BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy3067
(141 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WG5|A Chain A, Solution Structure Of The First Rrm Domain In
Heterogeneous Nuclear Ribonucleoprotein H
Length = 104
Score = 84.3 bits (207), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 44/74 (59%), Positives = 52/74 (70%), Gaps = 2/74 (2%)
Query: 38 KDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYI- 96
K++I QFF GLEI+ NG+TL D F GR TGEA+VQF +E AE AL+KHKERIGHRYI
Sbjct: 29 KEEIVQFFSGLEIVPNGMTLPVD-FQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIE 87
Query: 97 FFTGHRYTVQHRAP 110
F R V+ P
Sbjct: 88 IFKSSRAEVRTSGP 101
>pdb|2HGM|A Chain A, Nmr Structure Of The Second Qrrm Domain Of Human Hnrnp F
pdb|2KG0|A Chain A, Structure Of The Second Qrrm Domain Of Hnrnp F In Complex
With A Agggau G-Tract Rna
Length = 126
Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 40/59 (67%), Positives = 46/59 (77%), Gaps = 1/59 (1%)
Query: 38 KDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYI 96
K++I QFF GLEI+ NGITL DP G+ TGEA+VQF +E AE AL KHKERIGHRYI
Sbjct: 56 KEEIVQFFSGLEIVPNGITLPVDP-EGKITGEAFVQFASQELAEKALGKHKERIGHRYI 113
>pdb|2DHA|A Chain A, Solution Structure Of The Second Rna Recognition Motif
In Hypothetical Protein Flj201171
Length = 123
Score = 46.2 bits (108), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 23/43 (53%), Positives = 31/43 (72%), Gaps = 1/43 (2%)
Query: 54 GITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYI 96
GI V P +GRPTG+A+V F +E A+ AL+KHK+ +G RYI
Sbjct: 56 GILFVTYP-DGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYI 97
>pdb|1WEL|A Chain A, Solution Structure Of Rna Binding Domain In Np_006038
Length = 124
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 35 EGKKDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHR 94
E + + FF L+I+ + I + P NG+ TGE +V+F ++ + AL +HK+ +G+R
Sbjct: 36 EAENKHVIDFFKKLDIVEDSIYIAYGP-NGKATGEGFVEFRNEADYKAALCRHKQYMGNR 94
Query: 95 YI 96
+I
Sbjct: 95 FI 96
>pdb|2LXU|A Chain A, Solution Nmr Structure Of The Eukaryotic Rna Recognition
Motif, Rrm1, From The Heterogeneous Nuclear
Ribonucleoprotein H From Homo Sapiens, Northeast
Structural Genomics Consortium (Nesg) Target Hr8614a
Length = 108
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 38/60 (63%), Gaps = 3/60 (5%)
Query: 39 DDIAQFFDGLEIISNGITLVEDPFN--GRPTGEAYVQFVDKETAELALQKHKERIGHRYI 96
D++ +FF +I NG + + GRP+GEA+V+ ++ +LAL+K +E +GHRY+
Sbjct: 22 DEVQRFFSDCKI-QNGAQGIRFIYTREGRPSGEAFVELESEDEVKLALKKDRETMGHRYV 80
Score = 35.4 bits (80), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/21 (66%), Positives = 16/21 (76%)
Query: 12 RYIEVFKVRRQEMDWKLQHTG 32
RY+EVFK EMDW L+HTG
Sbjct: 78 RYVEVFKSNNVEMDWVLKHTG 98
>pdb|2DB1|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein F Homolog
Length = 118
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 34/56 (60%), Gaps = 5/56 (8%)
Query: 64 GRPTGEAYVQFVDKETAELALQKHKERIGHRYI-FFTGHR----YTVQHRAPRCET 114
GR +GEA+V+ ++ +LAL+K +E +GHRYI F HR + ++H P +
Sbjct: 58 GRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVFKSHRTEMDWVLKHSGPNSAS 113
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/21 (71%), Positives = 17/21 (80%)
Query: 12 RYIEVFKVRRQEMDWKLQHTG 32
RYIEVFK R EMDW L+H+G
Sbjct: 88 RYIEVFKSHRTEMDWVLKHSG 108
>pdb|2HGL|A Chain A, Nmr Structure Of The First Qrrm Domain Of Human Hnrnp F
pdb|2KFY|A Chain A, Nmr Structure Of The First Qrrm Of Hnrnp F In Complex With
Agggau G- Tract Rna
Length = 136
Score = 42.4 bits (98), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 33/52 (63%), Gaps = 5/52 (9%)
Query: 64 GRPTGEAYVQFVDKETAELALQKHKERIGHRYI-FFTGHR----YTVQHRAP 110
GR +GEA+V+ ++ ++AL+K +E +GHRYI F HR + ++H P
