 ESRKQPKNPVFSNIDFS 121
+ +
Sbjct: 180 ALLHS-RCLCVDRLPPG 195
Score = 44.2 bits (105), Expect = 4e-05
Identities = 17/137 (12%), Positives = 42/137 (30%), Gaps = 21/137 (15%)
Query: 389 MTEELNAAKELSELN-AKLNPENYRLRIRWKSSSTDTDVY--------TRESLTKIFSKY 439
+ A ++ + ++L L ++ TD + T++ ++ +
Sbjct: 64 LLNGEQAEAAINAFHQSRLR--ERELSVQL--QPTDALLCVANLPPSLTQQQFEELVRPF 119
Query: 440 GKINILVISP-----KKRGSALLEFEHADSARRA--KLYELGLPNCPLTLNYLNPDVERE 492
G + + + +G E+ DSA RA L L L +++ +
Sbjct: 120 GSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTP 179
Query: 493 ESRKQPKNPVFSNIDFS 509
+ +
Sbjct: 180 ALLHS-RCLCVDRLPPG 195
Score = 32.6 bits (75), Expect = 0.24
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 4/50 (8%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISP----KKRGSALLEFEHADSARRA 80
++L + S ++ + +G A+LE+E A+ A A
Sbjct: 193 PPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEA 242
Score = 32.6 bits (75), Expect = 0.24
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 4/50 (8%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISP----KKRGSALLEFEHADSARRA 468
++L + S ++ + +G A+LE+E A+ A A
Sbjct: 193 PPGFNDVDALCRALSAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEA 242
Score = 32.6 bits (75), Expect = 0.24
Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 12/74 (16%)
Query: 18 LNPENYRLRIRW--KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSA 67
L+PE R R+ + + T + + + S Y V K +G+A
Sbjct: 3 LDPEEIRKRLEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDYELKYCFVD--KYKGTA 60
Query: 68 LLEFEHADSARRAK 81
+ + + A A
Sbjct: 61 FVTLLNGEQAEAAI 74
Score = 32.6 bits (75), Expect = 0.24
Identities = 14/74 (18%), Positives = 26/74 (35%), Gaps = 12/74 (16%)
Query: 406 LNPENYRLRIRW--KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSA 455
L+PE R R+ + + T + + + S Y V K +G+A
Sbjct: 3 LDPEEIRKRLEHTERQFRNRRKILIRGLPGDVTNQEVHDLLSDYELKYCFVD--KYKGTA 60
Query: 456 LLEFEHADSARRAK 469
+ + + A A
Sbjct: 61 FVTLLNGEQAEAAI 74
>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition
motif, RRM, RNA binding domain, RBD, RNP, structural
genomics; NMR {Mus musculus} SCOP: d.58.7.1
Length = 97
Score = 41.5 bits (98), Expect = 5e-05
Identities = 10/42 (23%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 81
+ +L + F ++G I + K A +++E D+A+ A
Sbjct: 30 SLAALAREFDRFGSIRTIDH-VKGDSFAYIQYESLDAAQAAC 70
Score = 41.5 bits (98), Expect = 5e-05
Identities = 10/42 (23%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
+ +L + F ++G I + K A +++E D+A+ A
Sbjct: 30 SLAALAREFDRFGSIRTIDH-VKGDSFAYIQYESLDAAQAAC 70
>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA,
spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1
d.58.7.1
Length = 198
Score = 43.3 bits (102), Expect = 5e-05
Identities = 21/115 (18%), Positives = 40/115 (34%), Gaps = 5/115 (4%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 92
+ + T +SL +F YG + + I K+ +AL++ + A+ A L L P+
Sbjct: 12 NPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPI 71
Query: 93 TLNYLNPDVEREESRKQPKNPVFSNIDFSGPRDSDSKNVESSNGSDSDS-TPNLF 146
+ + Q + D+ K S N + + L
Sbjct: 72 RITLSKHQNVQLPREGQEDQGLTK--DYGNSPLHRFKKPGSKNFQNIFPPSATLH 124
Score = 42.2 bits (99), Expect = 1e-04
Identities = 12/46 (26%), Positives = 24/46 (52%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
+ + T +SL +F YG + + I K+ +AL++ + A+ A
Sbjct: 12 NPERVTPQSLFILFGVYGDVQRVKILFNKKENALVQMADGNQAQLA 57
Score = 36.8 bits (85), Expect = 0.008
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKKRGSALLEFEHADSARRAKL----YELGLPNCPLTL 94
+ E L +FS G + K R AL++ + A +A + ++LG N L +
Sbjct: 133 SEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLG-ENHHLRV 191
Query: 95 NY 96
++
Sbjct: 192 SF 193
Score = 36.8 bits (85), Expect = 0.008
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKKRGSALLEFEHADSARRAKL----YELGLPNCPLTL 482
+ E L +FS G + K R AL++ + A +A + ++LG N L +
Sbjct: 133 SEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLG-ENHHLRV 191
Query: 483 NY 484
++
Sbjct: 192 SF 193
>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and
splicing factor,...; protein-RNA complex RRM alpha-beta
sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR
{Streptococcus SP} PDB: 2i38_A
Length = 150
Score = 41.4 bits (97), Expect = 1e-04
Identities = 20/128 (15%), Positives = 44/128 (34%), Gaps = 5/128 (3%)
Query: 341 DLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKELS 400
L K + E + E++ +Q + +G + K T +
Sbjct: 4 KLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHH 63
Query: 401 ELNAKLNPENYRLRIRWKSSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFE 460
++ P + ++ + ++ + L + F YG + + ++ G A +EFE
Sbjct: 64 HMHRDSCPLDCKVYVGNLGNNG-----NKTELERAFGYYGPLRSVWVARNPPGFAFVEFE 118
Query: 461 HADSARRA 468
A A
Sbjct: 119 DPRDAADA 126
Score = 37.2 bits (86), Expect = 0.004
Identities = 11/41 (26%), Positives = 18/41 (43%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
+ L + F YG + + ++ G A +EFE A A
Sbjct: 86 NKTELERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADA 126
>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide
binding, RNA recognition motif; 1.40A {Homo sapiens}
PDB: 3zzz_A
Length = 130
Score = 41.2 bits (96), Expect = 1e-04
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 5/66 (7%)
Query: 40 TRESLTKIFSKYGKINILVISPKK-RGSALLEFEHADSARRAKLYELGLP----NCPLTL 94
T + L +IFSK+G + ++ K + ALL++ SA+ AKL G C L +
Sbjct: 41 TLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRI 100
Query: 95 NYLNPD 100
++
Sbjct: 101 DFSKLT 106
Score = 41.2 bits (96), Expect = 1e-04
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 5/66 (7%)
Query: 428 TRESLTKIFSKYGKINILVISPKK-RGSALLEFEHADSARRAKLYELGLP----NCPLTL 482
T + L +IFSK+G + ++ K + ALL++ SA+ AKL G C L +
Sbjct: 41 TLDVLHQIFSKFGTVLKIITFTKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRI 100
Query: 483 NYLNPD 488
++
Sbjct: 101 DFSKLT 106
>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 96
Score = 40.1 bits (94), Expect = 1e-04
Identities = 15/69 (21%), Positives = 28/69 (40%), Gaps = 4/69 (5%)
Query: 40 TRESLTKIFSKYGKIN--ILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTLN 95
E L + +YG + V + + + + D AR+A KL L N L +
Sbjct: 28 QWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVA 87
Query: 96 YLNPDVERE 104
Y+ ++ +
Sbjct: 88 YIPDEMAAQ 96
Score = 40.1 bits (94), Expect = 1e-04
Identities = 15/69 (21%), Positives = 28/69 (40%), Gaps = 4/69 (5%)
Query: 428 TRESLTKIFSKYGKIN--ILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTLN 483
E L + +YG + V + + + + D AR+A KL L N L +
Sbjct: 28 QWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVA 87
Query: 484 YLNPDVERE 492
Y+ ++ +
Sbjct: 88 YIPDEMAAQ 96
>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics,
RRM domain, riken structural genomics/proteomics
initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1
Length = 104
Score = 39.8 bits (93), Expect = 2e-04
Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 8/78 (10%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA----KLYELGLPNCPLTLN 95
L + K+G I +++ P KR AL+EFE+ DSA+ + + N
Sbjct: 28 VEADLVEALEKFGTICYVMMMPFKR-QALVEFENIDSAKECVTFAADVPVYIAGQQAFFN 86
Query: 96 YLNPDVEREESRKQPKNP 113
Y + +R P
Sbjct: 87 YSTS---KRITRPGNSGP 101
Score = 39.8 bits (93), Expect = 2e-04
Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 8/78 (10%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA----KLYELGLPNCPLTLN 483
L + K+G I +++ P KR AL+EFE+ DSA+ + + N
Sbjct: 28 VEADLVEALEKFGTICYVMMMPFKR-QALVEFENIDSAKECVTFAADVPVYIAGQQAFFN 86
Query: 484 YLNPDVEREESRKQPKNP 501
Y + +R P
Sbjct: 87 YSTS---KRITRPGNSGP 101
>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 39.9 bits (93), Expect = 2e-04
Identities = 12/67 (17%), Positives = 28/67 (41%), Gaps = 8/67 (11%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA-------KLYELGLPNCPL 92
+R L + K G ++ L++ P K + + + ++RA ++ + L
Sbjct: 40 SRNQLLPVLEKCGLVDALLMPPNK-PYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITL 98
Query: 93 TLNYLNP 99
LN++
Sbjct: 99 YLNFVEK 105
Score = 39.9 bits (93), Expect = 2e-04
Identities = 12/67 (17%), Positives = 28/67 (41%), Gaps = 8/67 (11%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA-------KLYELGLPNCPL 480
+R L + K G ++ L++ P K + + + ++RA ++ + L
Sbjct: 40 SRNQLLPVLEKCGLVDALLMPPNK-PYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITL 98
Query: 481 TLNYLNP 487
LN++
Sbjct: 99 YLNFVEK 105
>2guz_A Mitochondrial import inner membrane translocase subunit TIM14;
DNAJ-fold, chaperone, protein transport; HET: FLC; 2.00A
{Saccharomyces cerevisiae}
Length = 71
Score = 38.5 bits (90), Expect = 3e-04
Identities = 10/47 (21%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 265 SEQDIRSAYRKKALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSAR 311
+++ ++ +RK L HPDK A + +++A + L +
Sbjct: 28 TKKKLKEVHRKIMLANHPDKGGSPFLATK----INEAKDFLEKRGIS 70
>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein;
NMR {Homo sapiens}
Length = 101
Score = 39.2 bits (92), Expect = 3e-04
Identities = 19/89 (21%), Positives = 33/89 (37%), Gaps = 4/89 (4%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYEL---GLPNCPLTLNY 96
+ L + FS YG + + I+ G A +EFE A A + L + + +
Sbjct: 13 GKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDA-VRGLDGKVICGSRVRVEL 71
Query: 97 LNPDVEREESRKQPKNPVFSNIDFSGPRD 125
R + P + F+GP +
Sbjct: 72 STGMPRRSRFDRPPARRKLLEVLFNGPLE 100
Score = 38.4 bits (90), Expect = 6e-04
Identities = 19/88 (21%), Positives = 32/88 (36%), Gaps = 4/88 (4%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYEL---GLPNCPLTLNY 484
+ L + FS YG + + I+ G A +EFE A A + L + + +
Sbjct: 13 GKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDA-VRGLDGKVICGSRVRVEL 71
Query: 485 LNPDVEREESRKQPKNPVFSNIDFSGPR 512
R + P + F+GP
Sbjct: 72 STGMPRRSRFDRPPARRKLLEVLFNGPL 99
>2qwo_B Putative tyrosine-protein phosphatase auxilin;
chaperone-cochaperone complex, ATP-binding,
nucleotide-bindi nucleus, phosphorylation, stress
response; HET: ADP; 1.70A {Bos taurus} PDB: 2qwp_B*
2qwq_B* 2qwr_B* 2qwn_B* 1nz6_A
Length = 92
Score = 38.4 bits (89), Expect = 4e-04
Identities = 11/54 (20%), Positives = 20/54 (37%), Gaps = 3/54 (5%)
Query: 258 LELTIDCSEQDIRSAYRKKALKCHPDKNPDDKK---AIETFHLLSKAIEVLLDK 308
+ + + + ++ YRK L HP K A F L+ A ++
Sbjct: 39 VGMADLVTPEQVKKVYRKAVLVVHPCKATGQPYEQYAKMIFMELNDAWSEFENQ 92
>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 38.6 bits (90), Expect = 6e-04
Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 11/81 (13%)
Query: 40 TRESLTKIFSKYGKINILVI-------SPKKRGSALLEFEHADSARRAKLY----ELGLP 88
RE + + +K + + VI K RG A +E+E +A A+ + L
Sbjct: 21 KREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLW 80
Query: 89 NCPLTLNYLNPDVEREESRKQ 109
+ +++ P+++ +E +
Sbjct: 81 GHQIAVDWAEPEIDVDEDVME 101
Score = 38.6 bits (90), Expect = 6e-04
Identities = 16/81 (19%), Positives = 35/81 (43%), Gaps = 11/81 (13%)
Query: 428 TRESLTKIFSKYGKINILVI-------SPKKRGSALLEFEHADSARRAKLY----ELGLP 476
RE + + +K + + VI K RG A +E+E +A A+ + L
Sbjct: 21 KREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLW 80
Query: 477 NCPLTLNYLNPDVEREESRKQ 497
+ +++ P+++ +E +
Sbjct: 81 GHQIAVDWAEPEIDVDEDVME 101
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 41.6 bits (98), Expect = 6e-04
Identities = 26/97 (26%), Positives = 43/97 (44%), Gaps = 10/97 (10%)
Query: 319 RRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEG 378
+ ++I S + E L E+EA+N + LQ+EI +LRKE
Sbjct: 949 EKMNNLEITYSTETEKLRSDVERLRMSEEEAKNA--------TNRVLSLQEEIAKLRKEL 1000
Query: 379 SIRLQEEIKLMTEELNAAK-ELSELNAKLNPENYRLR 414
+ Q E K + E + K E +L ++L +N L+
Sbjct: 1001 H-QTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLK 1036
Score = 37.8 bits (88), Expect = 0.008
Identities = 12/110 (10%), Positives = 38/110 (34%), Gaps = 5/110 (4%)
Query: 289 KKAIETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKE 348
+ + E + + L ++ + + + + ++ K+K + E+ E
Sbjct: 973 RMSEEEAKNATNRVLSLQEE-----IAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSE 1027
Query: 349 AENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKE 398
+ + + + + + + +L EE K + +LN +
Sbjct: 1028 LKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDERL 1077
>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3,
eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo
sapiens}
Length = 81
Score = 37.8 bits (88), Expect = 7e-04
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 40 TRESLTKIFSKYGKINILVISP---KKRGSALLEFEHADSARRA 80
+ + KIFSK+GKI K +G LE+ A A
Sbjct: 20 LKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDA 63
Score = 37.8 bits (88), Expect = 7e-04
Identities = 14/44 (31%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 428 TRESLTKIFSKYGKINILVISP---KKRGSALLEFEHADSARRA 468
+ + KIFSK+GKI K +G LE+ A A
Sbjct: 20 LKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDA 63
>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA
binding domain, RNA recognition motif, SP factor, snRNP,
spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP:
d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A
Length = 292
Score = 40.4 bits (95), Expect = 8e-04
Identities = 17/131 (12%), Positives = 40/131 (30%), Gaps = 19/131 (14%)
Query: 7 AAKELSELNAKLNPENYRLRIRWKSSST------DTDVYTRESLTKIFSKYGKINILVIS 60
A +++ + + + + + T T+ ++ + + + +
Sbjct: 94 ALAAITKTHKVVG--QNEIIVSHLTECTLWMTNFPPSY-TQRNIRDLLQDINVVALSIRL 150
Query: 61 PKK-----RGSALLEFEHADSARRA--KLYELGLPNCPLTLNYLNPD--VEREESRKQPK 111
P R A ++ + AR KL L + L NP +R +S
Sbjct: 151 PSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEG 210
Query: 112 NPVF-SNIDFS 121
+ N+
Sbjct: 211 REIMIRNLSTE 221
Score = 40.4 bits (95), Expect = 8e-04
Identities = 17/131 (12%), Positives = 40/131 (30%), Gaps = 19/131 (14%)
Query: 395 AAKELSELNAKLNPENYRLRIRWKSSST------DTDVYTRESLTKIFSKYGKINILVIS 448
A +++ + + + + + T T+ ++ + + + +
Sbjct: 94 ALAAITKTHKVVG--QNEIIVSHLTECTLWMTNFPPSY-TQRNIRDLLQDINVVALSIRL 150
Query: 449 PKK-----RGSALLEFEHADSARRA--KLYELGLPNCPLTLNYLNPD--VEREESRKQPK 499
P R A ++ + AR KL L + L NP +R +S
Sbjct: 151 PSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEG 210
Query: 500 NPVF-SNIDFS 509
+ N+
Sbjct: 211 REIMIRNLSTE 221
Score = 31.5 bits (72), Expect = 0.63
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 40 TRESLTKIFSKYGKINILVI---SPKKRGSALLEFEHADSARRA 80
+ + K F G I + + K A +EF D A A
Sbjct: 54 NQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAA 97
Score = 31.5 bits (72), Expect = 0.63
Identities = 11/44 (25%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 428 TRESLTKIFSKYGKINILVI---SPKKRGSALLEFEHADSARRA 468
+ + K F G I + + K A +EF D A A
Sbjct: 54 NQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAA 97
Score = 28.8 bits (65), Expect = 4.3
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 6/52 (11%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISP------KKRGSALLEFEHADSARRA 80
T++ L + F +G I + I A + FE+ DSA RA
Sbjct: 219 STELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERA 270
Score = 28.8 bits (65), Expect = 4.3
Identities = 14/52 (26%), Positives = 21/52 (40%), Gaps = 6/52 (11%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISP------KKRGSALLEFEHADSARRA 468
T++ L + F +G I + I A + FE+ DSA RA
Sbjct: 219 STELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERA 270
>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A
Length = 282
Score = 40.2 bits (93), Expect = 8e-04
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 4/73 (5%)
Query: 41 RESLTKIFSKYGKI-NILVI-SPKKRGSALLEFEHADSARRAK--LYELGLPNCPLTLNY 96
++SL IFS++G+I +ILV S K RG A + F+ SA A + + P+ + Y
Sbjct: 27 KKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 86
Query: 97 LNPDVEREESRKQ 109
D + K
Sbjct: 87 AKTDSDIIAKMKG 99
Score = 40.2 bits (93), Expect = 8e-04
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 4/73 (5%)
Query: 429 RESLTKIFSKYGKI-NILVI-SPKKRGSALLEFEHADSARRAK--LYELGLPNCPLTLNY 484
++SL IFS++G+I +ILV S K RG A + F+ SA A + + P+ + Y
Sbjct: 27 KKSLYAIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 86
Query: 485 LNPDVEREESRKQ 497
D + K
Sbjct: 87 AKTDSDIIAKMKG 99
Score = 39.1 bits (90), Expect = 0.002
Identities = 9/61 (14%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKL----YELGLPNCPLTLN 95
L+ +F+++ + + P + A +EF++ A A+ +++ N + ++
Sbjct: 220 NELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAARDALQGFKIT-QNNAMKIS 278
Query: 96 Y 96
+
Sbjct: 279 F 279
Score = 39.1 bits (90), Expect = 0.002
Identities = 9/61 (14%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKL----YELGLPNCPLTLN 483
L+ +F+++ + + P + A +EF++ A A+ +++ N + ++
Sbjct: 220 NELMLSMLFNQFPGFKEVRLVPGRHDIAFVEFDNEVQAGAARDALQGFKIT-QNNAMKIS 278
Query: 484 Y 484
+
Sbjct: 279 F 279
>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic
initiation factor 3 complex, RNA recognition motif; NMR
