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= 007792
(589 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XYH|A Chain A, Crystal Structure Of Recombinant Human Cyclophilin J
pdb|2OK3|A Chain A, X-Ray Structure Of Human Cyclophilin J At 2.0 Angstrom
Length = 161
Score = 109 bits (272), Expect = 5e-24, Method: Composition-based stats.
Identities = 64/167 (38%), Positives = 92/167 (55%), Gaps = 9/167 (5%)
Query: 1 MSVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXX 60
MSV + T +GDI +++F ++ P T +NFL LC YYNGC+FH K F
Sbjct: 1 MSVTLHTDVGDIKIEVFCERTPKTCENFLALCASNYYNGCIFHRNIKGFMVQTGDPTGTG 60
Query: 61 XXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLD 120
+S++ + F DE LKH G V+MA+ G N N SQF++T +LD
Sbjct: 61 RGGNSIW-------GKKFEDEYSEYLKHNVRGVVSMANNGPNTNGSQFFITYGKQ-PHLD 112
Query: 121 EKHTIFGEVAEGLETLSRINESFVDEKN-RPYKNIRIKHTYILEDPF 166
K+T+FG+V +GLETL + + V+EK RP ++ IK I +PF
Sbjct: 113 MKYTVFGKVIDGLETLDELEKLPVNEKTYRPLNDVHIKDITIHANPF 159
>pdb|2OJU|A Chain A, X-Ray Structure Of Complex Of Human Cyclophilin J With
Cyclosporin A
pdb|2OJU|B Chain B, X-Ray Structure Of Complex Of Human Cyclophilin J With
Cyclosporin A
Length = 167
Score = 108 bits (270), Expect = 7e-24, Method: Composition-based stats.
Identities = 64/167 (38%), Positives = 92/167 (55%), Gaps = 9/167 (5%)
Query: 1 MSVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXX 60
MSV + T +GDI +++F ++ P T +NFL LC YYNGC+FH K F
Sbjct: 7 MSVTLHTDVGDIKIEVFCERTPKTCENFLALCASNYYNGCIFHRNIKGFMVQTGDPTGTG 66
Query: 61 XXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLD 120
+S++ + F DE LKH G V+MA+ G N N SQF++T +LD
Sbjct: 67 RGGNSIW-------GKKFEDEYSEYLKHNVRGVVSMANNGPNTNGSQFFITYGKQ-PHLD 118
Query: 121 EKHTIFGEVAEGLETLSRINESFVDEKN-RPYKNIRIKHTYILEDPF 166
K+T+FG+V +GLETL + + V+EK RP ++ IK I +PF
Sbjct: 119 MKYTVFGKVIDGLETLDELEKLPVNEKTYRPLNDVHIKDITIHANPF 165
>pdb|2K7N|A Chain A, Solution Structure Of The Ppil1 Bound To A Fragment Of
Skip
Length = 203
Score = 105 bits (261), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 8/159 (5%)
Query: 2 SVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXX 61
+V + TS+G IV++L+ P T KNF +L + YYNG FH + KDF
Sbjct: 13 NVYLETSMGIIVLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGR 72
Query: 62 XXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDE 121
S+ YG+Q F DE+ DLK G +AMA+AG + N SQF++TL +LD
Sbjct: 73 GGASI----YGKQ---FEDELHPDLKFTGAGILAMANAGPDTNGSQFFVTLAPT-QWLDG 124
Query: 122 KHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTY 160
KHTIFG V +G+ ++R+ + ++RP +++I Y
Sbjct: 125 KHTIFGRVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAY 163
>pdb|1ZKC|A Chain A, Crystal Structure Of The Cyclophiln_ring Domain Of Human
Peptidylprolyl Isomerase (Cyclophilin)-Like 2 Isoform B
pdb|1ZKC|B Chain B, Crystal Structure Of The Cyclophiln_ring Domain Of Human
Peptidylprolyl Isomerase (Cyclophilin)-Like 2 Isoform B
Length = 197
Score = 104 bits (259), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 62/174 (35%), Positives = 96/174 (55%), Gaps = 10/174 (5%)
Query: 3 VLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXX 62
V + T+ GD+ ++L D P T +NF++LCK YY+G +FH ++F
Sbjct: 22 VRLHTNKGDLNLELHCDLTPKTCENFIRLCKKHYYDGTIFHRSIRNFVIQGGDPTGTGTG 81
Query: 63 XDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEK 122
+S + + F DE R +L H G ++MA++G N N SQF++T R + YLD+K
Sbjct: 82 GESYW-------GKPFKDEFRPNLSHTGRGILSMANSGPNSNRSQFFITFR-SCAYLDKK 133
Query: 123 HTIFGEVAEGLETLSRINESFVDEKN-RPYKNIRIKHTYILEDPFDDP-AQLAE 174
HTIFG V G + L+ + D K RP + IRI T + DP+++ AQ+A+
Sbjct: 134 HTIFGRVVGGFDVLTAMENVESDPKTDRPKEEIRIDATTVFVDPYEEADAQIAQ 187
>pdb|2X7K|A Chain A, The Crystal Structure Of Ppil1 In Complex With
Cyclosporine A Suggests A Binding Mode For Skip
Length = 166
Score = 103 bits (256), Expect = 3e-22, Method: Composition-based stats.
Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 8/159 (5%)
Query: 2 SVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXX 61
+V + TS+G IV++L+ P T KNF +L + YYNG FH + KDF
Sbjct: 13 NVYLETSMGIIVLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGR 72
Query: 62 XXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDE 121
S+ YG+Q F DE+ DLK G +AMA+AG + N SQF++TL +LD
Sbjct: 73 GGASI----YGKQ---FEDELHPDLKFTGAGILAMANAGPDTNGSQFFVTLAPT-QWLDG 124
Query: 122 KHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTY 160
KHTIFG V +G+ ++R+ + ++RP +++I Y
Sbjct: 125 KHTIFGRVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAY 163
>pdb|1XWN|A Chain A, Solution Structure Of Cyclophilin Like 1(Ppil1) And
Insights Into Its Interaction With Skip
Length = 174
Score = 103 bits (256), Expect = 3e-22, Method: Composition-based stats.
Identities = 59/159 (37%), Positives = 88/159 (55%), Gaps = 8/159 (5%)
Query: 2 SVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXX 61
+V + TS+G IV++L+ P T KNF +L + YYNG FH + KDF
Sbjct: 13 NVYLETSMGIIVLELYWKHAPKTCKNFAELARRGYYNGTKFHRIIKDFMIQGGDPTGTGR 72
Query: 62 XXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDE 121
S+ YG+Q F DE+ DLK G +AMA+AG + N SQF++TL +LD
Sbjct: 73 GGASI----YGKQ---FEDELHPDLKFTGAGILAMANAGPDTNGSQFFVTLAPT-QWLDG 124
Query: 122 KHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTY 160
KHTIFG V +G+ ++R+ + ++RP +++I Y
Sbjct: 125 KHTIFGRVCQGIGMVNRVGMVETNSQDRPVDDVKIIKAY 163
>pdb|2A2N|A Chain A, Crystal Structure Of The Peptidylprolyl Isomerase Domain
Of Human Ppwd1
pdb|2A2N|B Chain B, Crystal Structure Of The Peptidylprolyl Isomerase Domain
Of Human Ppwd1
pdb|2A2N|C Chain C, Crystal Structure Of The Peptidylprolyl Isomerase Domain
Of Human Ppwd1
Length = 176
Score = 96.3 bits (238), Expect = 4e-20, Method: Composition-based stats.