Sbjct: 85 GRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRTEMDWVLKHSGP 136
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/21 (71%), Positives = 17/21 (80%)
Query: 12 RYIEVFKVRRQEMDWKLQHTG 32
RYIEVFK R EMDW L+H+G
Sbjct: 115 RYIEVFKSHRTEMDWVLKHSG 135
>pdb|2HGN|A Chain A, Nmr Structure Of The Third Qrrm Domain Of Human Hnrnp F
pdb|2KG1|A Chain A, Structure Of The Third Qrrm Domain Of Hnrnp F In Complex
With A Agggau G-Tract Rna
Length = 139
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 38 KDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYI 96
++DI FF L + I + D GR TGEA V+F E A A+ K + + HRYI
Sbjct: 60 ENDIYNFFSPLNPVRVHIEIGPD---GRVTGEADVEFATHEEAVAAMSKDRANMQHRYI 115
>pdb|1WEZ|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous
Nuclear Ribonucleoprotein H'
Length = 102
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 36 GKKDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRY 95
++DI FF L + I + D GR TGEA V+F E A A+ K K + HRY
Sbjct: 27 ATENDIYNFFSPLNPMRVHIEIGPD---GRVTGEADVEFATHEDAVAAMAKDKANMQHRY 83
Query: 96 I 96
+
Sbjct: 84 V 84
>pdb|2CPY|A Chain A, Solution Structure Of Rna Binding Domain 3 In Rna
Binding Motif Protein 12
Length = 114
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 38 KDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYIF 97
K D+ QF +G+ + N + ++ D NG+ G+A VQF +++ A + + H++++ R F
Sbjct: 29 KMDVLQFLEGIPVDENAVHVLVDN-NGQGLGQALVQFKNEDDARKSERLHRKKLNGREAF 87
>pdb|2EK6|A Chain A, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|B Chain B, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|C Chain C, Crystal Structure Of Human Rna-Binding Protein 12
pdb|2EK6|D Chain D, Crystal Structure Of Human Rna-Binding Protein 12
Length = 95
Score = 35.0 bits (79), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 39 DDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKER-IGHRYIF 97
D+I FF G ++I + L + G PTGEA V F ++ A A+ +R IG R +
Sbjct: 30 DEILDFFYGYQVIPGSVCLKYNE-KGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVK 88
Query: 98 FTG 100
+G
Sbjct: 89 LSG 91
>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of
Hypothetical Polyadenylate-Binding Protein (Pabpn1)
From Homo Sapiens At 1.95 A Resolution
Length = 89
Score = 35.0 bits (79), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 22/32 (68%)
Query: 53 NGITLVEDPFNGRPTGEAYVQFVDKETAELAL 84
N +T++ D F+G P G AY++F DKE+ +L
Sbjct: 34 NRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 65
>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|A Chain A, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|B Chain B, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|C Chain C, Crystal Structure Of Human Pabpn1 Rrm
pdb|3B4M|D Chain D, Crystal Structure Of Human Pabpn1 Rrm
Length = 96
Score = 35.0 bits (79), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 22/32 (68%)
Query: 53 NGITLVEDPFNGRPTGEAYVQFVDKETAELAL 84
N +T++ D F+G P G AY++F DKE+ +L
Sbjct: 33 NRVTILCDKFSGHPKGFAYIEFSDKESVRTSL 64
>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
pdb|2JWN|B Chain B, Solution Nmr Structure Of The Protease-Resistent Domain
Of Xenopus Laevis Epabp2
Length = 124
Score = 34.7 bits (78), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 21 RQEMDWKLQHTGIVE--GKKDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKE 78
++E+D + + G V+ D+ F I N IT++ D F+G P G AY++F ++
Sbjct: 31 KKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSI-NRITILCDKFSGHPKGYAYIEFAERN 89
Query: 79 TAELAL 84
+ + A+
Sbjct: 90 SVDAAV 95