{Homo sapiens}
Length = 105
Score = 37.8 bits (88), Expect = 0.001
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 3/42 (7%)
Query: 42 ESLTKIFSKYGKINILVISP---KKRGSALLEFEHADSARRA 80
+ KIFSK+GKI K +G LE+ A A
Sbjct: 36 NVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDA 77
Score = 37.8 bits (88), Expect = 0.001
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 3/42 (7%)
Query: 430 ESLTKIFSKYGKINILVISP---KKRGSALLEFEHADSARRA 468
+ KIFSK+GKI K +G LE+ A A
Sbjct: 36 NVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDA 77
>3ag7_A Putative uncharacterized protein F9E10.5; J-domain, AN auxilin-like
J-domain containing protein, JAC1, chloroplast
accumulation response; 1.80A {Arabidopsis thaliana}
Length = 106
Score = 38.1 bits (88), Expect = 0.001
Identities = 12/51 (23%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 258 LELTIDCSEQDIRSAYRKKALKCHPDKNPDDKKAIE-------TFHLLSKA 301
+ L +R +Y++ L HPDK + F LL +A
Sbjct: 46 VPLMDMIEGNAVRKSYQRALLILHPDKLQQKGASANQKYMAEKVFELLQEA 96
>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 37.9 bits (88), Expect = 0.001
Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 3/76 (3%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTLNYL 97
+ + FS++G + +++ +A++EF AR+A L + PL L +
Sbjct: 23 LAAEIQETFSRFGSLGRVLLPEGG-ITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWA 81
Query: 98 NPDVEREESRKQPKNP 113
V +K+
Sbjct: 82 PIGVFGAAPQKKDSQH 97
Score = 37.9 bits (88), Expect = 0.001
Identities = 15/76 (19%), Positives = 31/76 (40%), Gaps = 3/76 (3%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTLNYL 485
+ + FS++G + +++ +A++EF AR+A L + PL L +
Sbjct: 23 LAAEIQETFSRFGSLGRVLLPEGG-ITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWA 81
Query: 486 NPDVEREESRKQPKNP 501
V +K+
Sbjct: 82 PIGVFGAAPQKKDSQH 97
>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold,
protein binding, nucleus; 2.04A {Homo sapiens}
Length = 100
Score = 37.0 bits (86), Expect = 0.001
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 7/62 (11%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKKRGSALLEFEHADSARRA----KLYELGLPNCPLTL 94
L + ++G I ++V+ K+ AL+EFE A A ++ + P +
Sbjct: 34 VEADLVEALQEFGPISYVVVM--PKKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFV 91
Query: 95 NY 96
NY
Sbjct: 92 NY 93
Score = 37.0 bits (86), Expect = 0.001
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 7/62 (11%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKKRGSALLEFEHADSARRA----KLYELGLPNCPLTL 482
L + ++G I ++V+ K+ AL+EFE A A ++ + P +
Sbjct: 34 VEADLVEALQEFGPISYVVVM--PKKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFV 91
Query: 483 NY 484
NY
Sbjct: 92 NY 93
>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein,
ribosome biogenesis, RNA-binding, rRNA processing; NMR
{Saccharomyces cerevisiae} PDB: 2osq_A
Length = 108
Score = 37.3 bits (87), Expect = 0.001
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 12/82 (14%)
Query: 12 SELNAKLNPENYRLRIRWKSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKK 63
++ L P + R + ++T ++ L +IF +G + + I
Sbjct: 8 HHHSSGLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI---L 64
Query: 64 RGSALLEFEHADSARRAKLYEL 85
G A +EFE A+SA +A + E+
Sbjct: 65 NGFAFVEFEEAESAAKA-IEEV 85
Score = 37.3 bits (87), Expect = 0.001
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 12/82 (14%)
Query: 400 SELNAKLNPENYRLRIRWKSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKK 451
++ L P + R + ++T ++ L +IF +G + + I
Sbjct: 8 HHHSSGLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKI---L 64
Query: 452 RGSALLEFEHADSARRAKLYEL 473
G A +EFE A+SA +A + E+
Sbjct: 65 NGFAFVEFEEAESAAKA-IEEV 85
>3sde_A Paraspeckle component 1; RRM, anti parallel right handed
coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A
{Homo sapiens} PDB: 3sde_B
Length = 261
Score = 39.3 bits (92), Expect = 0.002
Identities = 25/143 (17%), Positives = 50/143 (34%), Gaps = 21/143 (14%)
Query: 1 MTEELNAAKELSELNAKLNPENYRLRIRWKSSST-------DTDVYTRESLTKIFSKYGK 53
+ A +EL+ + ++ LRIR+ + V + E L + FS++G
Sbjct: 65 LESRTLAEIAKAELDGTI-LKSRPLRIRFATHGAALTVKNLSPVV-SNELLEQAFSQFGP 122
Query: 54 INILVI----SPKKRGSALLEFEHADSARRA------KLYELGLPNCPLTLNYLNPDVER 103
+ V+ + G +EF AR+A + L P+ + + +
Sbjct: 123 VEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQFDDE 182
Query: 104 EE--SRKQPKNPVFSNIDFSGPR 124
+ + K + PR
Sbjct: 183 DGLPEKLMQKTQQYHKEREQPPR 205
Score = 39.3 bits (92), Expect = 0.002
Identities = 25/143 (17%), Positives = 50/143 (34%), Gaps = 21/143 (14%)
Query: 389 MTEELNAAKELSELNAKLNPENYRLRIRWKSSST-------DTDVYTRESLTKIFSKYGK 441
+ A +EL+ + ++ LRIR+ + V + E L + FS++G
Sbjct: 65 LESRTLAEIAKAELDGTI-LKSRPLRIRFATHGAALTVKNLSPVV-SNELLEQAFSQFGP 122
Query: 442 INILVI----SPKKRGSALLEFEHADSARRA------KLYELGLPNCPLTLNYLNPDVER 491
+ V+ + G +EF AR+A + L P+ + + +
Sbjct: 123 VEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPMEQFDDE 182
Query: 492 EE--SRKQPKNPVFSNIDFSGPR 512
+ + K + PR
Sbjct: 183 DGLPEKLMQKTQQYHKEREQPPR 205
Score = 33.1 bits (76), Expect = 0.16
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 81
TD+ T E ++F +YG+ + + I + RG + E A AK
Sbjct: 31 PTDI-TEEDFKRLFERYGEPSEVFI-NRDRGFGFIRLESRTLAEIAK 75
Score = 33.1 bits (76), Expect = 0.16
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
TD+ T E ++F +YG+ + + I + RG + E A AK
Sbjct: 31 PTDI-TEEDFKRLFERYGEPSEVFI-NRDRGFGFIRLESRTLAEIAK 75
>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed
protein, RRM, U1A, RNA binding protein; NMR {Homo
sapiens}
Length = 127
Score = 37.2 bits (86), Expect = 0.002
Identities = 17/78 (21%), Positives = 28/78 (35%), Gaps = 7/78 (8%)
Query: 41 RESLTKIFSKYGKINILVI--SPKKRGSALLEFEHADSARRAKLYELGLP--NCPLTLNY 96
+ L + S G I +V+ S G A + F +SA+ G P PL + +
Sbjct: 47 QALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITF 106
Query: 97 LNPD---VEREESRKQPK 111
V + S +
Sbjct: 107 SETPQSQVAEDGSLEHHH 124
Score = 37.2 bits (86), Expect = 0.002
Identities = 17/78 (21%), Positives = 28/78 (35%), Gaps = 7/78 (8%)
Query: 429 RESLTKIFSKYGKINILVI--SPKKRGSALLEFEHADSARRAKLYELGLP--NCPLTLNY 484
+ L + S G I +V+ S G A + F +SA+ G P PL + +
Sbjct: 47 QALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITF 106
Query: 485 LNPD---VEREESRKQPK 499
V + S +
Sbjct: 107 SETPQSQVAEDGSLEHHH 124
>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear
ribonucleoprotein, R binding domain, RNA binding
protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1
PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A*
3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P*
3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A*
...
Length = 97
Score = 36.4 bits (85), Expect = 0.002
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 41 RESLTKIFSKYGKI-NILVI-SPKKRGSALLEFEHADSARRA 80
++SL IFS++G+I +ILV S K RG A + F+ SA A
Sbjct: 26 KKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNA 67
Score = 36.4 bits (85), Expect = 0.002
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 429 RESLTKIFSKYGKI-NILVI-SPKKRGSALLEFEHADSARRA 468
++SL IFS++G+I +ILV S K RG A + F+ SA A
Sbjct: 26 KKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNA 67
>3iyk_A VP5; icosahedral virus; HET: MNA; 7.00A {Bluetongue virus}
Length = 526
Score = 39.2 bits (91), Expect = 0.003
Identities = 15/99 (15%), Positives = 34/99 (34%), Gaps = 4/99 (4%)
Query: 303 EVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKS 362
E++ K + + EEV + + ++ + K + K+
Sbjct: 109 ELVRLKYNDKIKEKFGKELEEVYNFMNGEANAEIEDEKQFDILNKAVTSYN----KILTE 164
Query: 363 EEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKELSE 401
E+ +++ L+KE R E ++ E + L
Sbjct: 165 EDLQMRRLATALQKEIGERTHAETVMVKEYRDKIDALKN 203
>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM
domain, riken structural genomics/proteomics initiative
RSGI, RNA binding protein; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 88
Score = 36.0 bits (84), Expect = 0.003
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 33 STDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
+ D T + L + FS+YG + + I R A + F A+
Sbjct: 14 TGDM---TEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSL 58
Score = 36.0 bits (84), Expect = 0.003
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 421 STDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
+ D T + L + FS+YG + + I R A + F A+
Sbjct: 14 TGDM---TEDELREFFSQYGDVMDVFIPKPFRAFAFVTFADDQIAQSL 58
>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A
{Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A
Length = 102
Score = 36.1 bits (84), Expect = 0.003
Identities = 12/82 (14%), Positives = 27/82 (32%), Gaps = 5/82 (6%)
Query: 40 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRAKLYELGLPNCPLTLN 95
+ F++YG + + I + +G + F + ++ ++ L L
Sbjct: 22 DETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVESQINFHGKKLKLG 81
Query: 96 YLNPDVEREESRKQPKNPVFSN 117
QP+ P+ N
Sbjct: 82 PAIRKQNLSTYHVQPR-PLIFN 102
Score = 36.1 bits (84), Expect = 0.003
Identities = 12/82 (14%), Positives = 27/82 (32%), Gaps = 5/82 (6%)
Query: 428 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRAKLYELGLPNCPLTLN 483
+ F++YG + + I + +G + F + ++ ++ L L
Sbjct: 22 DETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVESQINFHGKKLKLG 81
Query: 484 YLNPDVEREESRKQPKNPVFSN 505
QP+ P+ N
Sbjct: 82 PAIRKQNLSTYHVQPR-PLIFN 102
>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription
termination, RNA processi recognition, RRM; HET: CAF;
1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A
Length = 97
Score = 36.1 bits (84), Expect = 0.004
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
++E L +IFS YG I + I K ++F++ S R A
Sbjct: 36 SKEDLFRIFSPYGHIMQINI---KNAFGFIQFDNPQSVRDA 73
Score = 36.1 bits (84), Expect = 0.004
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
++E L +IFS YG I + I K ++F++ S R A
Sbjct: 36 SKEDLFRIFSPYGHIMQINI---KNAFGFIQFDNPQSVRDA 73
>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken
structural genomics/proteomics initiative, RSGI; NMR
{Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A
Length = 110
Score = 36.2 bits (84), Expect = 0.004
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
+T + + + IFSKYG++ + +G A +++ + AR A
Sbjct: 36 NTALVKKSDVETIFSKYGRVAGCSV---HKGYAFVQYSNERHARAA 78
Score = 36.2 bits (84), Expect = 0.004
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
+T + + + IFSKYG++ + +G A +++ + AR A
Sbjct: 36 NTALVKKSDVETIFSKYGRVAGCSV---HKGYAFVQYSNERHARAA 78
>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A
{Saccharomyces cerevisiae} PDB: 3ns5_A
Length = 100
Score = 35.5 bits (82), Expect = 0.005
Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 80
+++LT +FSK GK+ + K +G +E + A++
Sbjct: 25 LKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKI 70
Score = 35.5 bits (82), Expect = 0.005
Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 468
+++LT +FSK GK+ + K +G +E + A++
Sbjct: 25 LKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKI 70
>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif,
RRM, transcription termination, NUC phosphoprotein; NMR
{Saccharomyces cerevisiae}
Length = 96
Score = 35.3 bits (82), Expect = 0.005
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
++E L +IFS YG I + I K ++F++ S R A
Sbjct: 19 PLKNVSKEDLFRIFSPYGHIMQINI---KNAFGFIQFDNPQSVRDA 61
Score = 35.3 bits (82), Expect = 0.005
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
++E L +IFS YG I + I K ++F++ S R A
Sbjct: 19 PLKNVSKEDLFRIFSPYGHIMQINI---KNAFGFIQFDNPQSVRDA 61
>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA
complex, RNA binding protein/RNA complex; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 119
Score = 36.0 bits (83), Expect = 0.006
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
T + + +GK+ L++ K + A +E ++A
Sbjct: 44 TEGEVISLGLPFGKVTNLLM-LKGKNQAFIEMNTEEAANTM 83
Score = 36.0 bits (83), Expect = 0.006
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
T + + +GK+ L++ K + A +E ++A
Sbjct: 44 TEGEVISLGLPFGKVTNLLM-LKGKNQAFIEMNTEEAANTM 83
>2bz2_A Negative elongation factor E; NELF E, RNA recognition motif,
alternative splicing, nuclear protein, phosphorylation,
repeat, repressor; NMR {Homo sapiens} SCOP: d.58.7.1
PDB: 2jx2_A
Length = 121
Score = 35.9 bits (83), Expect = 0.006
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 30 KSSSTDTDVY------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
++ +Y T L FS +G I I + R A + +E +SA +A
Sbjct: 34 RAPRKGNTLYVYGEDMTPTLLRGAFSPFGNI-IDLSMDPPRNCAFVTYEKMESADQA 89
Score = 35.9 bits (83), Expect = 0.006
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 418 KSSSTDTDVY------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
++ +Y T L FS +G I I + R A + +E +SA +A
Sbjct: 34 RAPRKGNTLYVYGEDMTPTLLRGAFSPFGNI-IDLSMDPPRNCAFVTYEKMESADQA 89
>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 101
Score = 35.6 bits (82), Expect = 0.006
Identities = 9/44 (20%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLY 83
T + + +GK+ +++ K A LE ++A Y
Sbjct: 28 TETEVIALGLPFGKVTNILMLKGK-NQAFLELATEEAAITMVNY 70
Score = 35.6 bits (82), Expect = 0.006
Identities = 9/44 (20%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLY 471
T + + +GK+ +++ K A LE ++A Y
Sbjct: 28 TETEVIALGLPFGKVTNILMLKGK-NQAFLELATEEAAITMVNY 70
>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 105
Score = 35.2 bits (81), Expect = 0.008
Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA----KLYELGLPNCPLTLN 95
T + + +GK+ L++ K A +E ++A L P+ +
Sbjct: 29 TEGEVISLGLPFGKVTNLLMLKGK-NQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQ 87
Query: 96 Y 96
+
Sbjct: 88 F 88
Score = 35.2 bits (81), Expect = 0.008
Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA----KLYELGLPNCPLTLN 483
T + + +GK+ L++ K A +E ++A L P+ +
Sbjct: 29 TEGEVISLGLPFGKVTNLLMLKGK-NQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQ 87
Query: 484 Y 484
+
Sbjct: 88 F 88
>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding
protein, hnRNP, telomere, DNA-binding protein, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
1wtb_A 1x0f_A
Length = 75
Score = 34.4 bits (80), Expect = 0.008
Identities = 7/46 (15%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
E + + F +G++ + + + K+RG + F+ + ++
Sbjct: 12 PEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI 57
Score = 34.4 bits (80), Expect = 0.008
Identities = 7/46 (15%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
E + + F +G++ + + + K+RG + F+ + ++
Sbjct: 12 PEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI 57
>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 99
Score = 34.9 bits (81), Expect = 0.009
Identities = 9/41 (21%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
+ E + K F+ + + K R A + F + + A A
Sbjct: 28 SEEMIEKEFNNIKPGAVERV-KKIRDYAFVHFSNREDAVEA 67
Score = 34.9 bits (81), Expect = 0.009
Identities = 9/41 (21%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
+ E + K F+ + + K R A + F + + A A
Sbjct: 28 SEEMIEKEFNNIKPGAVERV-KKIRDYAFVHFSNREDAVEA 67
>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2,
alternate splicing factor)...; structure genomics, SURP
domain, splicing factor SF2; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 35.0 bits (81), Expect = 0.010
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 10/65 (15%)
Query: 26 RIRWKSSSTDTDVY--------TRESLTKIFSKYGKINI--LVISPKKRGSALLEFEHAD 75
IR + + D +Y + + +F KYG I L A +EFE
Sbjct: 13 VIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPR 72
Query: 76 SARRA 80
A A
Sbjct: 73 DAEDA 77
Score = 35.0 bits (81), Expect = 0.010
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 10/65 (15%)
Query: 414 RIRWKSSSTDTDVY--------TRESLTKIFSKYGKINI--LVISPKKRGSALLEFEHAD 463
IR + + D +Y + + +F KYG I L A +EFE
Sbjct: 13 VIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPR 72
Query: 464 SARRA 468
A A
Sbjct: 73 DAEDA 77
>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 85
Score = 34.2 bits (79), Expect = 0.011
Identities = 10/60 (16%), Positives = 23/60 (38%), Gaps = 4/60 (6%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYELG---LPNCPLTLNY 96
T L F ++G+I + + ++ A ++F +A A + L + +
Sbjct: 25 TETDLRNHFYQFGEIRTITVVQRQ-QCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKW 83
Score = 34.2 bits (79), Expect = 0.011
Identities = 10/60 (16%), Positives = 23/60 (38%), Gaps = 4/60 (6%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLYELG---LPNCPLTLNY 484
T L F ++G+I + + ++ A ++F +A A + L + +
Sbjct: 25 TETDLRNHFYQFGEIRTITVVQRQ-QCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKW 83
>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43
inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA;
1.65A {Mus musculus}
Length = 89
Score = 34.1 bits (79), Expect = 0.012