Identities = 58/156 (37%), Positives = 87/156 (55%), Gaps = 9/156 (5%)
Query: 2 SVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXX 61
S +I TS+GDI LF +CP T +NF + YYNG FH + K F
Sbjct: 23 SAIIHTSMGDIHTKLFPVECPKTVENFCVHSRNGYYNGHTFHRIIKGFMIQTGDPTGTGM 82
Query: 62 XXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDE 121
+S++ GE F DE L+H + T++MA+AG N N SQF++T+ +LD
Sbjct: 83 GGESIWG---GE----FEDEFHSTLRHDRPYTLSMANAGSNTNGSQFFITVVPT-PWLDN 134
Query: 122 KHTIFGEVAEGLETLSRINESFVDEK-NRPYKNIRI 156
KHT+FG V +G+E + RI+ V+ K ++PY+++ I
Sbjct: 135 KHTVFGRVTKGMEVVQRISNVKVNPKTDKPYEDVSI 170
>pdb|2HQ6|A Chain A, Structure Of The Cyclophilin_cecyp16-like Domain Of The
Serologically Defined Colon Cancer Antigen 10 From Homo
Sapiens
Length = 185
Score = 94.7 bits (234), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 58/167 (34%), Positives = 89/167 (53%), Gaps = 9/167 (5%)
Query: 3 VLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXX 62
VL+ T+ GDI ++L+ + P +NF++LC YY+ +FH V F
Sbjct: 27 VLLKTTAGDIDIELWSKEAPKACRNFIQLCLEAYYDNTIFHRVVPGFIVQGGDPTGTGSG 86
Query: 63 XDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEK 122
+S+Y F DE L+ + G VAMA+AG + N SQF+ TL D L+ K
Sbjct: 87 GESIY-------GAPFKDEFHSRLRFNRRGLVAMANAGSHDNGSQFFFTL-GRADELNNK 138
Query: 123 HTIFGEV-AEGLETLSRINESFVDEKNRPYKNIRIKHTYILEDPFDD 168
HTIFG+V + + + R++E +D+ RP+ +IK +L +PFDD
Sbjct: 139 HTIFGKVTGDTVYNMLRLSEVDIDDDERPHNPHKIKSCEVLFNPFDD 185
>pdb|2POE|A Chain A, Crystal Structure Of Cryptosporidium Parvum Cyclophilin
Type Peptidyl-Prolyl Cis-Trans Isomerase Cgd2_1660
pdb|2QER|A Chain A, Crystal Structure Of Cryptosporidium Parvum Cyclophilin
Type Peptidyl- Prolyl Cis-Trans Isomerase Cgd2_1660 In
The Presence Of Dipeptide Ala-Pro
Length = 185
Score = 90.9 bits (224), Expect = 2e-18, Method: Composition-based stats.
Identities = 57/170 (33%), Positives = 86/170 (50%), Gaps = 12/170 (7%)
Query: 3 VLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXX 62
V I+T+ GD+ +LF +CP KNFL L YY +FH K F
Sbjct: 19 VRIITNYGDLKFELFCSQCPKACKNFLALSASGYYKNTIFHKNIKGFIIQGGDPTGTGKG 78
Query: 63 XDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGE----NLNASQFYMTLRDNLDY 118
+S+Y R+F DEI +LK+ + G ++MAS G N N SQF++T +L
Sbjct: 79 GESIY-------GRYFDDEIYPELKYDRRGILSMASKGASKKPNTNGSQFFITY-SSLPQ 130
Query: 119 LDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILEDPFDD 168
L+ ++ IFG++ +G ETL+ + D+ ++P I IK I +P D
Sbjct: 131 LNGEYVIFGKLIDGFETLNTLENCPSDKSHKPIDEIIIKDIVIHSNPIAD 180
>pdb|2B71|A Chain A, Plasmodium Yoelii Cyclophilin-Like Protein
Length = 196
Score = 87.4 bits (215), Expect = 2e-17, Method: Composition-based stats.
Identities = 53/157 (33%), Positives = 82/157 (52%), Gaps = 8/157 (5%)
Query: 3 VLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXX 62
+ I T+LGD V+L+ P T NF LC++ +Y+ +FH V +F
Sbjct: 41 ITIYTNLGDFEVELYWYHSPKTCLNFYTLCEMGFYDNTIFHRVIPNFVIQGGDPTGTGKG 100
Query: 63 XDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEK 122
S+Y GE +F DEI +LKH G ++M++ G N N+SQF++TL L +LD K
Sbjct: 101 GKSIY----GE---YFEDEINKELKHTGAGILSMSNNGPNTNSSQFFITLAP-LPHLDGK 152
Query: 123 HTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHT 159
HTIF V++ + + I N+P +++I T
Sbjct: 153 HTIFARVSKNMTCIENIASVQTTATNKPIFDLKILRT 189
>pdb|2FU0|A Chain A, Plasmodium Falciparum Cyclophilin Pfe0505w Putative
Cyclosporin- Binding Domain
Length = 160
Score = 87.4 bits (215), Expect = 2e-17, Method: Composition-based stats.
Identities = 53/155 (34%), Positives = 83/155 (53%), Gaps = 8/155 (5%)
Query: 2 SVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXX 61
S +I T++GDI + LF +C T +NF YYN C+FH V K F
Sbjct: 7 SAIIYTTMGDIHISLFYKECKKTVQNFSVHSINGYYNNCIFHRVIKHFMVQTGDPSGDGT 66
Query: 62 XXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDE 121
+S++ G + F DE L H+K V+MA+ G N N SQF++T +LD
Sbjct: 67 GGESIW----GNE---FEDEFFDHLNHSKPFMVSMANCGPNTNGSQFFITTVP-CPWLDF 118
Query: 122 KHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
KHT+FG+V +G + + I + D++++P ++I+I
Sbjct: 119 KHTVFGKVTQGSKIVLDIEKVRTDKRDKPLEDIKI 153
>pdb|3BKP|A Chain A, Crystal Structure Of The Toxoplasma Gondii Cyclophilin,
49.m03261
Length = 232
Score = 79.7 bits (195), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 60/198 (30%), Positives = 93/198 (46%), Gaps = 25/198 (12%)
Query: 3 VLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXX-XXXXXXX 61
V++ TSLGD+ V+L+ +CPL +NF++LC YY +FH V KDF
Sbjct: 24 VVLHTSLGDLDVELWARECPLACRNFVQLCLEGYYVNTIFHRVVKDFIVQGGDPTGTGRG 83
Query: 62 XXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGEN--------------LNASQ 107
D+ + + F E LK G V +A+ G + N +Q
Sbjct: 84 GADTTF------DGKPFDVETHPRLKFRYRGLVGVANLGRSSKDAENDERGRSLGTNGNQ 137
Query: 108 FYMTLRDNLDYLDEKHTIFGEV-AEGLETLSRINESFVDEKNRPYKNIRIKHTYILEDPF 166
F++TL D L+ +T+FG+V L L + N+ V +++RP IK +L +PF
Sbjct: 138 FFITL-ARADVLNNAYTLFGKVTGHTLYNLMKFNDLEVGKEDRPMTPPFIKSVDVLWNPF 196
Query: 167 DDPAQLAELIPDASPEGK 184
+D + +PDA P K
Sbjct: 197 ED--LVPRRLPDAPPAQK 212
>pdb|2HAQ|A Chain A, Crystal Structure Of Cyclophilin A From Leishmania
Donovani
pdb|3EOV|A Chain A, Crystal Structure Of Cyclophilin From Leishmania Donovani
Ligated With Cyclosporin A
pdb|3EOV|B Chain B, Crystal Structure Of Cyclophilin From Leishmania Donovani
Ligated With Cyclosporin A
Length = 172
Score = 79.3 bits (194), Expect = 5e-15, Method: Composition-based stats.