>pdb|2EK1|A Chain A, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|B Chain B, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|C Chain C, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|D Chain D, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|E Chain E, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|F Chain F, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|G Chain G, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
pdb|2EK1|H Chain H, Crystal Structure Of Rna-Binding Motif Of Human
Rna-Binding Protein 12
Length = 95
Score = 34.3 bits (77), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 2/63 (3%)
Query: 39 DDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKER-IGHRYIF 97
D+I FF G ++I + L + G PTGEA V F ++ A A+ +R IG R +
Sbjct: 30 DEILDFFYGYQVIPGSVCLKYNE-KGXPTGEAXVAFESRDEATAAVIDLNDRPIGSRKVK 88
Query: 98 FTG 100
+G
Sbjct: 89 LSG 91
>pdb|2LMI|A Chain A, Nmr Structure Of The Protein Bc040485 From Homo Sapiens
Length = 107
Score = 33.9 bits (76), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 42/84 (50%), Gaps = 11/84 (13%)
Query: 15 EVFKVRRQEMDWKLQHTGIVEGKKDDIAQFFDGLEIIS--NGITLVEDPFNGRPTGEAYV 72
+VF +R Q + W +D+ FF I + NGI + + +G+ G+A +
Sbjct: 10 DVFLIRAQGLPWSCTM--------EDVLNFFSDCRIRNGENGIHFLLNR-DGKRRGDALI 60
Query: 73 QFVDKETAELALQKHKERIGHRYI 96
+ ++ + AL+KH+ +G RY+
Sbjct: 61 EMESEQDVQKALEKHRMYMGQRYV 84
>pdb|2CQP|A Chain A, Solution Structure Of The Rna Binding Domain Of
Rna-Binding Protein 12
Length = 98
Score = 33.1 bits (74), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 39 DDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKER-IGHRYI 96
D+I FF G ++I + L + G PTGEA V F ++ A A+ +R IG R +
Sbjct: 30 DEILDFFYGYQVIPGSVCLKYNE-KGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKV 87
>pdb|2DNN|A Chain A, Solution Structure Of Rna Binding Domain In Rna-Binding
Protein 12
Length = 109
Score = 29.3 bits (64), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 38 KDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYI 96
++D+ FF GL + + + L++D GR G V+F+ + AL++++ + RY+
Sbjct: 30 ENDVRDFFHGLRV--DAVHLLKDHV-GRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYV 85
>pdb|2X1A|A Chain A, Structure Of Rna15 Rrm With Rna Bound (G)
pdb|2X1B|A Chain A, Structure Of Rna15 Rrm
Length = 97
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 6/55 (10%)
Query: 48 LEIISN-----GITLVEDPFNGRPTGEAYVQFVDKETAELALQK-HKERIGHRYI 96
L++ SN + ++ DP GR G A+++F D E++ A++ + ++G R++
Sbjct: 21 LDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 75
>pdb|3K7N|A Chain A, Structures Of Two Elapid Snake Venom Metalloproteases With
Distinct Activities Highlight The Disulfide Patterns In
The D Domain Of Adamalysin Family Proteins
Length = 397
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 37/92 (40%), Gaps = 18/92 (19%)
Query: 25 DWKLQHTGIVEGKKDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELAL 84
+W+ T ++ K++D AQ G++ FNG G AY+ + K +A+
Sbjct: 83 EWR--ETVLLPRKRNDNAQLLTGID------------FNGNTVGRAYIGSLCKTNESVAI 128
Query: 85 -QKHKERIGHRYIFFT---GHRYTVQHRAPRC 112
Q + RI T GH + H C
Sbjct: 129 VQDYNRRISLVASTITHELGHNLGIHHDKASC 160
>pdb|2KM8|B Chain B, Interdomain Rrm Packing Contributes To Rna Recognition
In The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 84
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 6/55 (10%)
Query: 48 LEIISN-----GITLVEDPFNGRPTGEAYVQFVDKETAELALQK-HKERIGHRYI 96
L++ SN + ++ DP GR G A+++F D E++ A++ + ++G R++
Sbjct: 22 LDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 76
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of
Rna Binding Motif Protein 23
Length = 95
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 38 KDDIAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQK 86
+D + F+ I N I L++D GR G ++ F D E A AL++
Sbjct: 19 EDMLRGIFEPFGKIDN-IVLMKDSDTGRSKGYGFITFSDSECARRALEQ 66