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 33 STDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
+ D T E L + F +YG++ + I R A + F A+
Sbjct: 20 TEDM---TAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSL 64
Score = 34.1 bits (79), Expect = 0.012
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 421 STDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
+ D T E L + F +YG++ + I R A + F A+
Sbjct: 20 TEDM---TAEELQQFFCQYGEVVDVFIPKPFRAFAFVTFADDKVAQSL 64
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin
modification, transcription regulation, structural
genomics, structural genomics consortium; 1.30A {Homo
sapiens}
Length = 110
Score = 34.7 bits (80), Expect = 0.014
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
L + KYG++ + I + K G A + F A+
Sbjct: 19 RETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKET 64
Score = 34.7 bits (80), Expect = 0.014
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
L + KYG++ + I + K G A + F A+
Sbjct: 19 RETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKET 64
>4a8x_A RNA-binding protein with serine-rich domain 1; transcription,
splicing, RNA processing, nonsense mediated D NMD,
HDAC, histone deacetylation; 1.90A {Homo sapiens}
Length = 88
Score = 33.7 bits (78), Expect = 0.017
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 6/47 (12%)
Query: 40 TRESLTKIFSKYGKI-NILVI-----SPKKRGSALLEFEHADSARRA 80
T++ + +IFS YGKI I + +G A +EFE+ D A +A
Sbjct: 17 TKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKA 63
Score = 33.7 bits (78), Expect = 0.017
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 6/47 (12%)
Query: 428 TRESLTKIFSKYGKI-NILVI-----SPKKRGSALLEFEHADSARRA 468
T++ + +IFS YGKI I + +G A +EFE+ D A +A
Sbjct: 17 TKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKA 63
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 36.9 bits (84), Expect = 0.017
Identities = 26/110 (23%), Positives = 50/110 (45%), Gaps = 4/110 (3%)
Query: 289 KKAIETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKE 348
+ +T K IEV K A +A S E + ++ + ++E L++ ++
Sbjct: 476 LQTDQTLTEKEKEIEVERVK-AESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQLTEK 534
Query: 349 AENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKE 398
EN+R + K + + QE ++L KEG Q+E ++M E+ +
Sbjct: 535 MENDRVQLLKEQERTLALKLQEQEQLLKEG---FQKESRIMKNEIQDLQT 581
Score = 29.9 bits (66), Expect = 2.1
Identities = 13/60 (21%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 319 RRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEE-EILQQEIDRLRKE 377
+E +K K++ R + ++ ER E+ + K +E I++ EI L+ +
Sbjct: 523 SYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQDLQTK 582
>1b7f_A Protein (SXL-lethal protein), RNA
(5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing
regulation, RNP domain, RNA complex; 2.60A {Drosophila
melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A*
1sxl_A 2sxl_A
Length = 168
Score = 35.2 bits (82), Expect = 0.018
Identities = 18/91 (19%), Positives = 35/91 (38%), Gaps = 15/91 (16%)
Query: 33 STDTDVY--------TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARR 79
+++T++ T L +F G I ++ K G A ++F ++R
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 80 A--KLYELGLPNCPLTLNYLNPDVEREESRK 108
A L + + N L ++Y P E +
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGESIKDTN 91
Score = 35.2 bits (82), Expect = 0.018
Identities = 18/91 (19%), Positives = 35/91 (38%), Gaps = 15/91 (16%)
Query: 421 STDTDVY--------TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARR 467
+++T++ T L +F G I ++ K G A ++F ++R
Sbjct: 1 ASNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQR 60
Query: 468 A--KLYELGLPNCPLTLNYLNPDVEREESRK 496
A L + + N L ++Y P E +
Sbjct: 61 AIKVLNGITVRNKRLKVSYARPGGESIKDTN 91
Score = 30.6 bits (70), Expect = 0.72
Identities = 27/97 (27%), Positives = 45/97 (46%), Gaps = 18/97 (18%)
Query: 1 MTEELNAAKELSELNAKLNPENYRLRIRW----KSSSTDTDVY--------TRESLTKIF 48
T E+++ + + LN N RL++ + S DT++Y T + L IF
Sbjct: 52 FTSEMDSQRAIKVLNGIT-VRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIF 110
Query: 49 SKYGKI---NILV--ISPKKRGSALLEFEHADSARRA 80
KYG I NIL ++ + RG A + + + A+ A
Sbjct: 111 GKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 147
Score = 30.6 bits (70), Expect = 0.72
Identities = 27/97 (27%), Positives = 45/97 (46%), Gaps = 18/97 (18%)
Query: 389 MTEELNAAKELSELNAKLNPENYRLRIRW----KSSSTDTDVY--------TRESLTKIF 436
T E+++ + + LN N RL++ + S DT++Y T + L IF
Sbjct: 52 FTSEMDSQRAIKVLNGIT-VRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIF 110
Query: 437 SKYGKI---NILV--ISPKKRGSALLEFEHADSARRA 468
KYG I NIL ++ + RG A + + + A+ A
Sbjct: 111 GKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEA 147
>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
Length = 101
Score = 34.2 bits (79), Expect = 0.018
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 40 TRESLTKIFSKYGKINIL-VISPKKRGSALLEFEHADSARRA 80
T E+L ++F K I + + K +G A +EF + A+ A
Sbjct: 28 TEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEA 69
Score = 34.2 bits (79), Expect = 0.018
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 428 TRESLTKIFSKYGKINIL-VISPKKRGSALLEFEHADSARRA 468
T E+L ++F K I + + K +G A +EF + A+ A
Sbjct: 28 TEETLQEVFEKATFIKVPQNQNGKSKGYAFIEFASFEDAKEA 69
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 36.7 bits (85), Expect = 0.019
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 18/106 (16%)
Query: 319 RRKEEVKIRNSKLDATRKKFK---EDLERREKEAENERYKGYKVNKSEEE---------- 365
R EE + R+ +L A +KK + DLE + +E E R K + +
Sbjct: 934 ARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDIL 993
Query: 366 ILQQEIDRLRKEGSIRLQEEIKLMTEELNA----AKELSELNAKLN 407
I++ + ++L KE L+E + +T L AK L++L K
Sbjct: 994 IMEDQNNKLTKERK-LLEERVSDLTTNLAEEEEKAKNLTKLKNKHE 1038
Score = 36.4 bits (84), Expect = 0.027
Identities = 26/138 (18%), Positives = 57/138 (41%), Gaps = 14/138 (10%)
Query: 313 AYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEID 372
A + EE+++R + ++ ++E R +E E + K ++ + +
Sbjct: 903 AETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEE 962
Query: 373 RLRKEGSIR---------LQEEIKLMTEELNAAKELSELNAKLNPENYRLRIRWKSSSTD 423
+L +E + R +IK M +++ + + N KL E L R +T+
Sbjct: 963 QLEEEEAARQKLQLEKVTADGKIKKMEDDI---LIMEDQNNKLTKERKLLEERVSDLTTN 1019
Query: 424 TDVYTR--ESLTKIFSKY 439
++LTK+ +K+
Sbjct: 1020 LAEEEEKAKNLTKLKNKH 1037
Score = 32.9 bits (75), Expect = 0.27
Identities = 18/99 (18%), Positives = 41/99 (41%), Gaps = 1/99 (1%)
Query: 308 KSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEIL 367
+ + + E++ + ++L A K +E+L+ E+E + K E L
Sbjct: 1063 RKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRE-L 1121
Query: 368 QQEIDRLRKEGSIRLQEEIKLMTEELNAAKELSELNAKL 406
+ I L+++ K ++ + ++EL L +L
Sbjct: 1122 ESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTEL 1160
Score = 31.7 bits (72), Expect = 0.63
Identities = 18/97 (18%), Positives = 43/97 (44%), Gaps = 14/97 (14%)
Query: 319 RRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEG 378
+ + + +L K +++LE+ +++ E E + LQ +I L+ +
Sbjct: 1036 KHESMISELEVRLKKEEKS-RQELEKIKRKLEGE----SSDLHEQIAELQAQIAELKAQL 1090
Query: 379 SIRLQEEIKLMTEEL--------NAAKELSELNAKLN 407
+ + +EE++ L NA K++ EL + ++
Sbjct: 1091 A-KKEEELQAALARLEDETSQKNNALKKIRELESHIS 1126
>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing,
protein complex, EXON junct complex, signaling protein;
1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB:
2hyi_B* 2j0s_D* 2xb2_D*
Length = 110
Score = 34.2 bits (79), Expect = 0.020
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
+ + + F YG+I NI + + +G AL+E+E A A
Sbjct: 39 QEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 84
Score = 34.2 bits (79), Expect = 0.020
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
+ + + F YG+I NI + + +G AL+E+E A A
Sbjct: 39 QEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 84
>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain,
RNA-protein complex, nucleolus, structural protein/RNA
complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1
d.58.7.1 PDB: 1rkj_A 2krr_A
Length = 175
Score = 35.3 bits (82), Expect = 0.021
Identities = 10/41 (24%), Positives = 20/41 (48%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
T + L ++F +I ++ K +G A +EF+ A +
Sbjct: 112 TEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKN 152
Score = 35.3 bits (82), Expect = 0.021
Identities = 10/41 (24%), Positives = 20/41 (48%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
T + L ++F +I ++ K +G A +EF+ A +
Sbjct: 112 TEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKN 152
Score = 33.3 bits (77), Expect = 0.083
Identities = 15/88 (17%), Positives = 32/88 (36%), Gaps = 9/88 (10%)
Query: 40 TRESLTKIFSKYGKINILVISPKK----RGSALLEFEHADSARRA-KLYELGLPNCPLTL 94
+ L S+ N L + + R ++FE A+ +A +L L + +
Sbjct: 26 SVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEI-- 83
Query: 95 NYLNPDVEREESRKQPKNPVF-SNIDFS 121
L R+ + + + N+ F+
Sbjct: 84 -KLEKPKGRDSKKVRAARTLLAKNLSFN 110
Score = 33.3 bits (77), Expect = 0.083
Identities = 15/88 (17%), Positives = 32/88 (36%), Gaps = 9/88 (10%)
Query: 428 TRESLTKIFSKYGKINILVISPKK----RGSALLEFEHADSARRA-KLYELGLPNCPLTL 482
+ L S+ N L + + R ++FE A+ +A +L L + +
Sbjct: 26 SVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEI-- 83
Query: 483 NYLNPDVEREESRKQPKNPVF-SNIDFS 509
L R+ + + + N+ F+
Sbjct: 84 -KLEKPKGRDSKKVRAARTLLAKNLSFN 110
>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A
2dno_A
Length = 105
Score = 33.8 bits (78), Expect = 0.023
Identities = 13/78 (16%), Positives = 29/78 (37%), Gaps = 9/78 (11%)
Query: 39 YTRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRAK-----LYELGLPN 89
+ E + ++F +G I+ + +G A ++F A+ A + +
Sbjct: 27 QSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGAS 86
Query: 90 CPLTLNYLNPDVEREESR 107
L + + + D E S
Sbjct: 87 SSLVVKFADTDKESGPSS 104
Score = 33.8 bits (78), Expect = 0.023
Identities = 13/78 (16%), Positives = 29/78 (37%), Gaps = 9/78 (11%)
Query: 427 YTRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRAK-----LYELGLPN 477
+ E + ++F +G I+ + +G A ++F A+ A + +
Sbjct: 27 QSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGAS 86
Query: 478 CPLTLNYLNPDVEREESR 495
L + + + D E S
Sbjct: 87 SSLVVKFADTDKESGPSS 104
>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A
{Homo sapiens} SCOP: d.58.7.1
Length = 106
Score = 33.8 bits (78), Expect = 0.023
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T E + F++YG+I NI + + +G L+E+E A+ A
Sbjct: 36 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 81
Score = 33.8 bits (78), Expect = 0.023
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T E + F++YG+I NI + + +G L+E+E A+ A
Sbjct: 36 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 81
>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM
domain, RBD, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 97
Score = 33.7 bits (77), Expect = 0.026
Identities = 7/41 (17%), Positives = 17/41 (41%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
L + + G + + + R A L + + +A++A
Sbjct: 32 RVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQA 72
Score = 33.7 bits (77), Expect = 0.026
Identities = 7/41 (17%), Positives = 17/41 (41%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
L + + G + + + R A L + + +A++A
Sbjct: 32 RVSDLKRALRELGSVPLRLTWQGPRRRAFLHYPDSAAAQQA 72
>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national
project on protein structural and functional analyses;
NMR {Mus musculus} SCOP: d.58.7.1
Length = 112
Score = 33.8 bits (77), Expect = 0.026
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 37 DVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLY 83
Y+ ++ K+ YGKI ++ K A +E E + A +
Sbjct: 36 SGYSDSAVLKLAEPYGKIKNYILMRMKS-QAFIEMETREDAMAMVDH 81
Score = 33.8 bits (77), Expect = 0.026
Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 425 DVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAKLY 471
Y+ ++ K+ YGKI ++ K A +E E + A +
Sbjct: 36 SGYSDSAVLKLAEPYGKIKNYILMRMKS-QAFIEMETREDAMAMVDH 81
>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA
recognition, stress granules, nucleus, RNA-binding,
transcription; NMR {Saccharomyces cerevisiae}
Length = 101
Score = 33.4 bits (77), Expect = 0.026
Identities = 9/59 (15%), Positives = 19/59 (32%), Gaps = 9/59 (15%)
Query: 31 SSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 81
+ T Y T L +F +G I ++G ++++ + A
Sbjct: 23 APPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKH-YPEKGCCFIKYDTHEQAAVCI 80
Score = 33.4 bits (77), Expect = 0.026
Identities = 9/59 (15%), Positives = 19/59 (32%), Gaps = 9/59 (15%)
Query: 419 SSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
+ T Y T L +F +G I ++G ++++ + A
Sbjct: 23 APPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKH-YPEKGCCFIKYDTHEQAAVCI 80
>2cpj_A Non-POU domain-containing octamer-binding protein; RNA
recognition motif, RRM, RNP, structural genomics,
NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1
Length = 99
Score = 33.4 bits (77), Expect = 0.027
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 9/60 (15%)
Query: 30 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 81
K+ + + ++ T E + K+F KYGK + I K +G + E A AK
Sbjct: 10 KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI-HKDKGFGFIRLETRTLAEIAK 68
Score = 33.4 bits (77), Expect = 0.027
Identities = 16/60 (26%), Positives = 26/60 (43%), Gaps = 9/60 (15%)
Query: 418 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
K+ + + ++ T E + K+F KYGK + I K +G + E A AK
Sbjct: 10 KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFI-HKDKGFGFIRLETRTLAEIAK 68
>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 101
Score = 33.4 bits (77), Expect = 0.028
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 40 TRESLTKIFSKYGKINILVISPKK----RGSALLEFEHADSARRA 80
+ L S+ N L + + R ++FE A+ +A
Sbjct: 30 SVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKA 74
Score = 33.4 bits (77), Expect = 0.028
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 428 TRESLTKIFSKYGKINILVISPKK----RGSALLEFEHADSARRA 468
+ L S+ N L + + R ++FE A+ +A
Sbjct: 30 SVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKA 74
>1x5p_A Negative elongation factor E; structure genomics, RRM domain,
PARP14, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 97
Score = 33.4 bits (77), Expect = 0.028
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
T L FS +G I I + R A + +E +SA +A
Sbjct: 26 TPTLLRGAFSPFGNI-IDLSMDPPRNCAFVTYEKMESADQA 65
Score = 33.4 bits (77), Expect = 0.028
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
T L FS +G I I + R A + +E +SA +A
Sbjct: 26 TPTLLRGAFSPFGNI-IDLSMDPPRNCAFVTYEKMESADQA 65
>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif,
systemic lupus erythematosus, phosphoprotein, RNA
maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1
PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A
Length = 193
Score = 35.2 bits (80), Expect = 0.029
Identities = 7/46 (15%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 39 YTRESLTKIFSKYGKINILVISPKK----RGSALLEFEHADSARRA 80
T + + + G++ + + +GS + F+ +SA++
Sbjct: 121 ATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 166
Score = 35.2 bits (80), Expect = 0.029
Identities = 7/46 (15%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 427 YTRESLTKIFSKYGKINILVISPKK----RGSALLEFEHADSARRA 468
T + + + G++ + + +GS + F+ +SA++
Sbjct: 121 ATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 166
>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 94
Score = 33.4 bits (77), Expect = 0.031
Identities = 7/41 (17%), Positives = 16/41 (39%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
L++ F +G + +V+ K A++E +
Sbjct: 21 DSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAV 61
Score = 33.4 bits (77), Expect = 0.031
Identities = 7/41 (17%), Positives = 16/41 (39%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
L++ F +G + +V+ K A++E +
Sbjct: 21 DSAQLSEYFLAFGPVASVVMDKDKGVFAIVEMGDVGAREAV 61
>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 95
Score = 33.3 bits (77), Expect = 0.031
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 5/47 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRAK 81
T L ++FSKYG I ++ ++ S + RG A + FE+ D A+ AK
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 74
Score = 33.3 bits (77), Expect = 0.031
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 5/47 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRAK 469
T L ++FSKYG I ++ ++ S + RG A + FE+ D A+ AK
Sbjct: 28 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 74
>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain,
nucleolus, structural protein; NMR {Mesocricetus
auratus} SCOP: d.58.7.1
Length = 96
Score = 33.4 bits (77), Expect = 0.033
Identities = 10/41 (24%), Positives = 20/41 (48%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