Identities = 51/151 (33%), Positives = 83/151 (54%), Gaps = 12/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG I + LF PLTT+NF +LC ++ Y +FH V ++F
Sbjct: 25 LGRITIGLFGKDAPLTTENFRQLCTGEHGFGYKDSIFHRVIQNFMIQGGDFTNFDGTGG- 83
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE +++KH G ++MA+AG N N SQF++T +LD +H +
Sbjct: 84 --KSIYGEK---FADE-NLNVKHF-VGALSMANAGPNTNGSQFFITTAPT-PWLDGRHVV 135
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V +G++ + RI ++ + +RP K ++I
Sbjct: 136 FGKVLDGMDVVLRIEKTKTNSHDRPVKPVKI 166
>pdb|3BT8|A Chain A, Crystal Structure Of Mutant Cyclophilin (R147a) From
Leishmania Donovani
Length = 172
Score = 79.0 bits (193), Expect = 7e-15, Method: Composition-based stats.
Identities = 51/151 (33%), Positives = 82/151 (54%), Gaps = 12/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG I + LF PLTT+NF +LC ++ Y +FH V ++F
Sbjct: 25 LGRITIGLFGKDAPLTTENFRQLCTGEHGFGYKDSIFHRVIQNFMIQGGDFTNFDGTGG- 83
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE +++KH G ++MA+AG N N SQF++T +LD H +
Sbjct: 84 --KSIYGEK---FADE-NLNVKHF-VGALSMANAGPNTNGSQFFITTAPT-PWLDGAHVV 135
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V +G++ + RI ++ + +RP K ++I
Sbjct: 136 FGKVLDGMDVVLRIEKTKTNSHDRPVKPVKI 166
>pdb|3K2C|A Chain A, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
pdb|3K2C|B Chain B, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
pdb|3K2C|C Chain C, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
pdb|3K2C|D Chain D, Crystal Structure Of Peptidyl-Prolyl Cis-Trans Isomerase
From Encephalitozoon Cuniculi At 1.9 A Resolution
Length = 193
Score = 77.8 bits (190), Expect = 1e-14, Method: Composition-based stats.
Identities = 56/153 (36%), Positives = 79/153 (51%), Gaps = 12/153 (7%)
Query: 8 SLGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXD 64
SLG IV+ L D P T KNF LC K + Y G FH + F
Sbjct: 40 SLGRIVMKLEDDIVPKTAKNFRTLCERPKGEGYKGSTFHRIIPGFMVQGGDYTAHNGTGG 99
Query: 65 SVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHT 124
+ +YGE+ F DE +LKH K G ++MA+ G + N SQF++TL +LDEKH
Sbjct: 100 ---RSIYGEK---FPDE-NFELKHTKEGILSMANCGAHTNGSQFFITL-GKTQWLDEKHV 151
Query: 125 IFGEVAEGLETLSRINESFVDEKNRPYKNIRIK 157
+FGEV EG++ + +I + + E + K RI+
Sbjct: 152 VFGEVVEGMDVVHKIAK-YGSESGQVKKGYRIE 183
>pdb|2WFJ|A Chain A, Atomic Resolution Crystal Structure Of The Ppiase Domain
Of Human Cyclophilin G In Complex With Cyclosporin A
Length = 179
Score = 77.8 bits (190), Expect = 1e-14, Method: Composition-based stats.
Identities = 52/159 (32%), Positives = 75/159 (47%), Gaps = 21/159 (13%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLC-----------KIKYYNGCLFHTVQKDFXXXXXX-XX 57
G +V +LF D CP T +NF LC K +Y CLFH V KDF
Sbjct: 24 GRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSE 83
Query: 58 XXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLD 117
+S+Y FF DE +KH K ++MA+ G++ N SQF++T +
Sbjct: 84 GNGRGGESIY-------GGFFEDE-SFAVKHNKEFLLSMANRGKDTNGSQFFITTKPT-P 134
Query: 118 YLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+LD H +FG+V G E + I D ++P+ +RI
Sbjct: 135 HLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRI 173
>pdb|2GW2|A Chain A, Crystal Structure Of The Peptidyl-Prolyl Isomerase Domain
Of Human Cyclophilin G
Length = 198
Score = 77.0 bits (188), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 51/159 (32%), Positives = 74/159 (46%), Gaps = 21/159 (13%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLC-----------KIKYYNGCLFHTVQKDFXXXXX-XXX 57
G +V +LF D CP T +NF LC K +Y CLFH V KDF
Sbjct: 41 GRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSCLFHRVVKDFMVQGGDFSE 100
Query: 58 XXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLD 117
+S+Y FF DE +KH ++MA+ G++ N SQF++T +
Sbjct: 101 GNGRGGESIY-------GGFFEDE-SFAVKHNAAFLLSMANRGKDTNGSQFFITTKPT-P 151
Query: 118 YLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+LD H +FG+V G E + I D ++P+ +RI
Sbjct: 152 HLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRI 190
>pdb|2HE9|A Chain A, Structure Of The Peptidylprolyl Isomerase Domain Of The
Human Nk-Tumour Recognition Protein
pdb|2HE9|B Chain B, Structure Of The Peptidylprolyl Isomerase Domain Of The
Human Nk-Tumour Recognition Protein
Length = 192
Score = 75.9 bits (185), Expect = 5e-14, Method: Composition-based stats.
Identities = 52/160 (32%), Positives = 76/160 (47%), Gaps = 21/160 (13%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC-----------KIKYYNGCLFHTVQKDFXXXXXX-X 56
+G I+ LF D CP T KNFL LC K Y G FH V K+F
Sbjct: 33 VGRIMFQLFSDICPKTCKNFLCLCSGEKGLGKTTGKKLCYKGSTFHRVVKNFMIQGGDFS 92
Query: 57 XXXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNL 116
+S+Y +F DE + LKH + ++MA+ G++ N SQF++T +
Sbjct: 93 EGNGKGGESIY-------GGYFKDENFI-LKHDRAFLLSMANRGKHTNGSQFFITTKP-A 143
Query: 117 DYLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+LD H +FG V G E + +I D +RPY ++R+
Sbjct: 144 PHLDGVHVVFGLVISGFEVIEQIENLKTDAASRPYADVRV 183
>pdb|2BIT|X Chain X, Crystal Structure Of Human Cyclophilin D At 1.7 A
Resolution
pdb|2BIU|X Chain X, Crystal Structure Of Human Cyclophilin D At 1.7 A
Resolution, Dmso Complex
Length = 165
Score = 75.1 bits (183), Expect = 1e-13, Method: Composition-based stats.
Identities = 56/152 (36%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG +V++L D P T +NF LC K Y G FH V F
Sbjct: 17 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYM-TLRDNLDYLDEKHT 124
K +YG + F DE LKH G ++MA+AG N N SQF++ T++ D+LD KH
Sbjct: 76 --KSIYGSR---FPDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKT--DWLDGKHV 127
Query: 125 IFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+FG V EG++ + +I ESF + R K I I
Sbjct: 128 VFGHVIEGMDVVKKI-ESFGSKSGRTSKKIVI 158
>pdb|3R49|A Chain A, Human Cyclophilin D Complexed With Quinolin-8-Amine
pdb|3R4G|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R54|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R56|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R57|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3R59|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3RCF|A Chain A, Human Cyclophilin D Complexed With N-[(4-Aminophenyl)
Sulfonyl]benzamide
pdb|3RCG|A Chain A, Human Cyclophilin D Complexed With Dimethylformamide
pdb|3RCI|X Chain X, Human Cyclophilin D Complexed With
5-Methyl-1,2-Oxazol-3-Amine
pdb|3RCK|X Chain X, Human Cyclophilin D Complexed With A Fragment
pdb|3RCL|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3RD9|X Chain X, Human Cyclophilin D Complexed With A Fragment
pdb|3RDA|X Chain X, Human Cyclophilin D Complexed With A Fragment
pdb|3RDB|A Chain A, Human Cyclophilin D Complexed With A Fragment
pdb|3RDC|A Chain A, Human Cyclophilin D Complexed With An Inhibitor
Length = 166
Score = 75.1 bits (183), Expect = 1e-13, Method: Composition-based stats.