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 32/55 (58%), Gaps = 6/55 (10%)
Query: 48 LEIISN-----GITLVEDPFNGRPTGEAYVQFVDKETAELALQK-HKERIGHRYI 96
L++ SN + ++ DP GR G A+++F D E++ A++ + ++G R++
Sbjct: 20 LDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 74
>pdb|3S7R|A Chain A, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
pdb|3S7R|B Chain B, Crystal Structure Of A Heterogeneous Nuclear
Ribonucleoprotein AB (Hnrpab) From Homo Sapiens At 2.15
A Resolution
Length = 87
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 38 KDDIAQFFDGL-EIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYI 96
K D+ +F E++ T+ DP GR G ++ F D + E L + + R+ R I
Sbjct: 25 KKDLKDYFTKFGEVVD--CTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVI 82
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 41 IAQFFDGLEIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQK 86
+ Q F + + +V+D GR TG+ +V+F K A AL++
Sbjct: 113 LEQAFSQFGPVEKAVVVVDD--RGRATGKGFVEFAAKPPARKALER 156
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 55 ITLVEDPFNGRPTGEAYVQFVDKETAELALQK 86
+ ++ + G P G +V+F D TAE L K
Sbjct: 40 VKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing
Sarcoma(Ews) Protein
Length = 113
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 7/54 (12%)
Query: 39 DDIAQFFDGLEIISNG-------ITLVEDPFNGRPTGEAYVQFVDKETAELALQ 85
DD+A FF ++ I + D G+P G+A V + D TA+ A++
Sbjct: 30 DDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVE 83
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 26.6 bits (57), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 55 ITLVEDPFNGRPTGEAYVQFVDKETAELALQK 86
I L+ D GR G ++ F D E A+ AL++
Sbjct: 56 IQLMMDSETGRSKGYGFITFSDSECAKKALEQ 87
>pdb|1HD0|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
pdb|1HD1|A Chain A, Heterogeneous Nuclear Ribonucleoprotein D0 (Hnrnp D0
Rbd1), Nmr
Length = 75
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 38 KDDIAQFFDGL-EIISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKERIGHRYI 96
K D+ +F E++ TL DP GR G +V F + E+ + + + + ++ + I
Sbjct: 13 KKDLKDYFSKFGEVVD--CTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVI 70
>pdb|1SXL|A Chain A, Resonance Assignments And Solution Structure Of The
Second Rna-Binding Domain Of Sex-Lethal Determined By
Multidimensional Heteronuclear Magnetic Resonance
Spectroscopy
Length = 97
Score = 25.8 bits (55), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 56 TLVEDPFNGRPTGEAYVQFVDKETAELAL 84
++ D GRP G A+V++ +E A+ A+
Sbjct: 44 NILRDKLTGRPRGVAFVRYNKREEAQEAI 72
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 25.8 bits (55), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 57 LVEDPFNGRPTGEAYVQFVDKETAELAL 84
++ D GRP G A+V++ +E A+ A+
Sbjct: 121 ILRDKLTGRPRGVAFVRYNKREEAQEAI 148
>pdb|3SXL|A Chain A, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|B Chain B, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
pdb|3SXL|C Chain C, Sex-Lethal Rna Recognition Domains 1 And 2 From Drosophila
Melanogaster
Length = 184
Score = 25.8 bits (55), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 56 TLVEDPFNGRPTGEAYVQFVDKETAELAL 84
++ D GRP G A+V++ +E A+ A+
Sbjct: 131 NILRDKLTGRPRGVAFVRYNKREEAQEAI 159
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 51 ISNGITLVEDPFNGRPTGEAYVQFVDKETAELALQKHKE 89
+ + +V+D GRP+G+ V+F K A AL + E
Sbjct: 123 VERAVVIVDD--RGRPSGKGIVEFSGKPAARKALDRCSE 159
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,899,618
Number of Sequences: 62578
Number of extensions: 196710
Number of successful extensions: 498
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 469
Number of HSP's gapped (non-prelim): 40
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)