T + L ++F +I ++ K +G A +EF+ A +
Sbjct: 29 TEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKN 69
Score = 33.4 bits (77), Expect = 0.033
Identities = 10/41 (24%), Positives = 20/41 (48%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
T + L ++F +I ++ K +G A +EF+ A +
Sbjct: 29 TEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKN 69
>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 32.9 bits (76), Expect = 0.035
Identities = 11/58 (18%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 31 SSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
SS ++ T + + +F +YGK+ I + + E +A A
Sbjct: 4 GSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDI---IKNYGFVHIEDKTAAEDA 58
Score = 32.9 bits (76), Expect = 0.035
Identities = 11/58 (18%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 419 SSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
SS ++ T + + +F +YGK+ I + + E +A A
Sbjct: 4 GSSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDI---IKNYGFVHIEDKTAAEDA 58
>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex,
AU-rich element, transcription/RNA complex; 1.80A {Homo
sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H
1d8z_A 1d9a_A 3hi9_A
Length = 167
Score = 34.1 bits (79), Expect = 0.040
Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 7/76 (9%)
Query: 40 TRESLTKIFSKYGKINILVISPKK-----RGSALLEFEHADSARRA--KLYELGLPNCPL 92
T+E +F G+I + K G + + A +A L L L +
Sbjct: 15 TQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTI 74
Query: 93 TLNYLNPDVEREESRK 108
++Y P
Sbjct: 75 KVSYARPSSASIRDAN 90
Score = 34.1 bits (79), Expect = 0.040
Identities = 14/76 (18%), Positives = 24/76 (31%), Gaps = 7/76 (9%)
Query: 428 TRESLTKIFSKYGKINILVISPKK-----RGSALLEFEHADSARRA--KLYELGLPNCPL 480
T+E +F G+I + K G + + A +A L L L +
Sbjct: 15 TQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTI 74
Query: 481 TLNYLNPDVEREESRK 496
++Y P
Sbjct: 75 KVSYARPSSASIRDAN 90
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein,
translation; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 33.2 bits (76), Expect = 0.041
Identities = 7/45 (15%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 40 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 80
T + + + G++ + + +GS + F+ +SA++
Sbjct: 24 TLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 68
Score = 33.2 bits (76), Expect = 0.041
Identities = 7/45 (15%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 428 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 468
T + + + G++ + + +GS + F+ +SA++
Sbjct: 24 TLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKF 68
>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A
Length = 103
Score = 33.0 bits (76), Expect = 0.042
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 9/74 (12%)
Query: 40 TRESLTKIFSKYGKINILVISPKK-RGSALLEFEHADSARRAKLYELG---LPNCPLTLN 95
T E L K FS++GK+ KK + A + F+ D A +A + E+ L + +
Sbjct: 24 TEEILEKAFSQFGKL----ERVKKLKDYAFIHFDERDGAVKA-MEEMNGKDLEGENIEIV 78
Query: 96 YLNPDVEREESRKQ 109
+ P ++ + RK
Sbjct: 79 FAKPPDQKRKERKA 92
Score = 33.0 bits (76), Expect = 0.042
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 9/74 (12%)
Query: 428 TRESLTKIFSKYGKINILVISPKK-RGSALLEFEHADSARRAKLYELG---LPNCPLTLN 483
T E L K FS++GK+ KK + A + F+ D A +A + E+ L + +
Sbjct: 24 TEEILEKAFSQFGKL----ERVKKLKDYAFIHFDERDGAVKA-MEEMNGKDLEGENIEIV 78
Query: 484 YLNPDVEREESRKQ 497
+ P ++ + RK
Sbjct: 79 FAKPPDQKRKERKA 92
>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A
Length = 75
Score = 32.4 bits (75), Expect = 0.044
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 33 STDTDVYTRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
S +T T E + F ++GK++ ++ + + RG + FE D +
Sbjct: 8 SVNT---TVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKV 57
Score = 32.4 bits (75), Expect = 0.044
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 421 STDTDVYTRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
S +T T E + F ++GK++ ++ + + RG + FE D +
Sbjct: 8 SVNT---TVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKV 57
>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related
protein, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 109
Score = 33.1 bits (76), Expect = 0.051
Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 30 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 81
+SS + VY T + + + FS +G+I + + ++G + + F +SA A
Sbjct: 20 QSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQI-MEIRVFPEKGYSFVRFSTHESAAHAI 78
Score = 33.1 bits (76), Expect = 0.051
Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 9/60 (15%)
Query: 418 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
+SS + VY T + + + FS +G+I + + ++G + + F +SA A
Sbjct: 20 QSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQI-MEIRVFPEKGYSFVRFSTHESAAHAI 78
>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding
domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 98
Score = 32.7 bits (75), Expect = 0.060
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 80
+ + + F Y I V G A++ FE D A A
Sbjct: 28 SIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAA 73
Score = 32.7 bits (75), Expect = 0.060
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 468
+ + + F Y I V G A++ FE D A A
Sbjct: 28 SIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAA 73
>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein
1; RRM domain, RBD, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 94
Score = 32.2 bits (74), Expect = 0.066
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T L +IFSKYGK+ + ++ + K +G A + F DSA+
Sbjct: 29 TNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNC 74
Score = 32.2 bits (74), Expect = 0.066
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T L +IFSKYGK+ + ++ + K +G A + F DSA+
Sbjct: 29 TNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNC 74
>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA
processing, mRNA splicing, transport, nucleus,
RNA-binding, spliceosome, transport; NMR {Mus musculus}
Length = 124
Score = 33.1 bits (76), Expect = 0.069
Identities = 12/76 (15%), Positives = 32/76 (42%), Gaps = 6/76 (7%)
Query: 40 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPLT 93
+ + ++F+++G + + S + G+A + FE A +A + + L P+
Sbjct: 48 SDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMD 107
Query: 94 LNYLNPDVEREESRKQ 109
+ + ++ E
Sbjct: 108 IQLVASQIDLEHHHHH 123
Score = 33.1 bits (76), Expect = 0.069
Identities = 12/76 (15%), Positives = 32/76 (42%), Gaps = 6/76 (7%)
Query: 428 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPLT 481
+ + ++F+++G + + S + G+A + FE A +A + + L P+
Sbjct: 48 SDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMD 107
Query: 482 LNYLNPDVEREESRKQ 497
+ + ++ E
Sbjct: 108 IQLVASQIDLEHHHHH 123
>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural
genomics, joint center for struc genomics, JCSG,
protein structure initiative; HET: PGE; 1.95A {Homo
sapiens} PDB: 3b4d_A 3b4m_A
Length = 89
Score = 32.1 bits (74), Expect = 0.076
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T E L F G +N + I S +G A +EF +S R +
Sbjct: 19 TAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 64
Score = 32.1 bits (74), Expect = 0.076
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T E L F G +N + I S +G A +EF +S R +
Sbjct: 19 TAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTS 64
>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 113
Score = 32.4 bits (74), Expect = 0.079
Identities = 12/74 (16%), Positives = 25/74 (33%), Gaps = 21/74 (28%)
Query: 28 RWKSSSTDTDVY--------TRESLTKIFSKYGKINILVISP-------------KKRGS 66
S ++ +Y T + L F + G + + + K +G
Sbjct: 8 DPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGD 67
Query: 67 ALLEFEHADSARRA 80
A + +E +A+ A
Sbjct: 68 ATVSYEDPPTAKAA 81
Score = 32.4 bits (74), Expect = 0.079
Identities = 12/74 (16%), Positives = 25/74 (33%), Gaps = 21/74 (28%)
Query: 416 RWKSSSTDTDVY--------TRESLTKIFSKYGKINILVISP-------------KKRGS 454
S ++ +Y T + L F + G + + + K +G
Sbjct: 8 DPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGD 67
Query: 455 ALLEFEHADSARRA 468
A + +E +A+ A
Sbjct: 68 ATVSYEDPPTAKAA 81
>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 92
Score = 32.2 bits (74), Expect = 0.080
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 31 SSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
S T ++ T + L F +YG + I + A + E A+ A A
Sbjct: 6 SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDI---VKDYAFVHMERAEDAVEA 60
Score = 32.2 bits (74), Expect = 0.080
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 419 SSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
S T ++ T + L F +YG + I + A + E A+ A A
Sbjct: 6 SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDI---VKDYAFVHMERAEDAVEA 60
>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing,
mRNA splicing, mRNA transport, nonsense-mediated mRNA
decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB:
2j0q_D*
Length = 126
Score = 32.7 bits (75), Expect = 0.082
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T E + F++YG+I NI + + +G L+E+E A+ A
Sbjct: 35 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 80
Score = 32.7 bits (75), Expect = 0.082
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T E + F++YG+I NI + + +G L+E+E A+ A
Sbjct: 35 TEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAA 80
>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA
binding protein, structure, protein-RNA complex, RNA
stem-loop, structural protein/RNA complex; NMR {Homo
sapiens}
Length = 116
Score = 32.3 bits (74), Expect = 0.092
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 40 TRESLTKIFSKYGKI-NILVI---SPKKRGSALLEFEHADSARRA 80
+ L +F K+G I +L+I + K RG A + FE+ A+ A
Sbjct: 20 NEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNA 64
Score = 32.3 bits (74), Expect = 0.092
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 428 TRESLTKIFSKYGKI-NILVI---SPKKRGSALLEFEHADSARRA 468
+ L +F K+G I +L+I + K RG A + FE+ A+ A
Sbjct: 20 NEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNA 64
>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing
factor, RNA protein complex, SMN, binding protein-RNA
complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A
Length = 129
Score = 32.4 bits (74), Expect = 0.10
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 5/47 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRAK 81
T L ++FSKYG I ++ ++ S + RG A + FE+ D A+ AK
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 105
Score = 32.4 bits (74), Expect = 0.10
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 5/47 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRAK 469
T L ++FSKYG I ++ ++ S + RG A + FE+ D A+ AK
Sbjct: 59 TERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAK 105
>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation,
RNA-binding, EIF4G-binding translation; 1.90A {Homo
sapiens} PDB: 4f26_A 2k8g_A
Length = 115
Score = 32.2 bits (74), Expect = 0.10
Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 14/88 (15%)
Query: 40 TRESLTKIFSKYGKINILVISPK-------KRGSALLEFEHADSARRA--KLYELGLPNC 90
++L FS +G I +S K +G + FE ++A RA K+ + L +
Sbjct: 18 DNKALYDTFSAFGNI----LSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDR 73
Query: 91 PLTLNYLNPDVEREESRKQPKNPVFSNI 118
+ + ERE + F+N+
Sbjct: 74 KVFVGRFKSRKEREAELGA-RAKEFTNV 100
Score = 32.2 bits (74), Expect = 0.10
Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 14/88 (15%)
Query: 428 TRESLTKIFSKYGKINILVISPK-------KRGSALLEFEHADSARRA--KLYELGLPNC 478
++L FS +G I +S K +G + FE ++A RA K+ + L +
Sbjct: 18 DNKALYDTFSAFGNI----LSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDR 73
Query: 479 PLTLNYLNPDVEREESRKQPKNPVFSNI 506
+ + ERE + F+N+
Sbjct: 74 KVFVGRFKSRKEREAELGA-RAKEFTNV 100
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Length = 95
Score = 31.9 bits (73), Expect = 0.10
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 7/48 (14%)
Query: 40 TRESLTKIFSKYGKI---NILVI----SPKKRGSALLEFEHADSARRA 80
+S+ S Y + NI +I + + RG A ++ A A +
Sbjct: 22 VVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQL 69
Score = 31.9 bits (73), Expect = 0.10
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 7/48 (14%)
Query: 428 TRESLTKIFSKYGKI---NILVI----SPKKRGSALLEFEHADSARRA 468
+S+ S Y + NI +I + + RG A ++ A A +
Sbjct: 22 VVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQL 69
>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP
A1, RNA-recognition motif, RNA- binding, UP1, RNA
binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1
d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A
1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A*
1up1_A
Length = 196
Score = 33.0 bits (76), Expect = 0.12
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
L F +YGKI ++ I S KKRG A + F+ DS +
Sbjct: 117 EEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Score = 33.0 bits (76), Expect = 0.12
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
L F +YGKI ++ I S KKRG A + F+ DS +
Sbjct: 117 EEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI 162
Score = 30.0 bits (68), Expect = 1.2
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T ESL F ++G + V+ + + RG + + + A
Sbjct: 26 TDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 71
Score = 30.0 bits (68), Expect = 1.2
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T ESL F ++G + V+ + + RG + + + A
Sbjct: 26 TDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAA 71
>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; 2.00A {Homo
sapiens} PDB: 2ek6_A
Length = 95
Score = 31.5 bits (72), Expect = 0.12
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVISPKK-----RGSALLEFEHADSARRA 80
+ + + F Y I V G A++ FE D A A
Sbjct: 28 SIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAA 73
Score = 31.5 bits (72), Expect = 0.12
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVISPKK-----RGSALLEFEHADSARRA 468
+ + + F Y I V G A++ FE D A A
Sbjct: 28 SIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAA 73
>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 90
Score = 31.0 bits (71), Expect = 0.16
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
T + L +F + G++ + + A + E A+ A
Sbjct: 22 TSQELRSLFERRGRVIECDV---VKDYAFVHMEKEADAKAA 59
Score = 31.0 bits (71), Expect = 0.16
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 3/41 (7%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
T + L +F + G++ + + A + E A+ A
Sbjct: 22 TSQELRSLFERRGRVIECDV---VKDYAFVHMEKEADAKAA 59
>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger,
CYP33, MLL, RNA binding protein, ALT splicing, mRNA
processing, mRNA splicing; 1.85A {Homo sapiens} PDB:
2kyx_A 3lpy_A*
Length = 85
Score = 31.0 bits (71), Expect = 0.16
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVISP----KKRGSALLEFEHADSARRA 80
+ L F +G I +I + K RG A +EFE A+ A A
Sbjct: 20 DDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 65
Score = 31.0 bits (71), Expect = 0.16
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVISP----KKRGSALLEFEHADSARRA 468
+ L F +G I +I + K RG A +EFE A+ A A
Sbjct: 20 DDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 65
>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA
binding protein-RNA complex; 1.85A {Homo sapiens} PDB:
3nna_A 3nnc_A 2dhs_A 3nnh_A
Length = 175
Score = 32.6 bits (75), Expect = 0.18
Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 7/48 (14%)
Query: 40 TRESLTKIFSKYGKINILVI-------SPKKRGSALLEFEHADSARRA 80
+ + L ++F +YG + + + P+ +G + F +A A
Sbjct: 16 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Score = 32.6 bits (75), Expect = 0.18
Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 7/48 (14%)
Query: 428 TRESLTKIFSKYGKINILVI-------SPKKRGSALLEFEHADSARRA 468
+ + L ++F +YG + + + P+ +G + F +A A
Sbjct: 16 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEA 63
Score = 28.3 bits (64), Expect = 4.1
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 39 YTRESLTKIFSKYGKI---NILVISPKK-RGSALLEFEHADSARRA 80
T + +FS +G+I IL RG A + F A+ A
Sbjct: 107 CTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTA 152
Score = 28.3 bits (64), Expect = 4.1
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 427 YTRESLTKIFSKYGKI---NILVISPKK-RGSALLEFEHADSARRA 468
T + +FS +G+I IL RG A + F A+ A
Sbjct: 107 CTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTA 152
>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif,
RRM, RNA binding domain, RBD, RNP, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 93
Score = 31.1 bits (71), Expect = 0.18
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 9/59 (15%)
Query: 30 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 80
SS +Y T + L ++F + K G A +++ + A RA