Identities = 56/152 (36%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG +V++L D P T +NF LC K Y G FH V F
Sbjct: 18 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGG- 76
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYM-TLRDNLDYLDEKHT 124
K +YG + F DE LKH G ++MA+AG N N SQF++ T++ D+LD KH
Sbjct: 77 --KSIYGSR---FPDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKT--DWLDGKHV 128
Query: 125 IFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+FG V EG++ + +I ESF + R K I I
Sbjct: 129 VFGHVIEGMDVVKKI-ESFGSKSGRTSKKIVI 159
>pdb|3QYU|A Chain A, Crystal Structure Of Human Cyclophilin D At 1.54 A
Resolution At Room Temperature
Length = 164
Score = 75.1 bits (183), Expect = 1e-13, Method: Composition-based stats.
Identities = 56/152 (36%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG +V++L D P T +NF LC K Y G FH V F
Sbjct: 16 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGG- 74
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYM-TLRDNLDYLDEKHT 124
K +YG + F DE LKH G ++MA+AG N N SQF++ T++ D+LD KH
Sbjct: 75 --KSIYGSR---FPDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKT--DWLDGKHV 126
Query: 125 IFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+FG V EG++ + +I ESF + R K I I
Sbjct: 127 VFGHVIEGMDVVKKI-ESFGSKSGRTSKKIVI 157
>pdb|2Z6W|A Chain A, Crystal Structure Of Human Cyclophilin D In Complex With
Cyclosporin A
pdb|2Z6W|B Chain B, Crystal Structure Of Human Cyclophilin D In Complex With
Cyclosporin A
Length = 165
Score = 75.1 bits (183), Expect = 1e-13, Method: Composition-based stats.
Identities = 56/152 (36%), Positives = 76/152 (50%), Gaps = 14/152 (9%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG +V++L D P T +NF LC K Y G FH V F
Sbjct: 17 LGRVVLELKADVVPKTAENFRALCTGEKGFGYKGSTFHRVIPSFMCQAGDFTNHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYM-TLRDNLDYLDEKHT 124
K +YG + F DE LKH G ++MA+AG N N SQF++ T++ D+LD KH
Sbjct: 76 --KSIYGSR---FPDE-NFTLKHVGPGVLSMANAGPNTNGSQFFICTIKT--DWLDGKHV 127
Query: 125 IFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+FG V EG++ + +I ESF + R K I I
Sbjct: 128 VFGHVIEGMDVVKKI-ESFGSKSGRTSKKIVI 158
>pdb|2RMC|A Chain A, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
pdb|2RMC|C Chain C, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
pdb|2RMC|E Chain E, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
pdb|2RMC|G Chain G, Crystal Structure Of Murine Cyclophilin C Complexed With
Immunosuppressive Drug Cyclosporin A
Length = 182
Score = 73.6 bits (179), Expect = 3e-13, Method: Composition-based stats.
Identities = 56/168 (33%), Positives = 80/168 (47%), Gaps = 19/168 (11%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G IV+ LF + P T +NF+ L K Y G +FH V KDF
Sbjct: 21 VGRIVIGLFGNVVPKTVENFVALATGEKGYGYKGSIFHRVIKDFMIQGGDFTARDGTGGM 80
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
+YGE F DE LKH G V+MA+AG + N SQF++TL +LD KH +
Sbjct: 81 S---IYGET---FPDE-NFKLKHYGIGWVSMANAGPDTNGSQFFITLTKP-TWLDGKHVV 132
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKN--------IRIKHTYILEDP 165
FG+V +G+ + I D +RP + I +K +++E P
Sbjct: 133 FGKVLDGMTVVHSIELQATDGHDRPLTDCTIVNSGKIDVKTPFVVEVP 180
>pdb|3BO7|A Chain A, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
pdb|3BO7|B Chain B, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
pdb|3BO7|C Chain C, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
pdb|3BO7|D Chain D, Crystal Structure Of Toxoplasma Gondii Peptidyl-Prolyl
Cis-Trans Isomerase, 541.M00136
Length = 201
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 50/172 (29%), Positives = 89/172 (51%), Gaps = 12/172 (6%)
Query: 5 IVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXX--------XXX 56
IVT+ G + ++L D P +FL+LC +KY++ +FH ++F
Sbjct: 11 IVTTQGSLNIELHADMAPRACDSFLRLCAVKYFDDTIFHRCIRNFMIQGGRAELRQPSKK 70
Query: 57 XXXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNL 116
S+ F G F DE L H G ++MA+ G++ N S+F++T + +
Sbjct: 71 KEVQQSPRSISGFPGGAP---FEDEFDNRLVHQGIGVLSMANDGKHSNLSEFFITFK-SC 126
Query: 117 DYLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILEDPFDD 168
++L+ KHTIFG V GL+ L + + D+K++P K +++ + ++PF+D
Sbjct: 127 EHLNNKHTIFGRVVGGLDVLRQWEKLETDKKDKPLKPPKVEEIIVFKNPFED 178
>pdb|2WFI|A Chain A, Atomic Resolution Crystal Structure Of The Ppiase Domain
Of Human Cyclophilin G
Length = 179
Score = 73.2 bits (178), Expect = 4e-13, Method: Composition-based stats.
Identities = 51/159 (32%), Positives = 74/159 (46%), Gaps = 21/159 (13%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLC-----------KIKYYNGCLFHTVQKDFXXXXXX-XX 57
G +V +LF D CP T +NF LC K +Y LFH V KDF
Sbjct: 24 GRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQKPLHYKSXLFHRVVKDFMVQGGDFSE 83
Query: 58 XXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLD 117
+S+Y FF DE +KH K ++MA+ G++ N SQF++T +
Sbjct: 84 GNGRGGESIY-------GGFFEDE-SFAVKHNKEFLLSMANRGKDTNGSQFFITTKPT-P 134
Query: 118 YLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+LD H +FG+V G E + I D ++P+ +RI
Sbjct: 135 HLDGHHVVFGQVISGQEVVREIENQKTDAASKPFAEVRI 173
>pdb|2ESL|A Chain A, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|B Chain B, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|C Chain C, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|D Chain D, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|E Chain E, Human Cyclophilin C In Complex With Cyclosporin A
pdb|2ESL|F Chain F, Human Cyclophilin C In Complex With Cyclosporin A
Length = 190
Score = 72.4 bits (176), Expect = 7e-13, Method: Composition-based stats.
Identities = 54/151 (35%), Positives = 71/151 (47%), Gaps = 11/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G IV+ LF P T +NF+ L K Y G FH V KDF
Sbjct: 29 VGRIVIGLFGKVVPKTVENFVALATGEKGYGYKGSKFHRVIKDFMIQGGDITTGDGTGGV 88
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
+YGE F DE LKH G V+MA+AG + N SQF++TL +LD KH +
Sbjct: 89 S---IYGET---FPDE-NFKLKHYGIGWVSMANAGPDTNGSQFFITLTKP-TWLDGKHVV 140
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V +G+ + I D +RP N I
Sbjct: 141 FGKVIDGMTVVHSIELQATDGHDRPLTNCSI 171
>pdb|4FRU|A Chain A, Crystal Structure Of Horse Wild-Type Cyclophilin B
Length = 185
Score = 72.4 bits (176), Expect = 7e-13, Method: Composition-based stats.