Sbjct: 3 SGSSGMNKLYIGNLSPAVTADDLRQLFGDRKLP-LAGQVLLKSGYAFVDYPDQNWAIRA 60
Score = 31.1 bits (71), Expect = 0.18
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 9/59 (15%)
Query: 418 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA 468
SS +Y T + L ++F + K G A +++ + A RA
Sbjct: 3 SGSSGMNKLYIGNLSPAVTADDLRQLFGDRKLP-LAGQVLLKSGYAFVDYPDQNWAIRA 60
>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken
structural genomics/proteomics initiative, RSGI, RNA
binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB:
1wi6_A
Length = 88
Score = 30.8 bits (70), Expect = 0.18
Identities = 5/42 (11%), Positives = 15/42 (35%), Gaps = 2/42 (4%)
Query: 40 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 81
+ + + Y V + + +A + + + A+ A
Sbjct: 18 NCQEVHDLLKDYDLKYCYV--DRNKRTAFVTLLNGEQAQNAI 57
Score = 30.8 bits (70), Expect = 0.18
Identities = 5/42 (11%), Positives = 15/42 (35%), Gaps = 2/42 (4%)
Query: 428 TRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
+ + + Y V + + +A + + + A+ A
Sbjct: 18 NCQEVHDLLKDYDLKYCYV--DRNKRTAFVTLLNGEQAQNAI 57
>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar
mRNA localization, translation; 1.90A {Drosophila
melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A
Length = 165
Score = 32.1 bits (73), Expect = 0.19
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
+ + + F YG+I NI + + +G AL+E+E A A
Sbjct: 85 QEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130
Score = 32.1 bits (73), Expect = 0.19
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
+ + + F YG+I NI + + +G AL+E+E A A
Sbjct: 85 QEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 130
>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline,
PPII helix, peptide recognition, RNA binding protein;
2.20A {Homo sapiens} SCOP: d.58.7.3
Length = 104
Score = 31.4 bits (71), Expect = 0.19
Identities = 10/50 (20%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 35 DTDVYTRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 80
D + E T++ KYG++ + + G+ ++F + A +A
Sbjct: 35 HYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKA 84
Score = 31.4 bits (71), Expect = 0.19
Identities = 10/50 (20%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 423 DTDVYTRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 468
D + E T++ KYG++ + + G+ ++F + A +A
Sbjct: 35 HYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKA 84
>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus
thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A*
1set_A* 1sry_A
Length = 421
Score = 33.3 bits (77), Expect = 0.19
Identities = 15/89 (16%), Positives = 30/89 (33%), Gaps = 10/89 (11%)
Query: 321 KEEVKIRNSKLDATRKKFKE-DLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGS 379
++ + LD D E +E + + + +E + + + + E
Sbjct: 15 HRAIREKGVALDLEA--LLALDREVQELKKRLQEVQ------TERNQVAKRVPKAPPEEK 66
Query: 380 IRLQEEIKLMTEELNAAK-ELSELNAKLN 407
L K + EE + L E A+L
Sbjct: 67 EALIARGKALGEEAKRLEEALREKEARLE 95
>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding,
RNA processing, mRNA processing, nonsense-mediated mRNA
decay, cleavage; NMR {Saccharomyces cerevisiae} PDB:
2km8_C
Length = 167
Score = 32.1 bits (74), Expect = 0.20
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
+ + FS++G I + + + RG + ++ AD+ R
Sbjct: 100 RPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV 145
Score = 32.1 bits (74), Expect = 0.20
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
+ + FS++G I + + + RG + ++ AD+ R
Sbjct: 100 RPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV 145
Score = 29.0 bits (66), Expect = 2.2
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T ++L + F KYG + L I + + RG L FE S
Sbjct: 16 TEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV 61
Score = 29.0 bits (66), Expect = 2.2
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T ++L + F KYG + L I + + RG L FE S
Sbjct: 16 TEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEV 61
>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 115
Score = 31.5 bits (72), Expect = 0.21
Identities = 9/46 (19%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T L +F+++ + + + + RG A + F + + A +A
Sbjct: 38 TERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83
Score = 31.5 bits (72), Expect = 0.21
Identities = 9/46 (19%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T L +F+++ + + + + RG A + F + + A +A
Sbjct: 38 TERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83
>3lss_A Seryl-tRNA synthetase; aminoacyl-tRNA synthetase, tRNA ligase,
AARS, serrs, translation, ATP-binding,
nucleotide-binding, structural genomics; HET: ATP; 1.95A
{Trypanosoma brucei} PDB: 3lsq_A*
Length = 484
Score = 33.1 bits (76), Expect = 0.21
Identities = 19/104 (18%), Positives = 37/104 (35%), Gaps = 10/104 (9%)
Query: 306 LDKSARAAYDSVIRRKEEVK-IRN--SKLDATRKKFKEDLERREKEAENERYKGYKVNKS 362
DK R E K + N SK +KK KE + +
Sbjct: 42 ADKKWRRT----QFLTEASKKLINICSKAVGAKKKAKEADGDTSEIPPQVKEAYENGTLK 97
Query: 363 EEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAAKELSELNAKL 406
E++ Q + +L++ L +++ + +E +E E + +
Sbjct: 98 GEQVEQLCVLQLKQLSK-DLSDQVAGLAKEAQQLEE--ERDKLM 138
>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 31.0 bits (71), Expect = 0.21
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
+ +SL ++F KYG++ ++ + + RG A + F A+ A
Sbjct: 26 SPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDA 71
Score = 31.0 bits (71), Expect = 0.21
Identities = 12/46 (26%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
+ +SL ++F KYG++ ++ + + RG A + F A+ A
Sbjct: 26 SPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDA 71
>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
PDB: 2dgq_A
Length = 106
Score = 31.1 bits (71), Expect = 0.21
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARRA 80
+ L +F ++GKI + V+ + +G A L + +SA +A
Sbjct: 26 DEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
Score = 31.1 bits (71), Expect = 0.21
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARRA 468
+ L +F ++GKI + V+ + +G A L + +SA +A
Sbjct: 26 DEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKA 71
>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 99
Score = 31.0 bits (71), Expect = 0.22
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
L + F K+G + +V+ + RG + FE S +A
Sbjct: 23 GETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQA 68
Score = 31.0 bits (71), Expect = 0.22
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
L + F K+G + +V+ + RG + FE S +A
Sbjct: 23 GETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQA 68
>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 108
Score = 30.9 bits (70), Expect = 0.23
Identities = 13/88 (14%), Positives = 28/88 (31%), Gaps = 9/88 (10%)
Query: 22 NYRLRIRWKSSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA- 80
R+ + S + + L + G + + + G+ ++EF + A
Sbjct: 15 ENRVVVSGLPPSG-----SWQDLKDHMREAGDVCYADV--YRDGTGVVEFVRKEDMTYAV 67
Query: 81 -KLYELGLPNCPLTLNYLNPDVEREESR 107
KL + Y+ V+ S
Sbjct: 68 RKLDNTKFRSHEGETAYIRVKVDGPRSP 95
Score = 30.9 bits (70), Expect = 0.23
Identities = 13/88 (14%), Positives = 28/88 (31%), Gaps = 9/88 (10%)
Query: 410 NYRLRIRWKSSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA- 468
R+ + S + + L + G + + + G+ ++EF + A
Sbjct: 15 ENRVVVSGLPPSG-----SWQDLKDHMREAGDVCYADV--YRDGTGVVEFVRKEDMTYAV 67
Query: 469 -KLYELGLPNCPLTLNYLNPDVEREESR 495
KL + Y+ V+ S
Sbjct: 68 RKLDNTKFRSHEGETAYIRVKVDGPRSP 95
>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A
{Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A
Length = 240
Score = 32.5 bits (73), Expect = 0.24
Identities = 9/51 (17%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 31 SSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 81
+S + +FS+ G I+ + + + ++F++ +A AK
Sbjct: 147 NSKHLKPAQIESRIRFVFSRLGDIDRIRY-VESKNCGFVKFKYQANAEFAK 196
Score = 32.5 bits (73), Expect = 0.24
Identities = 9/51 (17%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 419 SSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRAK 469
+S + +FS+ G I+ + + + ++F++ +A AK
Sbjct: 147 NSKHLKPAQIESRIRFVFSRLGDIDRIRY-VESKNCGFVKFKYQANAEFAK 196
>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM
domaim, RDB, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 100
Score = 30.7 bits (70), Expect = 0.24
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 40 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 80
T+E L +I +G + L + + K +G A +E+E+ A +A
Sbjct: 30 TKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQA 74
Score = 30.7 bits (70), Expect = 0.24
Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 428 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 468
T+E L +I +G + L + + K +G A +E+E+ A +A
Sbjct: 30 TKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQA 74
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 32.4 bits (73), Expect = 0.25
Identities = 22/127 (17%), Positives = 41/127 (32%), Gaps = 10/127 (7%)
Query: 40 TRESLTKIFSKYGKINILVI-------SPKKRGSALLEFEHADSARRA--KLYELGLPNC 90
T E LT+ G +IL I + + +G AL+ S+++ L + L
Sbjct: 81 TDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQ 140
Query: 91 PLTLNYLNPDVEREESRKQPKNPVFSNIDFSGPRDSDSKNVESSNGSDSDSTPNLFPSAN 150
+ +N + + K + G + ++ FP A
Sbjct: 141 NPVVTPVNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGR-FPGAV 199
Query: 151 KSSNIFP 157
+ FP
Sbjct: 200 PGGDRFP 206
Score = 30.5 bits (68), Expect = 1.2
Identities = 16/83 (19%), Positives = 30/83 (36%), Gaps = 9/83 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-------SPKKRGSALLEFEHADSARRA--KLYELGLPNC 478
T E LT+ G +IL I + + +G AL+ S+++ L + L
Sbjct: 81 TDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQ 140
Query: 479 PLTLNYLNPDVEREESRKQPKNP 501
+ +N + + K
Sbjct: 141 NPVVTPVNKQFLSQFEMQSRKTT 163
>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 1.54A {Homo sapiens}
Length = 95
Score = 30.7 bits (70), Expect = 0.26
Identities = 8/45 (17%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKK---RGSALLEFEHADSARRA 80
E L ++F + G + + + ++ + + F+H +S A
Sbjct: 29 REEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYA 73
Score = 30.7 bits (70), Expect = 0.26
Identities = 8/45 (17%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKK---RGSALLEFEHADSARRA 468
E L ++F + G + + + ++ + + F+H +S A
Sbjct: 29 REEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYA 73
>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA
binding domain, RBD, RNP, structural genomics, NPPSFA;
NMR {Homo sapiens}
Length = 95
Score = 30.6 bits (70), Expect = 0.27
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T + L IF +GKI NI+++ + + +G + F ++ ARRA
Sbjct: 18 TEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRA 63
Score = 30.6 bits (70), Expect = 0.27
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T + L IF +GKI NI+++ + + +G + F ++ ARRA
Sbjct: 18 TEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRA 63
>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM,
RNA binding domain, RBD, RNP, structural genomics,
NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 30.7 bits (70), Expect = 0.29
Identities = 7/46 (15%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T + L + FS +G++ ++ + + +G + F ++ +
Sbjct: 28 TEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV 73
Score = 30.7 bits (70), Expect = 0.29
Identities = 7/46 (15%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T + L + FS +G++ ++ + + +G + F ++ +
Sbjct: 28 TEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKV 73
>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A)
binding, structural genomics, protein structure
initiative, PSI-2; NMR {Xenopus laevis}
Length = 124
Score = 31.2 bits (71), Expect = 0.31
Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T + L FS G IN + I S +G A +EF +S A
Sbjct: 49 TAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA 94
Score = 31.2 bits (71), Expect = 0.31
Identities = 15/46 (32%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T + L FS G IN + I S +G A +EF +S A
Sbjct: 49 TAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAA 94
>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA
recognition motif, G-tract, G-quadruplex, alternative
splicing, RNA binding protein; NMR {Homo sapiens} PDB:
2kg0_A
Length = 126
Score = 31.0 bits (70), Expect = 0.31
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 80
T+E + + FS + + P K G A ++F + A +A
Sbjct: 55 TKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKA 100
Score = 31.0 bits (70), Expect = 0.31
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 468
T+E + + FS + + P K G A ++F + A +A
Sbjct: 55 TKEEIVQFFSGLEIVPNGITLPVDPEGKITGEAFVQFASQELAEKA 100
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP
domain, MIF4G domain, RNA maturation, RNA export,
nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP:
d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B
3fey_B 1h6k_X
Length = 156
Score = 31.3 bits (71), Expect = 0.33
Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 15/104 (14%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRAKLYELG--LPNCPL 92
T E + ++FSK G I +++ G +E+ A A Y G L + +
Sbjct: 52 TEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRII 111
Query: 93 TLNYLNPDVEREESRKQPKNPVFSNIDFSGPRDSDSKNVESSNG 136
++ D +E R+ + RD ++ ++ G
Sbjct: 112 RTDW---DAGFKEGRQYGRGR-----SGGQVRDEYRQDYDAGRG 147
Score = 30.9 bits (70), Expect = 0.44
Identities = 17/78 (21%), Positives = 31/78 (39%), Gaps = 10/78 (12%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRAKLYELG--LPNCPL 480
T E + ++FSK G I +++ G +E+ A A Y G L + +
Sbjct: 52 TEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRII 111
Query: 481 TLNYLNPDVEREESRKQP 498
++ D +E R+
Sbjct: 112 RTDW---DAGFKEGRQYG 126
>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 30.9 bits (70), Expect = 0.36
Identities = 20/92 (21%), Positives = 32/92 (34%), Gaps = 12/92 (13%)
Query: 40 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRAKLYELGLPNCPLTL 94
T+ + + V + G AL++F++ D AR++ L L
Sbjct: 28 TKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKS----ERLHRKKLNG 83
Query: 95 NYLNPD-VEREESRKQPKNPVFSNIDFSGPRD 125
V E+ R+ KNP SGP
Sbjct: 84 REAFVHVVTLEDMREIEKNPPAQG--KSGPSS 113
Score = 30.1 bits (68), Expect = 0.66
Identities = 9/46 (19%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 468
T+ + + V + G AL++F++ D AR++
Sbjct: 28 TKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKS 73
>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA,
national project on protein structural and functional
analyses; NMR {Mus musculus} SCOP: d.58.7.1
Length = 111
Score = 30.8 bits (70), Expect = 0.36
Identities = 7/46 (15%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
E+L ++ ++G + + + + +G A +F ++A++
Sbjct: 28 EEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKC 73
Score = 30.8 bits (70), Expect = 0.36
Identities = 7/46 (15%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
E+L ++ ++G + + + + +G A +F ++A++
Sbjct: 28 EEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKC 73
>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 107
Score = 30.4 bits (69), Expect = 0.39
Identities = 16/78 (20%), Positives = 33/78 (42%), Gaps = 13/78 (16%)
Query: 40 TRESLTKIFSKYGKINILVISPKK-------RGSALLEFEHADSARRAKLYELG----LP 88
+ + ++FS +G++ + + PKK RG ++F A++A L L
Sbjct: 28 NQREIRELFSTFGELKTVRL-PKKMTGTGAHRGFGFVDFITKQDAKKA-FNALCHSTHLY 85
Query: 89 NCPLTLNYLNPDVEREES 106
L L + + +V +
Sbjct: 86 GRRLVLEWADSEVTVQSG 103
Score = 30.4 bits (69), Expect = 0.39
Identities = 16/78 (20%), Positives = 33/78 (42%), Gaps = 13/78 (16%)
Query: 428 TRESLTKIFSKYGKINILVISPKK-------RGSALLEFEHADSARRAKLYELG----LP 476
+ + ++FS +G++ + + PKK RG ++F A++A L L
Sbjct: 28 NQREIRELFSTFGELKTVRL-PKKMTGTGAHRGFGFVDFITKQDAKKA-FNALCHSTHLY 85
Query: 477 NCPLTLNYLNPDVEREES 494
L L + + +V +
Sbjct: 86 GRRLVLEWADSEVTVQSG 103
>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics,
RRM domain, riken structural genomics/proteomics
initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 30.5 bits (69), Expect = 0.39
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 80
++E + + FS + + P + G A ++F + A +A
Sbjct: 28 SKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKA 73
Score = 30.5 bits (69), Expect = 0.39
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 468
++E + + FS + + P + G A ++F + A +A
Sbjct: 28 SKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKA 73
>2la6_A RNA-binding protein FUS; structural genomics, northeast
structural genomics consortiu PSI-biology, protein
structure initiative, RNA recognition; NMR {Homo
sapiens}
Length = 99
Score = 30.4 bits (69), Expect = 0.39
Identities = 15/72 (20%), Positives = 25/72 (34%), Gaps = 21/72 (29%)
Query: 30 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISP-------------KKRGSAL 68
S S + ++ T ES+ F + G I + K +G A
Sbjct: 8 HSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEAT 67
Query: 69 LEFEHADSARRA 80
+ F+ SA+ A
Sbjct: 68 VSFDDPPSAKAA 79
Score = 30.4 bits (69), Expect = 0.39
Identities = 15/72 (20%), Positives = 25/72 (34%), Gaps = 21/72 (29%)
Query: 418 KSSSTDTDVY--------TRESLTKIFSKYGKINILVISP-------------KKRGSAL 456
S S + ++ T ES+ F + G I + K +G A
Sbjct: 8 HSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEAT 67
Query: 457 LEFEHADSARRA 468
+ F+ SA+ A
Sbjct: 68 VSFDDPPSAKAA 79
>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR
{Homo sapiens}
Length = 116
Score = 30.4 bits (69), Expect = 0.41
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 13/54 (24%)
Query: 40 TRESLTKIFSKYGKINILVISP-------------KKRGSALLEFEHADSARRA 80
T ES+ F + G I + K +G A + F+ SA+ A
Sbjct: 20 TIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAA 73
Score = 30.4 bits (69), Expect = 0.41
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 13/54 (24%)
Query: 428 TRESLTKIFSKYGKINILVISP-------------KKRGSALLEFEHADSARRA 468
T ES+ F + G I + K +G A + F+ SA+ A
Sbjct: 20 TIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAA 73
>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition
motif, RRM, RNA binding domain, RBD, RNP, structural
genomics; NMR {Mus musculus} SCOP: d.58.7.1
Length = 99
Score = 30.3 bits (69), Expect = 0.42
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
+ E L K+FS YG ++ L + K +G A + F + A +A
Sbjct: 21 SEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKA 66
Score = 30.3 bits (69), Expect = 0.42
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
+ E L K+FS YG ++ L + K +G A + F + A +A
Sbjct: 21 SEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKA 66
>1u2m_A Histone-like protein HLP-1; coiled coil, chaperone; 2.30A
{Escherichia coli} SCOP: f.48.1.1 PDB: 1sg2_A
Length = 143
Score = 31.0 bits (70), Expect = 0.43
Identities = 14/94 (14%), Positives = 35/94 (37%), Gaps = 12/94 (12%)
Query: 315 DSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENER------YKGYKVNKSEEEI-- 366
S+ ++ + ++ L+ K +L+R E + + + G K E+++
Sbjct: 12 GSLFQQVAQKTGVSNTLENEFKGRASELQRMETDLQAKMKKLQSMKAGSDRTKLEKDVMA 71
Query: 367 ----LQQEIDRLRKEGSIRLQEEIKLMTEELNAA 396
Q+ ++ + R EE + + A
Sbjct: 72 QRQTFAQKAQAFEQDRARRSNEERGKLVTRIQTA 105
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 32.0 bits (73), Expect = 0.47
Identities = 21/139 (15%), Positives = 42/139 (30%), Gaps = 20/139 (14%)
Query: 276 KALKCHPDKNPDDKKAI-----ETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVK-IRN- 328
+ +P + + L+ + ++ D R R + + ++N
Sbjct: 6 DLFRVDKGGDPALIRETQEKRFKDPGLVDQLVK--ADSEWRRC----RFRADNLNKLKNL 59
Query: 329 -SKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEEIK 387
SK + K KE + E EN + + +I K+ + + E I
Sbjct: 60 CSKTIGEKMKKKEPVGDDESVPENVLSFDDLTADALANLKVSQI----KKVRLLIDEAIL 115
Query: 388 LMTEELNAAKELSELNAKL 406
E + E L
Sbjct: 116 KCDAERIKLEA--ERFENL 132
>2cqd_A RNA-binding region containing protein 1; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 116
Score = 30.3 bits (69), Expect = 0.47
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T SL K F +G I V+ + K RG + +A RA
Sbjct: 30 TDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
Score = 30.3 bits (69), Expect = 0.47
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T SL K F +G I V+ + K RG + +A RA
Sbjct: 30 TDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA 75
>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif,
C-terminal helix, N-terminal helix, RNA binding protein;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 104
Score = 29.9 bits (68), Expect = 0.50
Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 7/81 (8%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 92
T E L IFS+ G + + ++ + K +G E++ ++A A L L
Sbjct: 21 TEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRAL 80
Query: 93 TLNYLNPDVEREESRKQPKNP 113
++ + +EE +
Sbjct: 81 RVDNAASEKNKEELKSLGTGA 101
Score = 29.9 bits (68), Expect = 0.50
Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 7/81 (8%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 480
T E L IFS+ G + + ++ + K +G E++ ++A A L L
Sbjct: 21 TEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRAL 80
Query: 481 TLNYLNPDVEREESRKQPKNP 501
++ + +EE +
Sbjct: 81 RVDNAASEKNKEELKSLGTGA 101
>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation,
RRM domain, transcr; NMR {Homo sapiens}
Length = 140
Score = 30.5 bits (69), Expect = 0.50
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVISP----KKRGSALLEFEHADSARRA 80
+ L F +G I +I + K RG A +EFE A+ A A
Sbjct: 76 DDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 121
Score = 30.5 bits (69), Expect = 0.50
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVISP----KKRGSALLEFEHADSARRA 468
+ L F +G I +I + K RG A +EFE A+ A A
Sbjct: 76 DDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 121
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 32.1 bits (72), Expect = 0.52
Identities = 15/137 (10%), Positives = 45/137 (32%), Gaps = 12/137 (8%)
Query: 292 IETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAEN 351
+++ + + L +S + A + +E ++ + + + ++ ++E
Sbjct: 640 VQSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEA 699
Query: 352 ERYKGYKVNKSEEEIL-----------QQEIDRLRKEGSIRL-QEEIKLMTEELNAAKEL 399
E+ + + + + + R EG + Q ++K + EL
Sbjct: 700 EKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAEL 759
Query: 400 SELNAKLNPENYRLRIR 416
+ E R +
Sbjct: 760 ERVKKVREMELIYARAQ 776
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 32.0 bits (72), Expect = 0.56
Identities = 22/135 (16%), Positives = 44/135 (32%), Gaps = 22/135 (16%)
Query: 283 DKNPDDKKAIETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDL 342
DKN ++ A F ++ + + + ++V + + L + ++
Sbjct: 846 DKNGNNLAAQVEFETFNRQLNAVNRHTGSKLVNAVQQDVHAI------LQLGEAQIEKSA 899
Query: 343 ERREKEAENERYKGYKVNKSEEEILQQEIDRLRK----EGSIRLQEEIKLMTEELNAAKE 398
A NE +E L E+ RL +IR +E+ + E
Sbjct: 900 RALIDAARNEA----------DEKLSAELSRLEALRAVNPNIR-DDELTAIESNRQQVME 948
Query: 399 LSELNAKLNPENYRL 413
+ A + RL
Sbjct: 949 SLD-QAGWRLDALRL 962
>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex,
mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB:
2x1b_A 2x1a_A 2km8_B
Length = 96
Score = 29.9 bits (68), Expect = 0.56
Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARRA 80
T E + + S G + N+ ++ + +G A +EF +S+ A
Sbjct: 15 TEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Score = 29.9 bits (68), Expect = 0.56
Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARRA 468
T E + + S G + N+ ++ + +G A +EF +S+ A
Sbjct: 15 TEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain.,
transport protein; NMR {Mus musculus}
Length = 177
Score = 31.0 bits (70), Expect = 0.57
Identities = 12/76 (15%), Positives = 32/76 (42%), Gaps = 6/76 (7%)
Query: 40 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPLT 93
+ + ++F+++G + + S + G+A + FE A +A + + L P+
Sbjct: 101 SDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMD 160
Query: 94 LNYLNPDVEREESRKQ 109
+ + ++ E
Sbjct: 161 IQLVASQIDLEHHHHH 176
Score = 31.0 bits (70), Expect = 0.57
Identities = 12/76 (15%), Positives = 32/76 (42%), Gaps = 6/76 (7%)
Query: 428 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPLT 481
+ + ++F+++G + + S + G+A + FE A +A + + L P+
Sbjct: 101 SDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMD 160
Query: 482 LNYLNPDVEREESRKQ 497
+ + ++ E
Sbjct: 161 IQLVASQIDLEHHHHH 176
>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding
protein; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 109
Score = 30.0 bits (68), Expect = 0.60
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKK--RGSALLEFEHADSARRA 80
L ++F ++GKI ++ +I ++ +G + FE++ A RA
Sbjct: 42 RDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRA 85
Score = 30.0 bits (68), Expect = 0.60
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKK--RGSALLEFEHADSARRA 468
L ++F ++GKI ++ +I ++ +G + FE++ A RA
Sbjct: 42 RDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRA 85
>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain,
RBD, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 114
Score = 29.9 bits (67), Expect = 0.60
Identities = 15/91 (16%), Positives = 30/91 (32%), Gaps = 16/91 (17%)
Query: 40 TRESLTKIFSKYGKINILVISPKK-------RGSALLEFEHADSARRAKLYELGLPNCPL 92
+ +T F ++G + + + +G A L F+ S + + C
Sbjct: 21 DEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQAL------IDACLE 74
Query: 93 TLN--YLNPDVEREESRK-QPKNPVFSNIDF 120
YL + + Q + S+ DF
Sbjct: 75 EDGKLYLCVSSPTIKDKPVQIRPWNLSDSDF 105
Score = 29.9 bits (67), Expect = 0.60
Identities = 15/91 (16%), Positives = 30/91 (32%), Gaps = 16/91 (17%)
Query: 428 TRESLTKIFSKYGKINILVISPKK-------RGSALLEFEHADSARRAKLYELGLPNCPL 480
+ +T F ++G + + + +G A L F+ S + + C
Sbjct: 21 DEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEESSVQAL------IDACLE 74
Query: 481 TLN--YLNPDVEREESRK-QPKNPVFSNIDF 508
YL + + Q + S+ DF
Sbjct: 75 EDGKLYLCVSSPTIKDKPVQIRPWNLSDSDF 105
>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 102
Score = 29.5 bits (67), Expect = 0.70
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVISP----KKRGSALLEFEHADSARRA 80
+ L F +G I +I + K RG A +EFE A+ A A
Sbjct: 25 DDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 70
Score = 29.5 bits (67), Expect = 0.70
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVISP----KKRGSALLEFEHADSARRA 468
+ L F +G I +I + K RG A +EFE A+ A A
Sbjct: 25 DDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAA 70
>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP,
structural genomics, NPPSFA; NMR {Mus musculus} SCOP:
d.58.7.1
Length = 98
Score = 29.5 bits (67), Expect = 0.73
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 8/49 (16%)
Query: 40 TRESLTKIFSKYGKINILVISPKK--------RGSALLEFEHADSARRA 80
T E+L +FSK G I IS KK G +E++ + A++A
Sbjct: 18 TEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 66
Score = 29.5 bits (67), Expect = 0.73
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 8/49 (16%)
Query: 428 TRESLTKIFSKYGKINILVISPKK--------RGSALLEFEHADSARRA 468
T E+L +FSK G I IS KK G +E++ + A++A
Sbjct: 18 TEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 66
>1w26_A Trigger factor, TF; chaperone, protein folding, ribosome associated
protein, nascent chain, cell division, isomerase; 2.7A
{Escherichia coli} SCOP: a.223.1.1 d.241.2.1 d.26.1.1
PDB: 2vrh_A 1w2b_5
Length = 432
Score = 31.5 bits (72), Expect = 0.76
Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 9/86 (10%)
Query: 331 LDATRKKFKEDLERREKEAENERYKG------YKVNKSE--EEILQQEIDRLRKEGSIRL 382
++ R + ++++ER K A R K K N + ++ EID LR++ + R
Sbjct: 263 VEGLRAEVRKNMERELKSAIRNRVKSQAIEGLVKANDIDVPAALIDSEIDVLRRQAAQRF 322
Query: 383 QEEIKLMTEELNAA-KELSELNAKLN 407
K E +E ++ +
Sbjct: 323 GGNEKQALELPRELFEEQAKRRVVVG 348
>2cja_A Seryl-tRNA synthetase; ligase, zinc ION; HET: MSE ATP; 2.2A
{Methanosarcina barkeri} PDB: 2cim_A* 2cj9_A* 2cjb_A
Length = 522
Score = 31.2 bits (70), Expect = 0.78
Identities = 11/73 (15%), Positives = 24/73 (32%)
Query: 320 RKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGS 379
R EV+ K+ A + + + E ++ E E+ + DR+
Sbjct: 114 RGIEVESFIIKVPADHELRMLKVPYIKSMENIEGGIQLELEVGEAEMKNRVPDRILTLLE 173
Query: 380 IRLQEEIKLMTEE 392
+++ E
Sbjct: 174 EKIEAAQYGAKAE 186
>3qwe_A GMIP, GEM-interacting protein; structural genomics consortium, SGC,
protein binding; 2.40A {Homo sapiens}
Length = 279
Score = 31.0 bits (69), Expect = 0.81
Identities = 19/111 (17%), Positives = 42/111 (37%), Gaps = 7/111 (6%)
Query: 289 KKAIETFHLLSKAIEVLLDKSA---RAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERR 345
K+ E L +A + +S + S + SK R++ +E+ + +
Sbjct: 126 KRMNEAVQALRRAQLQYVQRSEDLRARSQGSPEDSAPQASPGPSKQQERRRRSREEAQAK 185
Query: 346 EKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEEIKLMTEELNAA 396
+EAE Y+ E QQ+++ ++ +++ + E L
Sbjct: 186 AQEAEAL----YQACVREANARQQDLEIAKQRIVSHVRKLVFQGDEVLRRV 232
>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif,
RRM, RNP, structural genomics, NPPSFA; NMR {Mus
musculus} SCOP: d.58.7.1
Length = 111
Score = 29.4 bits (66), Expect = 0.84
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 11/55 (20%)
Query: 34 TDTDVYTRESLTKIFSKYGKINILVISPKK--------RGSALLEFEHADSARRA 80
D +V R + F K+GKI+ +VI+ SA + + ++ A RA
Sbjct: 28 ADPEVLKRP---EYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRA 79
Score = 29.4 bits (66), Expect = 0.84
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 11/55 (20%)
Query: 422 TDTDVYTRESLTKIFSKYGKINILVISPKK--------RGSALLEFEHADSARRA 468
D +V R + F K+GKI+ +VI+ SA + + ++ A RA
Sbjct: 28 ADPEVLKRP---EYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRA 79
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase,
SR protein, PRE-mRNA splicing, at binding, chromosome
partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP:
d.58.7.1 PDB: 2o3d_A 1wg4_A
Length = 115
Score = 29.4 bits (66), Expect = 0.88
Identities = 15/107 (14%), Positives = 32/107 (29%), Gaps = 9/107 (8%)
Query: 22 NYRLRIRWKSSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA- 80
R+ + S + + L + G + + + G+ ++EF + A
Sbjct: 16 ENRVVVSGLPPSG-----SWQDLKDHMREAGDVCYADV--YRDGTGVVEFVRKEDMTYAV 68
Query: 81 -KLYELGLPNCPLTLNYLNPDVEREESRKQPKNPVFSNIDFSGPRDS 126
KL + Y+ V+ S ++ S S
Sbjct: 69 RKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRSRSRSRSRSRSRSRS 115
Score = 29.4 bits (66), Expect = 0.90
Identities = 13/94 (13%), Positives = 30/94 (31%), Gaps = 9/94 (9%)
Query: 410 NYRLRIRWKSSSTDTDVYTRESLTKIFSKYGKINILVISPKKRGSALLEFEHADSARRA- 468
R+ + S + + L + G + + + G+ ++EF + A
Sbjct: 16 ENRVVVSGLPPSG-----SWQDLKDHMREAGDVCYADV--YRDGTGVVEFVRKEDMTYAV 68
Query: 469 -KLYELGLPNCPLTLNYLNPDVEREESRKQPKNP 501
KL + Y+ V+ S ++
Sbjct: 69 RKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRSR 102
>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing,
transcription, RNA binding protein, mRNA processing; NMR
{Homo sapiens} PDB: 2yh1_A
Length = 198
Score = 30.4 bits (69), Expect = 0.89
Identities = 15/95 (15%), Positives = 28/95 (29%), Gaps = 11/95 (11%)
Query: 40 TRESLTKIFSKYGKINILVISPKK----------RGSALLEFEHADSARRA-KLYELGLP 88
T E++ F+ ++ L +P + A LEF D +A +
Sbjct: 17 TEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQ 76
Query: 89 NCPLTLNYLNPDVEREESRKQPKNPVFSNIDFSGP 123
L + + + P V + P
Sbjct: 77 GQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVP 111
Score = 30.4 bits (69), Expect = 0.89
Identities = 15/95 (15%), Positives = 28/95 (29%), Gaps = 11/95 (11%)
Query: 428 TRESLTKIFSKYGKINILVISPKK----------RGSALLEFEHADSARRA-KLYELGLP 476
T E++ F+ ++ L +P + A LEF D +A +
Sbjct: 17 TEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQ 76
Query: 477 NCPLTLNYLNPDVEREESRKQPKNPVFSNIDFSGP 511
L + + + P V + P
Sbjct: 77 GQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVP 111
Score = 28.1 bits (63), Expect = 6.2
Identities = 5/46 (10%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
+ + ++ + +G + + + +G A E+ + +A
Sbjct: 127 NDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA 172
Score = 28.1 bits (63), Expect = 6.2
Identities = 5/46 (10%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
+ + ++ + +G + + + +G A E+ + +A
Sbjct: 127 NDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQA 172
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 31.2 bits (71), Expect = 0.96
Identities = 11/97 (11%), Positives = 35/97 (36%), Gaps = 9/97 (9%)
Query: 316 SVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERY-KGYKVNKSEEEILQ-----Q 369
++R I N + +E +++ + Y + + + +++
Sbjct: 114 IIMRENFIPTIVNFSAEEISDAIREKMKKNYMSNPSYNYEIVNRASLAAGPMVKWAIAQL 173
Query: 370 EIDRLRKEGSIRLQEEIKLMTEELNAAKELSELNAKL 406
+ K L+ E++ + ++ ++ +L A L
Sbjct: 174 NYADMLKRVE-PLRNELQKLEDDAKDNQQ--KLEALL 207
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 30.3 bits (67), Expect = 1.1
Identities = 13/66 (19%), Positives = 29/66 (43%), Gaps = 8/66 (12%)
Query: 315 DSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGY--------KVNKSEEEI 366
+S+ + +EE + R +LDA K +++ + K+ E + N+ ++
Sbjct: 100 ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 159
Query: 367 LQQEID 372
Q+ D
Sbjct: 160 FYQQPD 165
>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 114
Score = 29.2 bits (66), Expect = 1.2
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
L FS GK+ + I S + +G A +EF S A
Sbjct: 38 RPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLA 83
Score = 29.2 bits (66), Expect = 1.2
Identities = 13/46 (28%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
L FS GK+ + I S + +G A +EF S A
Sbjct: 38 RPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLA 83
>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic
vesicle, protein transport, transport, vacuole; 2.80A
{Saccharomyces cerevisiae}
Length = 152
Score = 29.9 bits (66), Expect = 1.2
Identities = 24/125 (19%), Positives = 49/125 (39%), Gaps = 9/125 (7%)
Query: 299 SKAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYK 358
KA E + + D +IRR + + + L+ + + ++
Sbjct: 12 KKAKEERSNPQTDSMDDLLIRRLTDRNDKEAHLNELFQDNSGAIGGNIVSHDDALLNTLA 71
Query: 359 VNKSEEEILQQEIDRLRKEGSIR------LQEEIKLMTEELNAAKELSELNAKLNPENYR 412
+ + E + +QEI RL++ +++ L + T E N L + + L E+ +
Sbjct: 72 ILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNV---LQQKLSDLKKEHSQ 128
Query: 413 LRIRW 417
L RW
Sbjct: 129 LVARW 133
>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49)
(SAP 49) (SF3B50)...; structure genomics,RRM
domain,splicing factor 3B; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 105
Score = 28.8 bits (65), Expect = 1.3
Identities = 12/77 (15%), Positives = 29/77 (37%), Gaps = 7/77 (9%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 92
+ L ++F + G + N + + + +G +EF + A A + + L P+
Sbjct: 28 SEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPI 87
Query: 93 TLNYLNPDVEREESRKQ 109
+N + +
Sbjct: 88 RVNKASAHNKNLSGPSS 104
Score = 28.8 bits (65), Expect = 1.3
Identities = 12/77 (15%), Positives = 29/77 (37%), Gaps = 7/77 (9%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 480
+ L ++F + G + N + + + +G +EF + A A + + L P+
Sbjct: 28 SEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPI 87
Query: 481 TLNYLNPDVEREESRKQ 497
+N + +
Sbjct: 88 RVNKASAHNKNLSGPSS 104
>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 28.7 bits (65), Expect = 1.5
Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 7/74 (9%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 92
L ++F +G I I + + + +G A + F + A RA + G + L
Sbjct: 28 RETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLIL 87
Query: 93 TLNYLNPDVEREES 106
+ + P S
Sbjct: 88 NVEWAKPSTNSGPS 101
Score = 28.7 bits (65), Expect = 1.5
Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 7/74 (9%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 480
L ++F +G I I + + + +G A + F + A RA + G + L
Sbjct: 28 RETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLIL 87
Query: 481 TLNYLNPDVEREES 494
+ + P S
Sbjct: 88 NVEWAKPSTNSGPS 101
>1hjb_A Ccaat/enhancer binding protein beta; transcription/DNA, protein-DNA
complex; HET: DNA; 3.0A {Homo sapiens} SCOP: h.1.3.1
Length = 87
Score = 28.4 bits (63), Expect = 1.5
Identities = 17/74 (22%), Positives = 32/74 (43%), Gaps = 2/74 (2%)
Query: 326 IRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEE 385
+++ K E RRE+ R K K Q ++ L E + RLQ++
Sbjct: 1 VKSKAKKTVDKHSDEYKIRRERNNIAVR-KSRDKAKMRNLETQHKVLELTAE-NERLQKK 58
Query: 386 IKLMTEELNAAKEL 399
++ ++ EL+ + L
Sbjct: 59 VEQLSRELSTLRNL 72
>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 103
Score = 28.8 bits (65), Expect = 1.5
Identities = 11/73 (15%), Positives = 27/73 (36%), Gaps = 5/73 (6%)
Query: 40 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA-KLYELGLPNCPLTL 94
+ + IF ++ ++ + K +G +EF+ DS + A L + L +
Sbjct: 28 VQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRV 87
Query: 95 NYLNPDVEREESR 107
+ + +
Sbjct: 88 DIAEGRKQDKSGP 100
Score = 28.8 bits (65), Expect = 1.5
Identities = 11/73 (15%), Positives = 27/73 (36%), Gaps = 5/73 (6%)
Query: 428 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA-KLYELGLPNCPLTL 482
+ + IF ++ ++ + K +G +EF+ DS + A L + L +
Sbjct: 28 VQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRV 87
Query: 483 NYLNPDVEREESR 495
+ + +
Sbjct: 88 DIAEGRKQDKSGP 100
>2v0o_A FCHO2, FCH domain only protein 2; lipid-binding protein, EFC
domain, vesicle trafficking, membrane curvature,
endocytosis, exocytosis, F-BAR domain; 2.30A {Homo
sapiens}
Length = 276
Score = 30.0 bits (67), Expect = 1.5
Identities = 19/101 (18%), Positives = 38/101 (37%), Gaps = 3/101 (2%)
Query: 322 EEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEE--EILQQEIDRLRKEGS 379
+EV+ + + KK KE++ + + + + KS+E E +RL+KEG+
Sbjct: 101 KEVQKYGEEQVKSHKKTKEEVAGTLEAVQTIQSITQALQKSKENYNAKCVEQERLKKEGA 160
Query: 380 IRLQEEIKLMTEELNAAKELSELNAKLNPENYRLRIRWKSS 420
+ +E K + A K + +
Sbjct: 161 TQ-REIEKAAVKSKKATDTYKLYVEKYALAKADFEQKMTET 200
>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA
splicing factor, RNA recognition motif, RNA binding
protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A
Length = 172
Score = 29.5 bits (67), Expect = 1.7
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 10/51 (19%)
Query: 40 TRESLTKIFSKYGKINILVISPKK----------RGSALLEFEHADSARRA 80
T E++ F+ ++ L +P + A LEF D +A
Sbjct: 17 TEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQA 67
Score = 29.5 bits (67), Expect = 1.7
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 10/51 (19%)
Query: 428 TRESLTKIFSKYGKINILVISPKK----------RGSALLEFEHADSARRA 468
T E++ F+ ++ L +P + A LEF D +A
Sbjct: 17 TEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQA 67
Score = 29.5 bits (67), Expect = 1.7
Identities = 8/73 (10%), Positives = 23/73 (31%), Gaps = 17/73 (23%)
Query: 25 LRIRWKSSSTDTDVYTR------------ESLTKIFSKYGKINILVI-----SPKKRGSA 67
L+IR + + + ++ + +G + + + +G A
Sbjct: 80 LKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYA 139
Query: 68 LLEFEHADSARRA 80
E+ + +A
Sbjct: 140 FCEYVDINVTDQA 152
Score = 29.5 bits (67), Expect = 1.7
Identities = 8/73 (10%), Positives = 23/73 (31%), Gaps = 17/73 (23%)
Query: 413 LRIRWKSSSTDTDVYTR------------ESLTKIFSKYGKINILVI-----SPKKRGSA 455
L+IR + + + ++ + +G + + + +G A
Sbjct: 80 LKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYA 139
Query: 456 LLEFEHADSARRA 468
E+ + +A
Sbjct: 140 FCEYVDINVTDQA 152
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA
binding domain, RBD, RNA splicing, apoptosis,
phosphoprotein, RNA-binding; 1.95A {Homo sapiens}
Length = 87
Score = 28.3 bits (64), Expect = 1.7
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T ++ F+ +G+I + V+ + K +G + F + A A
Sbjct: 19 TTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 64
Score = 28.3 bits (64), Expect = 1.7
Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T ++ F+ +G+I + V+ + K +G + F + A A
Sbjct: 19 TTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 64
>1x4e_A RNA binding motif, single-stranded interacting protein 2;
structural genomics, RRM domain, NPPSFA; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 85
Score = 27.9 bits (63), Expect = 1.7
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARRA 80
T + L K+ YGKI + I K +G ++F+ +A++A
Sbjct: 18 TDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
Score = 27.9 bits (63), Expect = 1.7
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKK----RGSALLEFEHADSARRA 468
T + L K+ YGKI + I K +G ++F+ +A++A
Sbjct: 18 TDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKA 63
>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 = 29.1 bits (64), Expect = 1.8
Identities = 7/21 (33%), Positives = 12/21 (57%), Gaps = 4/21 (19%)
Query: 321 KEEVKIRNSKLDATRKKFKED 341
K+ +K KL A+ K + +D
Sbjct: 19 KQALK----KLQASLKLYADD 35
>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 96
Score = 28.4 bits (63), Expect = 1.8
Identities = 11/68 (16%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 41 RESLTKIFSKYGKINILVISPKKRGS--ALLEFEHADSARRA--KLYELGLPNCPLTLNY 96
++ L + F+++GK+ + +SP A+++ E+ A A L+ + + + ++
Sbjct: 27 QQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL 86
Query: 97 LNPDVERE 104
Sbjct: 87 ATGASGPS 94
Score = 28.4 bits (63), Expect = 1.8
Identities = 11/68 (16%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 429 RESLTKIFSKYGKINILVISPKKRGS--ALLEFEHADSARRA--KLYELGLPNCPLTLNY 484
++ L + F+++GK+ + +SP A+++ E+ A A L+ + + + ++
Sbjct: 27 QQLLQEAFARHGKVKSVELSPHTDYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL 86
Query: 485 LNPDVERE 492
Sbjct: 87 ATGASGPS 94
>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural
genomi center for structural genomics, JCSG, protein
structure INI PSI-biology; 2.54A {Homo sapiens} PDB:
1no8_A
Length = 107
Score = 28.4 bits (64), Expect = 1.9
Identities = 9/45 (20%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 40 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 80
+ + ++F+++G + + S + G+A + FE A +A
Sbjct: 42 SDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKA 86
Score = 28.4 bits (64), Expect = 1.9
Identities = 9/45 (20%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 428 TRESLTKIFSKYGKINILVI----SPKKRGSALLEFEHADSARRA 468
+ + ++F+++G + + S + G+A + FE A +A
Sbjct: 42 SDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKA 86
>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H';
structural genomics, RRM domain, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: d.58.7.1
Length = 102
Score = 28.5 bits (64), Expect = 1.9
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 40 TRESLTKIFSKYGKINILVI---SPKKRGSALLEFEHADSARRA 80
T + FS + + + + G A +EF + A A
Sbjct: 28 TENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAA 71
Score = 28.5 bits (64), Expect = 1.9
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 3/44 (6%)
Query: 428 TRESLTKIFSKYGKINILVI---SPKKRGSALLEFEHADSARRA 468
T + FS + + + + G A +EF + A A
Sbjct: 28 TENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAA 71
>1t11_A Trigger factor, TF; helix-turn-helix, four-helix-bundle, ppiase,
chaperone; 2.50A {Vibrio cholerae} SCOP: a.223.1.1
d.241.2.1 d.26.1.1 PDB: 1l1p_A
Length = 392
Score = 29.9 bits (68), Expect = 2.0
Identities = 17/86 (19%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 331 LDATRKKFKEDLERREKEAENERYKG------YKVNKSE--EEILQQEIDRLRKEGSIRL 382
+DA + + ++++ER K+A R K K N+ + ++ QEI+ LR++ + R
Sbjct: 266 VDALKAEVRKNMERELKQAIKARIKEQAIEGLVKENEIQVPSALIDQEINVLRQQAAQRF 325
Query: 383 QEEIKLMTEELNAA-KELSELNAKLN 407
++ + +E ++ +
Sbjct: 326 GGNVEAAAQLPRELFEEQAKRRVVVG 351
>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif,
G-tract, G-quadruplex, alternative splicing, RNA binding
protein; NMR {Homo sapiens} PDB: 2kg1_A
Length = 139
Score = 29.0 bits (65), Expect = 2.0
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 40 TRESLTKIFSKYGKINI-LVISP--KKRGSALLEFEHADSARRA 80
T + FS + + + I P + G A +EF + A A
Sbjct: 59 TENDIYNFFSPLNPVRVHIEIGPDGRVTGEADVEFATHEEAVAA 102
Score = 29.0 bits (65), Expect = 2.0
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 428 TRESLTKIFSKYGKINI-LVISP--KKRGSALLEFEHADSARRA 468
T + FS + + + I P + G A +EF + A A
Sbjct: 59 TENDIYNFFSPLNPVRVHIEIGPDGRVTGEADVEFATHEEAVAA 102
>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper),
RRM2 domain, solution structure, structural genomics,
PSI-2; NMR {Homo sapiens}
Length = 108
Score = 28.4 bits (64), Expect = 2.0
Identities = 11/46 (23%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T + L IF +G+I +I ++ + + +G + F ++ A++A
Sbjct: 39 TEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKA 84
Score = 28.4 bits (64), Expect = 2.0
Identities = 11/46 (23%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T + L IF +G+I +I ++ + + +G + F ++ A++A
Sbjct: 39 TEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKA 84
>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif,
U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein;
2.50A {Homo sapiens}
Length = 143
Score = 29.0 bits (65), Expect = 2.1
Identities = 11/81 (13%), Positives = 29/81 (35%), Gaps = 12/81 (14%)
Query: 40 TRESLTKIFSKYGKIN----------ILVISPKKRGSALLEFEHADSARRAKLYELGLP- 88
+ L IF +Y + L+ + +G A + + +A +A G
Sbjct: 58 QEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVL 117
Query: 89 -NCPLTLNYLNPDVEREESRK 108
P+ + + +++ ++
Sbjct: 118 FGKPMVVQFARSARPKQDPKE 138
Score = 29.0 bits (65), Expect = 2.1
Identities = 11/81 (13%), Positives = 29/81 (35%), Gaps = 12/81 (14%)
Query: 428 TRESLTKIFSKYGKIN----------ILVISPKKRGSALLEFEHADSARRAKLYELGLP- 476
+ L IF +Y + L+ + +G A + + +A +A G
Sbjct: 58 QEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVL 117
Query: 477 -NCPLTLNYLNPDVEREESRK 496
P+ + + +++ ++
Sbjct: 118 FGKPMVVQFARSARPKQDPKE 138
>1gu4_A CAAT/enhancer binding protein beta; transcription/DNA, protein-DNA
complex, transcription factor, BZIP, C/EBP; 1.80A {Homo
sapiens} SCOP: h.1.3.1 PDB: 1gtw_A 1gu5_A 1h88_A 1h8a_A
1io4_A 2e43_A* 2e42_A* 1h89_A 1ci6_B 1nwq_A
Length = 78
Score = 27.6 bits (61), Expect = 2.2
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 2/74 (2%)
Query: 326 IRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEE 385
+++ K E RRE+ R K K Q ++ L E RLQ++
Sbjct: 1 VKSKAKKTVDKHSDEYKIRRERNNIAVR-KSRDKAKMRNLETQHKVLELTAENE-RLQKK 58
Query: 386 IKLMTEELNAAKEL 399
++ ++ EL+ + L
Sbjct: 59 VEQLSRELSTLRNL 72
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain,
poly(A) site recognition, RNA, nuclear, RNA BIND
protein; 2.70A {Homo sapiens} PDB: 3p6y_C
Length = 90
Score = 27.9 bits (63), Expect = 2.2
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 7/49 (14%)
Query: 40 TRESLTKIFSKYGKINIL---VI----SPKKRGSALLEFEHADSARRAK 81
T E LT+ G +IL + + +G AL+ S+++
Sbjct: 14 TDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 62
Score = 27.9 bits (63), Expect = 2.2
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 7/49 (14%)
Query: 428 TRESLTKIFSKYGKINIL---VI----SPKKRGSALLEFEHADSARRAK 469
T E LT+ G +IL + + +G AL+ S+++
Sbjct: 14 TDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLM 62
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently
linked comple supercoiling; HET: DNA PTR TSP; 2.48A
{Saccharomyces cerevisiae} PDB: 3l4k_A* 1bjt_A 1bgw_A
2rgr_A*
Length = 757
Score = 30.0 bits (67), Expect = 2.3
Identities = 16/88 (18%), Positives = 29/88 (32%)
Query: 314 YDSVIRRKEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDR 373
+ +ED E ++ EN ++ + E +L I
Sbjct: 644 GKPYYGSPNDEIAEQINDVKGATSDEEDEESSHEDTENVINGPEELYGTYEYLLGMRIWS 703
Query: 374 LRKEGSIRLQEEIKLMTEELNAAKELSE 401
L KE +L ++ + EL +LS
Sbjct: 704 LTKERYQKLLKQKQEKETELENLLKLSA 731
>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like,
structural genomics, joint center for struc genomics,
JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A
Length = 87
Score = 27.5 bits (62), Expect = 2.4
Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
+++ L F+K+G++ I + + RG + F+ A S +
Sbjct: 24 SKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKV 69
Score = 27.5 bits (62), Expect = 2.4
Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
+++ L F+K+G++ I + + RG + F+ A S +
Sbjct: 24 SKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKV 69
>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} SCOP: d.58.7.1
Length = 103
Score = 27.6 bits (62), Expect = 3.0
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 40 TRESLTKIFSKYGKI-NILVISPKK--RGSALLEFEHADSARRA 80
L ++F ++GKI ++ +I ++ +G + FE++ A RA
Sbjct: 28 RDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRA 71
Score = 27.6 bits (62), Expect = 3.0
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 428 TRESLTKIFSKYGKI-NILVISPKK--RGSALLEFEHADSARRA 468
L ++F ++GKI ++ +I ++ +G + FE++ A RA
Sbjct: 28 RDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRA 71
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A
{Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Length = 216
Score = 28.8 bits (65), Expect = 3.1
Identities = 15/88 (17%), Positives = 39/88 (44%), Gaps = 9/88 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 92
+++ + F+ +G I +I + + K +G A +E+E ++A+ A ++ + L +
Sbjct: 41 GEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNI 100
Query: 93 TLNYLNPDVEREESRKQPKNPV--FSNI 118
+ + + + Q F+ I
Sbjct: 101 KVGRPSNIGQAQPIIDQLAEEARAFNRI 128
Score = 28.8 bits (65), Expect = 3.1
Identities = 15/88 (17%), Positives = 39/88 (44%), Gaps = 9/88 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA--KLYELGLPNCPL 480
+++ + F+ +G I +I + + K +G A +E+E ++A+ A ++ + L +
Sbjct: 41 GEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNI 100
Query: 481 TLNYLNPDVEREESRKQPKNPV--FSNI 506
+ + + + Q F+ I
Sbjct: 101 KVGRPSNIGQAQPIIDQLAEEARAFNRI 128
Score = 28.8 bits (65), Expect = 3.1
Identities = 11/46 (23%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
+ + + +F +GKI + + K +G +E+E A S++ A
Sbjct: 138 SDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDA 183
Score = 28.8 bits (65), Expect = 3.1
Identities = 11/46 (23%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
+ + + +F +GKI + + K +G +E+E A S++ A
Sbjct: 138 SDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDA 183
>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.58.7.1
Length = 124
Score = 28.3 bits (63), Expect = 3.1
Identities = 7/46 (15%), Positives = 14/46 (30%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 80
+ + F K + + K G +EF + + A
Sbjct: 38 ENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAA 83