Identities = 52/151 (34%), Positives = 77/151 (50%), Gaps = 11/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G +V+ LF P T NF+ L K Y FH V KDF
Sbjct: 26 IGRVVIGLFGKTVPKTVDNFVALATGEKGFGYKDSKFHRVIKDFMIQGGDFTRGDGTGG- 84
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE LKH G V+MA+AG++ N SQF++T +LD KH +
Sbjct: 85 --KSIYGER---FPDE-NFKLKHYGPGWVSMANAGKDTNGSQFFITTVKTA-WLDGKHVV 137
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V EG+E + ++ + D +++P K++ I
Sbjct: 138 FGKVLEGMEVVRKVETTKTDGRDKPLKDVTI 168
>pdb|1IHG|A Chain A, Bovine Cyclophilin 40, Monoclinic Form
pdb|1IIP|A Chain A, Bovine Cyclophilin 40, Tetragonal Form
Length = 370
Score = 72.0 bits (175), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 52/159 (32%), Positives = 77/159 (48%), Gaps = 20/159 (12%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC-----------KIKYYNGCLFHTVQKDFXXXXXXXX 57
+G IV++LF D P T +NF LC K ++ GC FH + K F
Sbjct: 29 VGRIVLELFADIVPKTAENFRALCTGEKGIGPTTGKPLHFKGCPFHRIIKKFMIQGGDFS 88
Query: 58 XXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLD 117
+YGE+ F DE KH K G ++MA+AG N N SQF++T
Sbjct: 89 NQNGTGGES---IYGEK---FEDE-NFHYKHDKEGLLSMANAGSNTNGSQFFITTVPT-P 140
Query: 118 YLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+LD KH +FG+V +G+ +++I E+ + +P K I
Sbjct: 141 HLDGKHVVFGQVIKGM-GVAKILENVEVKGEKPAKLCVI 178
>pdb|4FRV|A Chain A, Crystal Structure Of Mutated Cyclophilin B That Causes
Hyperelastosis Cutis In The American Quarter Horse
Length = 185
Score = 72.0 bits (175), Expect = 9e-13, Method: Composition-based stats.
Identities = 52/151 (34%), Positives = 77/151 (50%), Gaps = 11/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G +V+ LF P T NF+ L K Y FH V KDF
Sbjct: 26 IGRVVIGLFGKTVPKTVDNFVALATGEKGFGYKDSKFHRVIKDFMIQGGDFTRGDGTGG- 84
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE LKH G V+MA+AG++ N SQF++T +LD KH +
Sbjct: 85 --KSIYGER---FPDE-NFKLKHYGPGWVSMANAGKDTNGSQFFITTVKTA-WLDGKHVV 137
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V EG+E + ++ + D +++P K++ I
Sbjct: 138 FGKVLEGMEVVRKVETTKTDGRDKPLKDVTI 168
>pdb|1CYN|A Chain A, Cyclophilin B Complexed With
[d-(Cholinylester)ser8]-Cyclosporin
Length = 178
Score = 72.0 bits (175), Expect = 9e-13, Method: Composition-based stats.
Identities = 51/151 (33%), Positives = 76/151 (50%), Gaps = 11/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G ++ LF P T NF+ L K Y FH V KDF
Sbjct: 19 VGRVIFGLFGKTVPKTVDNFVALATGEKGFGYKNSKFHRVIKDFMIQGGDFTRGDGTGG- 77
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE LKH G V+MA+AG++ N SQF++T +LD KH +
Sbjct: 78 --KSIYGER---FPDE-NFKLKHYGPGWVSMANAGKDTNGSQFFITTVKTA-WLDGKHVV 130
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V EG+E + ++ + D +++P K++ I
Sbjct: 131 FGKVLEGMEVVRKVESTKTDSRDKPLKDVII 161
>pdb|3ICH|A Chain A, Crystal Structure Of Cyclophilin B At 1.2 A Resolution
pdb|3ICI|A Chain A, Crystal Structure Of Cyclophilin B In Complex With
Calmegin Fragment
pdb|3ICI|B Chain B, Crystal Structure Of Cyclophilin B In Complex With
Calmegin Fragment
Length = 188
Score = 71.2 bits (173), Expect = 2e-12, Method: Composition-based stats.
Identities = 51/151 (33%), Positives = 76/151 (50%), Gaps = 11/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G ++ LF P T NF+ L K Y FH V KDF
Sbjct: 29 VGRVIFGLFGKTVPKTVDNFVALATGEKGFGYKNSKFHRVIKDFMIQGGDFTRGDGTGG- 87
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE LKH G V+MA+AG++ N SQF++T +LD KH +
Sbjct: 88 --KSIYGER---FPDE-NFKLKHYGPGWVSMANAGKDTNGSQFFITTVKTA-WLDGKHVV 140
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V EG+E + ++ + D +++P K++ I
Sbjct: 141 FGKVLEGMEVVRKVESTKTDSRDKPLKDVII 171
>pdb|4I9Y|A Chain A, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|B Chain B, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|C Chain C, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|D Chain D, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|E Chain E, Structure Of The C-terminal Domain Of Nup358
pdb|4I9Y|F Chain F, Structure Of The C-terminal Domain Of Nup358
Length = 167
Score = 69.7 bits (169), Expect = 4e-12, Method: Composition-based stats.
Identities = 52/151 (34%), Positives = 78/151 (51%), Gaps = 12/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG I ++LF + P T +NF LC K + +FH V DF
Sbjct: 20 LGRITMELFSNIVPRTAENFRALCTGEKGFGFKNSIFHRVIPDFVCQGGDITKHDGTGG- 78
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
+ +YG++ F DE D+KH G ++MA+ G+N N SQF +TL+ ++LD KH +
Sbjct: 79 --QSIYGDK---FEDE-NFDVKHTGPGLLSMANQGQNTNNSQFVITLK-KAEHLDFKHVV 131
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG V +G++T+ +I ESF K + I I
Sbjct: 132 FGFVKDGMDTVKKI-ESFGSPKGSVCRRITI 161
>pdb|3PMP|A Chain A, Crystal Structure Of Cyclophilin A From Moniliophthora
Perniciosa In Complex With Cyclosporin A
pdb|3PMP|B Chain B, Crystal Structure Of Cyclophilin A From Moniliophthora
Perniciosa In Complex With Cyclosporin A
Length = 164
Score = 69.7 bits (169), Expect = 4e-12, Method: Composition-based stats.
Identities = 47/133 (35%), Positives = 67/133 (50%), Gaps = 11/133 (8%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
G IV L+ + P T KNF +L ++ Y +FH V F
Sbjct: 17 GRIVFKLYDEAVPKTAKNFRELATGQHGFGYKDSIFHRVIPQFMLQGGDFTRHNGTGG-- 74
Query: 67 YKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTIF 126
K +YGE+ F DE +KH K G ++MA+AG N N SQF++T +LD KH +F
Sbjct: 75 -KSIYGEK---FADE-NFQVKHTKPGLLSMANAGANTNGSQFFITTVPT-SWLDGKHVVF 128
Query: 127 GEVAEGLETLSRI 139
GEV EGL+ + ++
Sbjct: 129 GEVIEGLDIVRKV 141
>pdb|3O7T|A Chain A, Crystal Structure Of Cyclophilin A From Moniliophthora
Perniciosa
Length = 164
Score = 69.3 bits (168), Expect = 6e-12, Method: Composition-based stats.
Identities = 47/133 (35%), Positives = 67/133 (50%), Gaps = 11/133 (8%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
G IV L+ + P T KNF +L ++ Y +FH V F
Sbjct: 18 GRIVFKLYDEAVPKTAKNFRELATGQHGFGYKDSIFHRVIPQFMLQGGDFTRHNGTGG-- 75
Query: 67 YKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTIF 126
K +YGE+ F DE +KH K G ++MA+AG N N SQF++T +LD KH +F
Sbjct: 76 -KSIYGEK---FADE-NFQVKHTKPGLLSMANAGANTNGSQFFITTVPT-SWLDGKHVVF 129
Query: 127 GEVAEGLETLSRI 139
GEV EGL+ + ++
Sbjct: 130 GEVIEGLDIVRKV 142
>pdb|2CFE|A Chain A, The 1.5 A Crystal Structure Of The Malassezia Sympodialis
Mala S 6 Allergen, A Member Of The Cyclophilin Pan-
Allergen Family
Length = 162
Score = 68.9 bits (167), Expect = 8e-12, Method: Composition-based stats.