Score = 28.3 bits (63), Expect = 3.1
Identities = 7/46 (15%), Positives = 14/46 (30%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVISP-----KKRGSALLEFEHADSARRA 468
+ + F K + + K G +EF + + A
Sbjct: 38 ENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAA 83
>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR
{Mus musculus} SCOP: d.58.7.1
Length = 77
Score = 27.1 bits (61), Expect = 3.4
Identities = 8/46 (17%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T+E L + F ++G++ ++ + + RG + F +
Sbjct: 13 TQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 58
Score = 27.1 bits (61), Expect = 3.4
Identities = 8/46 (17%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T+E L + F ++G++ ++ + + RG + F +
Sbjct: 13 TQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV 58
>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 123
Score = 27.9 bits (62), Expect = 3.8
Identities = 9/49 (18%), Positives = 16/49 (32%), Gaps = 8/49 (16%)
Query: 40 TRESLTKIFSKYGKINILVISP--------KKRGSALLEFEHADSARRA 80
T E + F ++ I + G A + F + A+ A
Sbjct: 36 TAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNA 84
Score = 27.9 bits (62), Expect = 3.8
Identities = 9/49 (18%), Positives = 16/49 (32%), Gaps = 8/49 (16%)
Query: 428 TRESLTKIFSKYGKINILVISP--------KKRGSALLEFEHADSARRA 468
T E + F ++ I + G A + F + A+ A
Sbjct: 36 TAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNA 84
>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2dh9_A
Length = 92
Score = 27.2 bits (61), Expect = 3.9
Identities = 12/44 (27%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 40 TRESLTKIFSKYGKI---NILVISPKKRGSALLEFEHADSARRA 80
T + L F++ G + +I + + K +G +++FE + A RA
Sbjct: 21 TWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERA 64
Score = 27.2 bits (61), Expect = 3.9
Identities = 12/44 (27%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 428 TRESLTKIFSKYGKI---NILVISPKKRGSALLEFEHADSARRA 468
T + L F++ G + +I + + K +G +++FE + A RA
Sbjct: 21 TWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERA 64
>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics,
joint center for struc genomics, JCSG, protein
structure initiative, PSI-biology; HET: MSE CIT; 0.95A
{Mus musculus} PDB: 2lq5_A
Length = 114
Score = 27.7 bits (62), Expect = 3.9
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 48 FSKYGKI-NILVISPKKRGSALLEFEHADSARRA 80
+K+G + +I V +G+ ++ +A A
Sbjct: 38 CNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAA 71
Score = 27.7 bits (62), Expect = 3.9
Identities = 7/34 (20%), Positives = 16/34 (47%), Gaps = 1/34 (2%)
Query: 436 FSKYGKI-NILVISPKKRGSALLEFEHADSARRA 468
+K+G + +I V +G+ ++ +A A
Sbjct: 38 CNKHGGVIHIYVDKNSAQGNVYVKCPSIAAAIAA 71
>2qlw_A RHAU; mutarotase, isomerase; HET: MSE; 1.60A {Rhizobium
leguminosarum BV} PDB: 2qlx_A*
Length = 144
Score = 28.1 bits (62), Expect = 4.0
Identities = 13/62 (20%), Positives = 24/62 (38%), Gaps = 8/62 (12%)
Query: 244 SIMADIKDLDLYGLLELTIDCSEQDIRS--------AYRKKALKCHPDKNPDDKKAIETF 295
SI D + L+G+L D + + A+ + +PD +P + F
Sbjct: 82 SIHLDRETNTLFGVLTRPKDHTMASLPDHPVMKKWWAHMADIMATNPDNSPVQSDLVTLF 141
Query: 296 HL 297
H+
Sbjct: 142 HM 143
>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation
factors PAIP1 and PAIP2, translation-RNA complex; 2.00A
{Homo sapiens} PDB: 1cvj_A*
Length = 213
Score = 28.4 bits (64), Expect = 4.3
Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 7/91 (7%)
Query: 40 TRESLTKIFSKYGKI---NILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTL 94
++L FS +G I ++ +G + FE ++A RA K+ + L + + +
Sbjct: 116 DNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFV 175
Query: 95 NYLNPDVERE-ESRKQPKNPVFSNI-DFSGP 123
ERE E + K ++ D++G
Sbjct: 176 GRFKSRKEREAELGARAKEFYPYDVPDYAGS 206
Score = 28.4 bits (64), Expect = 4.3
Identities = 20/91 (21%), Positives = 39/91 (42%), Gaps = 7/91 (7%)
Query: 428 TRESLTKIFSKYGKI---NILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTL 482
++L FS +G I ++ +G + FE ++A RA K+ + L + + +
Sbjct: 116 DNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFV 175
Query: 483 NYLNPDVERE-ESRKQPKNPVFSNI-DFSGP 511
ERE E + K ++ D++G
Sbjct: 176 GRFKSRKEREAELGARAKEFYPYDVPDYAGS 206
>3hzj_A Rabgap1L, RAB GTPase-activating protein 1-like; structural genomics
consortium, SGC, alternative splicing, GTPase
activation, phosphoprotein; 2.30A {Homo sapiens}
Length = 310
Score = 28.9 bits (65), Expect = 4.3
Identities = 10/64 (15%), Positives = 23/64 (35%), Gaps = 3/64 (4%)
Query: 293 ETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLERR-EKEAEN 351
+ A ++ + +K+ KL K+++ E + ++E
Sbjct: 245 GALKFFRVQLPKRYRAEENA--RRLMEQACNIKVPTKKLKKYEKEYQTMRESQLQQEDPM 302
Query: 352 ERYK 355
+RYK
Sbjct: 303 DRYK 306
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 112
Score = 27.4 bits (61), Expect = 4.6
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 49 SKYGKI-NILVISPKKRGSALLEFEHADSARRA 80
SK+G+I +L+ G A + F + A
Sbjct: 48 SKFGQIRKLLLFDRHPDGVASVSFRDPEEADYC 80
Score = 27.4 bits (61), Expect = 4.6
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 437 SKYGKI-NILVISPKKRGSALLEFEHADSARRA 468
SK+G+I +L+ G A + F + A
Sbjct: 48 SKFGQIRKLLLFDRHPDGVASVSFRDPEEADYC 80
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 28.7 bits (65), Expect = 4.7
Identities = 16/97 (16%), Positives = 48/97 (49%), Gaps = 16/97 (16%)
Query: 300 KAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATRKKFKEDLE--RREKEA--ENERYK 355
KAI+++ + ++ V++R+ K+ ++ L+ R+EK+A +++ ++
Sbjct: 373 KAIDLIDEAGSK------------VRLRSFTTPPNLKELEQKLDEVRKEKDAAVQSQEFE 420
Query: 356 GYKVNKSEEEILQQEIDRLRKEGSIRLQEEIKLMTEE 392
+ E+ L+++++ +K + +E +T +
Sbjct: 421 KAASLRDTEQRLREQVEDTKKSWKEKQGQENSEVTVD 457
>1dmu_A BGLI restriction endonuclease; protein-DNA complex, active site
calcium IONS, alpha/beta structure, A:A mismatch,
hydrolase/DNA complex; HET: DNA; 2.20A {Bacillus
subtilis} SCOP: c.52.1.4
Length = 299
Score = 28.7 bits (63), Expect = 5.0
Identities = 20/84 (23%), Positives = 32/84 (38%), Gaps = 1/84 (1%)
Query: 84 ELGLPNCP-LTLNYLNPDVEREESRKQPKNPVFSNIDFSGPRDSDSKNVESSNGSDSDST 142
E+GLP P +P + + +F +I GPRDSD V S N +
Sbjct: 108 EIGLPTGPDERYLLTSPTIYSLTNGFTDSIMMFVDIKSVGPRDSDYDLVLSPNQVSGNGD 167
Query: 143 PNLFPSANKSSNIFPSADKSSNLF 166
+++ +SS +F
Sbjct: 168 WAQLEGGIQNNQQTIQGPRSSQIF 191
>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: d.58.7.1
Length = 102
Score = 27.2 bits (61), Expect = 5.3
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
+SL ++FSKYG+I+ +V+ + + RG + FE+ D A+ A
Sbjct: 25 NEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDA 70
Score = 27.2 bits (61), Expect = 5.3
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
+SL ++FSKYG+I+ +V+ + + RG + FE+ D A+ A
Sbjct: 25 NEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDA 70
>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain,
RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 103
Score = 26.8 bits (60), Expect = 5.7
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 4/49 (8%)
Query: 35 DTDVYTRESLTKIFSKYGKI-NILVI--SPKKRGSALLEFEHADSARRA 80
DV T + ++FS+ G + +I +EF A A
Sbjct: 24 SRDV-TEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAA 71
Score = 26.8 bits (60), Expect = 5.7
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 4/49 (8%)
Query: 423 DTDVYTRESLTKIFSKYGKI-NILVI--SPKKRGSALLEFEHADSARRA 468
DV T + ++FS+ G + +I +EF A A
Sbjct: 24 SRDV-TEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAA 71
>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding
protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A
Length = 135
Score = 27.4 bits (61), Expect = 5.7
Identities = 11/47 (23%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRAK 81
+ ++L ++F KYG++ ++ + + + RG A + F A A
Sbjct: 60 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
Score = 27.4 bits (61), Expect = 5.7
Identities = 11/47 (23%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRAK 469
+ ++L ++F KYG++ ++ + + + RG A + F A A
Sbjct: 60 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAM 106
>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein
complex, coexpression, heterotetramer, mRNA maturation,
mRNA cleavage; 1.92A {Homo sapiens}
Length = 156
Score = 27.6 bits (61), Expect = 6.4
Identities = 6/49 (12%), Positives = 18/49 (36%), Gaps = 7/49 (14%)
Query: 40 TRESLTKIFSKYGKINIL---VI----SPKKRGSALLEFEHADSARRAK 81
T + L ++ G +++ + + +G A + +S +
Sbjct: 68 TDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLL 116
Score = 27.6 bits (61), Expect = 6.4
Identities = 6/49 (12%), Positives = 18/49 (36%), Gaps = 7/49 (14%)
Query: 428 TRESLTKIFSKYGKINIL---VI----SPKKRGSALLEFEHADSARRAK 469
T + L ++ G +++ + + +G A + +S +
Sbjct: 68 TDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLL 116
>2kn4_A Immunoglobulin G-binding protein G, splicing FACT
arginine/serine-rich 2, S35, splicing factor SC35,; RRM
domain, cell WALL; NMR {Streptococcus SP}
Length = 158
Score = 27.5 bits (61), Expect = 6.7
Identities = 11/46 (23%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
+ ++L ++F KYG++ ++ + + + RG A + F A A
Sbjct: 83 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDA 128
Score = 27.5 bits (61), Expect = 6.7
Identities = 11/46 (23%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
+ ++L ++F KYG++ ++ + + + RG A + F A A
Sbjct: 83 SPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDA 128
>2y94_A 5'-AMP-activated protein kinase catalytic subunit; transferase,
nucleotide-binding, staurosporine-binding,
serine/threonine-protein kinase; HET: TPO STU AMP; 3.24A
{Rattus norvegicus}
Length = 476
Score = 28.2 bits (63), Expect = 6.9
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 388 LMTEELNAAKELSELNAKLNPENYRLRIRWKSSSTDTDV 426
+M E A K+L +NP Y LR+R K+ T T
Sbjct: 411 IMAEVCRAIKQLDYEWKVVNP--YYLRVRRKNPVTSTFS 447
Score = 28.2 bits (63), Expect = 8.2
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 2/38 (5%)
Query: 1 MTEELNAAKELSELNAKLNPENYRLRIRWKSSSTDTDV 38
M E A K+L +NP Y LR+R K+ T T
Sbjct: 412 MAEVCRAIKQLDYEWKVVNP--YYLRVRRKNPVTSTFS 447
>2zkr_p 60S ribosomal protein L19; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 196
Score = 27.7 bits (61), Expect = 6.9
Identities = 18/90 (20%), Positives = 36/90 (40%)
Query: 276 KALKCHPDKNPDDKKAIETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVKIRNSKLDATR 335
+ L+ + + D+ + +L K + + K K+ + +A R
Sbjct: 104 RLLRRYRESKKIDRHMYHSLYLKVKGNVFKNKRILMEHIHKLKADKARKKLLADQAEARR 163
Query: 336 KKFKEDLERREKEAENERYKGYKVNKSEEE 365
K KE +RRE+ + ++ + K EEE
Sbjct: 164 SKTKEARKRREERLQAKKEEIIKTLSKEEE 193
>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain,
structural genomics, NPPSFA; NMR {Mus musculus} PDB:
2rne_A 2dh7_A
Length = 115
Score = 26.9 bits (60), Expect = 7.7
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 80
T E + F+ +G+I + V+ + K +G + F + A A
Sbjct: 28 TTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 73
Score = 26.9 bits (60), Expect = 7.7
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKI-NILVI----SPKKRGSALLEFEHADSARRA 468
T E + F+ +G+I + V+ + K +G + F + A A
Sbjct: 28 TTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENA 73
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 28.3 bits (64), Expect = 8.1
Identities = 18/139 (12%), Positives = 45/139 (32%), Gaps = 25/139 (17%)
Query: 282 PDKNPDDKKAIETFHLLSKAIEVLLDKSARAAYDSVIRRKEEVKIR--NSKLDATRKKFK 339
P+ D++A F L +A+ + ++ +A ++ V + + ++ + F+
Sbjct: 706 PEPGGRDEEAERAFEALKQAVTAV--RALKAEAGLPPAQEVRVYLEGETAPVEENLEVFR 763
Query: 340 -----EDLERREKEAENERYKGYKVNKSEEEI--LQQEIDRLRKEGSIRLQEEIKLMTEE 392
+ L R +A + E + +++ R K +E+
Sbjct: 764 FLSRADLLPERPAKALVKAMPRVTARMPLEGLLDVEEWRRRQEKR-----LKELL----- 813
Query: 393 LNAAKELSELNAKLNPENY 411
KL +
Sbjct: 814 ----ALAERSQRKLASPGF 828
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 28.3 bits (64), Expect = 8.3
Identities = 26/141 (18%), Positives = 58/141 (41%), Gaps = 40/141 (28%)
Query: 300 KAIEVLLDKSA---RAAYDSV------IRRK------EEVKIRNSKLDATRKKF----KE 340
KAI+ L+D++A R A +S + RK E ++ K ++++ E
Sbjct: 380 KAID-LIDEAAARLRMALESAPEEIDALERKKLQLEIEREALKKEKDPDSQERLKAIEAE 438
Query: 341 DLERREKEAE-NERYKGYKVNKSEEEILQQEIDRLRKE------------------GSI- 380
+ E+ A+ ++ + + Q +D +R+E G +
Sbjct: 439 IAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELAERQYDLNRAAELRYGELP 498
Query: 381 RLQEEIKLMTEELNAAKELSE 401
+L+ E++ ++E+L A+ +
Sbjct: 499 KLEAEVEALSEKLRGARFVRL 519
>2lf0_A Uncharacterized protein YIBL; two-domain protein, structural
genomics, PSI-biology, protei structure initiative; NMR
{Shigella flexneri}
Length = 123
Score = 26.9 bits (59), Expect = 8.4
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 7/67 (10%)
Query: 321 KEEVKIRNSKLDATRKKFKEDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSI 380
K E+K + +LDA R + + + Y + E+ L+ EI RLR+ S
Sbjct: 9 KNEIKRLSDRLDAIRHQQADLSLVEAADK-------YAELEKEKATLEAEIARLREVHSQ 61
Query: 381 RLQEEIK 387
+L +E +
Sbjct: 62 KLSKEAQ 68
>3s9g_A Protein hexim1; cyclin T-binding domain (TBD), cyclin T1/P-TEFB/7SK
snRNA, N transcription; 2.10A {Homo sapiens} PDB: 2gd7_A
Length = 104
Score = 26.7 bits (58), Expect = 8.5
Identities = 10/52 (19%), Positives = 21/52 (40%)
Query: 340 EDLERREKEAENERYKGYKVNKSEEEILQQEIDRLRKEGSIRLQEEIKLMTE 391
ED R + + + E + L+ E +L E + Q+E +++
Sbjct: 50 EDENNRLRLESKRLDARVRELELELDRLRAENLQLLTENELHRQQERAPLSK 101
>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing
cluster, hydrophobic core, contractIle protein; 1.80A
{Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A
Length = 155
Score = 27.2 bits (60), Expect = 8.6
Identities = 20/96 (20%), Positives = 40/96 (41%), Gaps = 13/96 (13%)
Query: 320 RKEEVKIRNSKLDATRKKFKE---DLERREKEAENERYKGYKVNKSEEEI--LQQEIDRL 374
+ ++ + K K++E L + KEAE + +E + L++ ID L
Sbjct: 57 NLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAET------RAEFAERSVTKLEKSIDDL 110
Query: 375 RKEGSIRLQEEIKLMTEELNAA-KELSELNAKLNPE 409
E + + K ++EE+ ++ EL +K
Sbjct: 111 EDELY-AQKLKYKAISEEMKQLEDKVEELLSKNYHL 145
>4eai_A 5'-AMP-activated protein kinase catalytic subunit linker,
5'-AMP-activated protein...; AMPK, transferase; HET:
AMP; 2.29A {Rattus norvegicus} PDB: 4eaj_A* 4eak_A*
4eal_A*
Length = 106
Score = 26.4 bits (58), Expect = 8.8
Identities = 15/48 (31%), Positives = 22/48 (45%), Gaps = 2/48 (4%)
Query: 388 LMTEELNAAKELSELNAKLNPENYRLRIRWKSSSTDTDVYTRESLTKI 435
+M E A K+L +NP Y LR+R K+ T T L ++
Sbjct: 21 IMAEVCRAIKQLDYEWKVVNP--YYLRVRRKNPVTSTFSKMSLQLYQV 66
>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 105
Score = 26.4 bits (59), Expect = 9.5
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 40 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 80
T+E+L FS+YG++ VI + + RG ++F+ +
Sbjct: 29 TQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV 74
Score = 26.4 bits (59), Expect = 9.5
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 428 TRESLTKIFSKYGKINILVI-----SPKKRGSALLEFEHADSARRA 468
T+E+L FS+YG++ VI + + RG ++F+ +
Sbjct: 29 TQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV 74
>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 103
Score = 26.4 bits (59), Expect = 9.7
Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 8/78 (10%)
Query: 40 TRESLTKIFSKYGKI---NILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTL 94
E L K FS +G I +++ + +G + F + A +A ++ + PL +
Sbjct: 28 DDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYV 87
Query: 95 NYLNPDVEREESRKQPKN 112
+EE + P +
Sbjct: 88 ALAQR---KEERQSGPSS 102
Score = 26.4 bits (59), Expect = 9.7
Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 8/78 (10%)
Query: 428 TRESLTKIFSKYGKI---NILVISPKKRGSALLEFEHADSARRA--KLYELGLPNCPLTL 482
E L K FS +G I +++ + +G + F + A +A ++ + PL +
Sbjct: 28 DDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYV 87
Query: 483 NYLNPDVEREESRKQPKN 500
+EE + P +
Sbjct: 88 ALAQR---KEERQSGPSS 102
>2w8t_A SPT, serine palmitoyltransferase; HET: LLP; 1.25A {Sphingomonas
paucimobilis} PDB: 2w8u_A* 2w8w_A* 2xbn_A* 2w8j_A*
2w8v_A* 2jg2_A* 2jgt_A 2x8u_A*
Length = 427
Score = 27.6 bits (62), Expect = 10.0
Identities = 8/34 (23%), Positives = 13/34 (38%), Gaps = 6/34 (17%)
Query: 326 IRNSKLDATRKKFK----EDLERREKEAENERYK 355
+ A +F+ EDL++R E K
Sbjct: 165 CQQGN--AEIVRFRHNSVEDLDKRLGRLPKEPAK 196
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
0.311 0.129 0.356
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,421,266
Number of extensions: 439661
Number of successful extensions: 1787
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1599
Number of HSP's successfully gapped: 507
Length of query: 512
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 414
Effective length of database: 3,965,535
Effective search space: 1641731490
Effective search space used: 1641731490
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 59 (27.2 bits)