Identities = 55/151 (36%), Positives = 69/151 (45%), Gaps = 12/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG I LF D P T NF LC K Y G FH V DF
Sbjct: 15 LGTIKFKLFDDVVPKTAANFRALCTGEKGFGYAGSHFHRVIPDFMLQGGDFTAGNGTGG- 73
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YG + F DE LKH K G ++MA+AG N N SQF++T +LD KH +
Sbjct: 74 --KSIYGAK---FADE-NFQLKHNKPGLLSMANAGPNTNGSQFFITTVVT-SWLDGKHVV 126
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FGEV +G+ + I E+ +P I I
Sbjct: 127 FGEVIDGMNVVKAI-EAEGSGSGKPRSRIEI 156
>pdb|1H0P|A Chain A, Cyclophilin_5 From C. Elegans
Length = 182
Score = 68.9 bits (167), Expect = 8e-12, Method: Composition-based stats.
Identities = 48/151 (31%), Positives = 77/151 (50%), Gaps = 11/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLCKI---KYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G IV+ LF P T NF++L K + Y G FH V DF
Sbjct: 20 IGRIVIGLFGKTVPKTATNFIELAKKPKGEGYPGSKFHRVIADFMIQGGDFTRGDGTGG- 78
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
+ +YGE+ F DE LKH G ++MA+AG + N SQF++T +LD +H +
Sbjct: 79 --RSIYGEK---FADE-NFKLKHYGAGWLSMANAGADTNGSQFFITTVKT-PWLDGRHVV 131
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG++ EG++ + +I ++ +RP +++ I
Sbjct: 132 FGKILEGMDVVRKIEQTEKLPGDRPKQDVII 162
>pdb|1C5F|A Chain A, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|C Chain C, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|E Chain E, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|G Chain G, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|I Chain I, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|K Chain K, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|M Chain M, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1C5F|O Chain O, Crystal Structure Of The Cyclophilin-Like Domain From
Brugia Malayi Complexed With Cyclosporin A
pdb|1A33|A Chain A, Peptidylprolyl Isomerase, Cyclophilin-Like Domain From
Brugia Malayi
pdb|1A58|A Chain A, Cyclophilin From Brugia Malayi
Length = 177
Score = 68.6 bits (166), Expect = 1e-11, Method: Composition-based stats.
Identities = 51/159 (32%), Positives = 74/159 (46%), Gaps = 21/159 (13%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLC-----------KIKYYNGCLFHTVQKDFXXXXXX-XX 57
G IV++L+ D P T NFL LC K +Y G FH V K+F
Sbjct: 21 GRIVMELYNDIAPRTCNNFLMLCTGMAGTGKISGKPLHYKGSTFHRVIKNFMIQGGDFTK 80
Query: 58 XXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLD 117
+S+Y F DE V +KH + V+MA+ G N N SQF++T
Sbjct: 81 GDGTGGESIY-------GGMFDDEEFV-MKHDEPFVVSMANKGPNTNGSQFFITTTP-AP 131
Query: 118 YLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+L+ H +FG+V G E +++I + KNRP ++ I
Sbjct: 132 HLNNIHVVFGKVVSGQEVVTKIEYLKTNSKNRPLADVVI 170
>pdb|1XO7|A Chain A, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XO7|B Chain B, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XO7|C Chain C, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XO7|D Chain D, Crystal Structure Of Cyclophilin From Trypanosoma Cruzi
pdb|1XQ7|A Chain A, Cyclophilin From Trypanosoma Cruzi Bound To Cyclosporin A
pdb|1XQ7|B Chain B, Cyclophilin From Trypanosoma Cruzi Bound To Cyclosporin A
pdb|1XQ7|C Chain C, Cyclophilin From Trypanosoma Cruzi Bound To Cyclosporin A
Length = 166
Score = 67.8 bits (164), Expect = 2e-11, Method: Composition-based stats.
Identities = 47/157 (29%), Positives = 80/157 (50%), Gaps = 12/157 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G +V+ LF + P T +NF +L + Y G +FH V ++F
Sbjct: 19 VGRVVIGLFGNDVPKTVENFKQLASGENGFGYKGSIFHRVIRNFMIQGGDFTNFDGTGG- 77
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YG RF D+ + +KH G V+MA+AG N N SQF++T +LD +H +
Sbjct: 78 --KSIYG--TRF--DDENLKIKHF-VGAVSMANAGPNSNGSQFFVTTAPT-PWLDGRHVV 129
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYIL 162
FG+V EG++ + ++ + ++P K ++I +L
Sbjct: 130 FGKVVEGMDVVKKVENTKTGLNDKPKKAVKINDCGVL 166
>pdb|1QOI|A Chain A, U4U6 SNRNP-Specific Cyclophilin Snucyp-20
pdb|1MZW|A Chain A, Crystal Structure Of A U4U6 SNRNP COMPLEX BETWEEN HUMAN
Spliceosomal Cyclophilin H And A U4U6-60k Peptide
Length = 177
Score = 67.8 bits (164), Expect = 2e-11, Method: Composition-based stats.
Identities = 45/151 (29%), Positives = 72/151 (47%), Gaps = 18/151 (11%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLCKIKY--------YNGCLFHTVQKDFXXXXXX-XXXX 59
+G + ++LF D P T +NF + C ++ Y G FH V KDF
Sbjct: 24 VGRMKIELFADVVPKTAENFRQFCTGEFRKDGVPIGYKGSTFHRVIKDFMIQGGDFVNGD 83
Query: 60 XXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYL 119
S+Y+ G F DE L+H+ G ++MA++G + N QF++T D+L
Sbjct: 84 GTGVASIYR---GP----FADE-NFKLRHSAPGLLSMANSGPSTNGCQFFITC-SKCDWL 134
Query: 120 DEKHTIFGEVAEGLETLSRINESFVDEKNRP 150
D KH +FG++ +GL + +I N+P
Sbjct: 135 DGKHVVFGKIIDGLLVMRKIENVPTGPNNKP 165
>pdb|2R99|A Chain A, Crystal Structure Of Cyclophilin Abh-Like Domain Of Human
Peptidylprolyl Isomerase E Isoform 1
Length = 173
Score = 67.4 bits (163), Expect = 2e-11, Method: Composition-based stats.
Identities = 51/150 (34%), Positives = 76/150 (50%), Gaps = 12/150 (8%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
G I + L D P+T +NF LC + + G FH + F
Sbjct: 26 GRIQMLLRSDVVPMTAENFRCLCTHEKGFGFKGSSFHRIIPQFMCQGGDFTNHNGTGG-- 83
Query: 67 YKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTIF 126
K +YG++ F DE + LKH G ++MA++G N N SQF++T D D+LD KH +F
Sbjct: 84 -KSIYGKK---FDDENFI-LKHTGPGLLSMANSGPNTNGSQFFLTC-DKTDWLDGKHVVF 137
Query: 127 GEVAEGLETLSRINESFVDEKNRPYKNIRI 156
GEV EGL+ L +I E+ + +P + + I
Sbjct: 138 GEVTEGLDVLRQI-EAQGSKDGKPKQKVII 166
>pdb|1ZMF|A Chain A, C Domain Of Human Cyclophilin-33(Hcyp33)
Length = 165
Score = 67.4 bits (163), Expect = 2e-11, Method: Composition-based stats.
Identities = 51/150 (34%), Positives = 76/150 (50%), Gaps = 12/150 (8%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
G I + L D P+T +NF LC + + G FH + F
Sbjct: 18 GRIQMLLRSDVVPMTAENFRCLCTHEKGFGFKGSSFHRIIPQFMCQGGDFTNHNGTGG-- 75
Query: 67 YKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTIF 126
K +YG++ F DE + LKH G ++MA++G N N SQF++T D D+LD KH +F
Sbjct: 76 -KSIYGKK---FDDENFI-LKHTGPGLLSMANSGPNTNGSQFFLTC-DKTDWLDGKHVVF 129
Query: 127 GEVAEGLETLSRINESFVDEKNRPYKNIRI 156
GEV EGL+ L +I E+ + +P + + I
Sbjct: 130 GEVTEGLDVLRQI-EAQGSKDGKPKQKVII 158
>pdb|3K0R|A Chain A, Cryogenic Structure Of Cypa Mutant Arg55lys
Length = 165
Score = 67.4 bits (163), Expect = 2e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHKIIPGFMCQGGDFTRHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|2XGY|B Chain B, Complex Of Rabbit Endogenous Lentivirus (Relik)capsid With
Cyclophilin A
Length = 173
Score = 67.4 bits (163), Expect = 2e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 25 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 83
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 84 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 136
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 137 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 173
>pdb|2WLW|A Chain A, Structure Of The N-Terminal Capsid Domain Of Hiv-2
pdb|4DGA|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: Hiv-1
Ca(O-Loop) Complex
pdb|4DGA|B Chain B, Trimcyp Cyclophilin Domain From Macaca Mulatta: Hiv-1
Ca(O-Loop) Complex
pdb|4DGB|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: Hiv-2 Ca
Cyclophilin- Binding Loop Complex
pdb|4DGC|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|B Chain B, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|C Chain C, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|D Chain D, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
pdb|4DGC|E Chain E, Trimcyp Cyclophilin Domain From Macaca Mulatta:
Cyclosporin A Complex
Length = 165
Score = 67.0 bits (162), Expect = 3e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGNFTHHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|1M9E|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a Complex.
pdb|1M9E|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a Complex
Length = 164
Score = 67.0 bits (162), Expect = 3e-11, Method: Composition-based stats.
Identities = 51/151 (33%), Positives = 71/151 (47%), Gaps = 12/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V EG+ + + E F + K I I
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITI 158
>pdb|2RMA|A Chain A, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|C Chain C, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|E Chain E, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|G Chain G, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|I Chain I, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|K Chain K, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|M Chain M, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|O Chain O, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|Q Chain Q, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMA|S Chain S, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|A Chain A, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|C Chain C, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|E Chain E, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|G Chain G, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|I Chain I, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|K Chain K, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|M Chain M, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|O Chain O, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|Q Chain Q, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|2RMB|S Chain S, Crystal Structures Of Cyclophilin A Complexed With
Cyclosporin A And
N-Methyl-4-[(E)-2-Butenyl]-4,4-Dimethylthreonine
Cyclosporin A
pdb|1CWC|A Chain A, Improved Binding Affinity For Cyclophilin A By A
Cyclosporin Derivative Singly Modified At Its Effector
Domain
pdb|1CWB|A Chain A, The X-Ray Structure Of (Mebm2t)1-Cyclosporin Complexed
With Cyclophilin A Provides An Explanation For Its
Anomalously High Immunosuppressive Activity
pdb|1CWA|A Chain A, X-Ray Structure Of A Monomeric Cyclophilin A-Cyclosporin A
Crystal Complex At 2.1 Angstroms Resolution
pdb|1MIK|A Chain A, The Role Of Water Molecules In The Structure-Based Design
Of (5- Hydroxynorvaline)-2-Cyclosporin: Synthesis,
Biological Activity, And Crystallographic Analysis With
Cyclophilin A
pdb|1FGL|A Chain A, Cyclophilin A Complexed With A Fragment Of Hiv-1 Gag
Protein
pdb|1AK4|A Chain A, Human Cyclophilin A Bound To The Amino-Terminal Domain Of
Hiv-1 Capsid
pdb|1AK4|B Chain B, Human Cyclophilin A Bound To The Amino-Terminal Domain Of
Hiv-1 Capsid
pdb|1CWF|A Chain A, Human Cyclophilin A Complexed With 2-Val Cyclosporin
pdb|1CWH|A Chain A, Human Cyclophilin A Complexed With 3-D-Ser Cyclosporin
pdb|1CWK|A Chain A, Human Cyclophilin A Complexed With 1-(6,7-Dihydro)mebmt
2-Val 3-D-(2- S-Methyl)sarcosine Cyclosporin
pdb|1CWL|A Chain A, Human Cyclophilin A Complexed With 4 4-Hydroxy-Meleu
Cyclosporin
pdb|1CWM|A Chain A, Human Cyclophilin A Complexed With 4 Meile Cyclosporin
pdb|1CWI|A Chain A, Human Cyclophilin A Complexed With 2-Val
3-(N-Methyl)-D-Alanine Cyclosporin
pdb|1CWJ|A Chain A, Human Cyclophilin A Complexed With 2-Val
3-S-Methyl-Sarcosine Cyclosporin
pdb|1VBS|A Chain A, Structure Of Cyclophilin Complexed With (D)ala Containing
Tetrapeptide
pdb|1VBT|A Chain A, Structure Of Cyclophilin Complexed With Sulfur-Substituted
Tetrapeptide Aapf
pdb|1VBT|B Chain B, Structure Of Cyclophilin Complexed With Sulfur-Substituted
Tetrapeptide Aapf
pdb|1M63|C Chain C, Crystal Structure Of Calcineurin-Cyclophilin-Cyclosporin
Shows Common But Distinct Recognition Of
Immunophilin-Drug Complexes
pdb|1M63|G Chain G, Crystal Structure Of Calcineurin-Cyclophilin-Cyclosporin
Shows Common But Distinct Recognition Of
Immunophilin-Drug Complexes
pdb|1MF8|C Chain C, Crystal Structure Of Human Calcineurin Complexed With
Cyclosporin A And Human Cyclophilin
pdb|1NMK|A Chain A, The Sanglifehrin-Cyclophilin Interaction: Degradation
Work, Synthetic Macrocyclic Analogues, X-Ray Crystal
Structure And Binding Data
pdb|1NMK|B Chain B, The Sanglifehrin-Cyclophilin Interaction: Degradation
Work, Synthetic Macrocyclic Analogues, X-Ray Crystal
Structure And Binding Data
pdb|1M9C|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type Complex.
pdb|1M9C|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type Complex.
pdb|1M9D|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) O-Type Chimera Complex.
pdb|1M9D|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) O-Type Chimera Complex.
pdb|1M9F|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m Complex.
pdb|1M9F|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m Complex.
pdb|1M9X|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9X|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9X|E Chain E, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9X|F Chain F, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,A88m,G89a Complex.
pdb|1M9Y|A Chain A, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1M9Y|B Chain B, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1M9Y|E Chain E, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1M9Y|F Chain F, X-Ray Crystal Structure Of Cyclophilin AHIV-1 Ca N-
Terminal Domain (1-146) M-Type H87a,G89a Complex.
pdb|1W8L|A Chain A, Enzymatic And Structural Characterization Of Non Peptide
Ligand Cyclophilin Complexes
pdb|1W8M|A Chain A, Enzymatic And Structural Characterisation Of Non Peptide
Ligand Cyclophilin Complexes
pdb|1W8V|A Chain A, Enzymatic And Structural Characterization Of Non Peptide
Ligand Cyclophilin Complexes
pdb|1YND|A Chain A, Structure Of Human Cyclophilin A In Complex With The Novel
Immunosuppressant Sanglifehrin A At 1.6a Resolution
pdb|1YND|B Chain B, Structure Of Human Cyclophilin A In Complex With The Novel
Immunosuppressant Sanglifehrin A At 1.6a Resolution
pdb|1ZKF|A Chain A, Cyrstal Structure Of Human Cyclophilin-A In Complex With
Suc-Agpf-Pna
pdb|1ZKF|B Chain B, Cyrstal Structure Of Human Cyclophilin-A In Complex With
Suc-Agpf-Pna
pdb|1OCA|A Chain A, Human Cyclophilin A, Unligated, Nmr, 20 Structures
pdb|2CPL|A Chain A, Similarities And Differences Between Human Cyclophilin A
And Other Beta-Barrel Structures. Structural Refinement
At 1.63 Angstroms Resolution
pdb|3CYS|A Chain A, Determination Of The Nmr Solution Structure Of The
Cyclophilin A- Cyclosporin A Complex
pdb|3K0M|A Chain A, Cryogenic Structure Of Cypa
pdb|3K0N|A Chain A, Room Temperature Structure Of Cypa
pdb|3ODI|A Chain A, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|C Chain C, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|E Chain E, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|G Chain G, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|I Chain I, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|K Chain K, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|M Chain M, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|O Chain O, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|Q Chain Q, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODI|S Chain S, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin E- Isa247
pdb|3ODL|A Chain A, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|C Chain C, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|E Chain E, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|G Chain G, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|I Chain I, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|K Chain K, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|M Chain M, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|O Chain O, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|Q Chain Q, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
pdb|3ODL|S Chain S, Crystal Structure Of Cyclophilin A In Complex With
Voclosporin Z- Isa247
Length = 165
Score = 66.6 bits (161), Expect = 3e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|3RDD|A Chain A, Human Cyclophilin A Complexed With An Inhibitor
Length = 184
Score = 66.6 bits (161), Expect = 4e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 36 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 94
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 95 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 147
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 148 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 184
>pdb|1BCK|A Chain A, Human Cyclophilin A Complexed With 2-Thr Cyclosporin
pdb|1CWO|A Chain A, Human Cyclophilin A Complexed With Thr2, Leu5, D-Hiv8,
Leu10 Cyclosporin
Length = 165
Score = 66.6 bits (161), Expect = 4e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|5CYH|A Chain A, Cyclophilin A Complexed With Dipeptide Gly-Pro
pdb|4CYH|A Chain A, Cyclophilin A Complexed With Dipeptide His-Pro
pdb|3CYH|A Chain A, Cyclophilin A Complexed With Dipeptide Ser-Pro
pdb|2CYH|A Chain A, Cyclophilin A Complexed With Dipeptide Ala-Pro
pdb|1RMH|A Chain A, Recombinant Cyclophilin A From Human T Cell
pdb|1RMH|B Chain B, Recombinant Cyclophilin A From Human T Cell
pdb|1AWQ|A Chain A, Cypa Complexed With Hagpia (Pseudo-Symmetric Monomer)
pdb|1AWR|A Chain A, Cypa Complexed With Hagpia
pdb|1AWR|B Chain B, Cypa Complexed With Hagpia
pdb|1AWR|C Chain C, Cypa Complexed With Hagpia
pdb|1AWR|D Chain D, Cypa Complexed With Hagpia
pdb|1AWR|E Chain E, Cypa Complexed With Hagpia
pdb|1AWR|F Chain F, Cypa Complexed With Hagpia
pdb|1AWU|A Chain A, Cypa Complexed With Hvgpia (Pseudo-Symmetric Monomer)
pdb|1AWV|A Chain A, Cypa Complexed With Hvgpia
pdb|1AWV|B Chain B, Cypa Complexed With Hvgpia
pdb|1AWV|C Chain C, Cypa Complexed With Hvgpia
pdb|1AWV|D Chain D, Cypa Complexed With Hvgpia
pdb|1AWV|E Chain E, Cypa Complexed With Hvgpia
pdb|1AWV|F Chain F, Cypa Complexed With Hvgpia
Length = 164
Score = 66.6 bits (161), Expect = 4e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 74
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 75 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 127
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 128 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 164
>pdb|4DGD|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: H70c
Mutant
pdb|4DGE|A Chain A, Trimcyp Cyclophilin Domain From Macaca Mulatta: H70c
Mutant, Hiv-1 Ca(O-Loop) Complex
pdb|4DGE|B Chain B, Trimcyp Cyclophilin Domain From Macaca Mulatta: H70c
Mutant, Hiv-1 Ca(O-Loop) Complex
Length = 165
Score = 66.6 bits (161), Expect = 4e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 73/158 (46%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGNFTHCNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|3K0O|A Chain A, Room Temperature Structure Of Cypa Mutant Ser99thr
pdb|3K0P|A Chain A, Cryogenic Structure Of Cypa Mutant Ser99thr
pdb|3K0Q|A Chain A, Cryogenic Structure Of Cypa Mutant Ser99thr (2)
Length = 165
Score = 66.6 bits (161), Expect = 4e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 72/158 (45%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G + MA+AG N N SQF++ ++LD KH +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILTMANAGPNTNGSQFFICTAKT-EWLDGKHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|2ALF|A Chain A, Crystal Structure Of Human Cypa Mutant K131a
Length = 164
Score = 65.5 bits (158), Expect = 9e-11, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 71/158 (44%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 74
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ +LD KH +
Sbjct: 75 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-KWLDGKHVV 127
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG V EG+ + + E F + K I I LE
Sbjct: 128 FGAVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 164
>pdb|2X83|B Chain B, Evolutionary Basis Of Hiv Restriction By The
Antiretroviral Trimcyp
pdb|2X83|D Chain D, Evolutionary Basis Of Hiv Restriction By The
Antiretroviral Trimcyp
Length = 163
Score = 65.1 bits (157), Expect = 1e-10, Method: Composition-based stats.
Identities = 50/151 (33%), Positives = 71/151 (47%), Gaps = 12/151 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTHHNGTGG- 74
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD KH +
Sbjct: 75 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGKHVV 127
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
FG+V EG+ + + + F + K I I
Sbjct: 128 FGKVKEGMNIVEAM-KRFGSRNGKTSKKITI 157
>pdb|1QNG|A Chain A, Plasmodium Falciparum Cyclophilin Complexed With
Cyclosporin A
Length = 170
Score = 65.1 bits (157), Expect = 1e-10, Method: Composition-based stats.
Identities = 45/145 (31%), Positives = 71/145 (48%), Gaps = 19/145 (13%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLC---------KIKYYNGCLFHTVQKDFX-XXXXXX 56
++ G I+ +LF D P T +NF LC K +Y +FH + F
Sbjct: 15 SNAGRIIFELFSDITPRTCENFRALCTGEKIGSRGKNLHYKNSIFHRIIPQFMCQGGDIT 74
Query: 57 XXXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNL 116
+S+Y R F DE ++KH + G ++MA+AG N N+SQF++TL
Sbjct: 75 NGNGSGGESIY-------GRSFTDE-NFNMKHDQPGLLSMANAGPNTNSSQFFITLVP-C 125
Query: 117 DYLDEKHTIFGEVAEGLETLSRINE 141
+LD KH +FG+V EG+ + + +
Sbjct: 126 PWLDGKHVVFGKVIEGMNVVREMEK 150
>pdb|2PLU|A Chain A, Crystal Structure Of Cryptosporidium Parvum Cyclophilin
Type Peptidyl-Prolyl Cis-Trans Isomerase Cgd2_4120
pdb|2POY|A Chain A, Cryptosporidium Parvum Cyclophilin Type Peptidyl-Prolyl
Cis-Trans Isomerase Cgd2_4120 In Complex With
Cyclosporin A
pdb|2POY|B Chain B, Cryptosporidium Parvum Cyclophilin Type Peptidyl-Prolyl
Cis-Trans Isomerase Cgd2_4120 In Complex With
Cyclosporin A
pdb|2POY|C Chain C, Cryptosporidium Parvum Cyclophilin Type Peptidyl-Prolyl
Cis-Trans Isomerase Cgd2_4120 In Complex With
Cyclosporin A
Length = 186
Score = 65.1 bits (157), Expect = 1e-10, Method: Composition-based stats.
Identities = 51/160 (31%), Positives = 73/160 (45%), Gaps = 19/160 (11%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLC----------KIKYYNGCLFHTVQKDFXXXXXXX 56
T G I ++LF DK P+T +NF LC K Y G FH + F
Sbjct: 31 TPAGRITMELFADKVPITAENFRALCTGEKGMGQSGKPLCYTGSFFHRIIPQFMIQGGDF 90
Query: 57 XXXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNL 116
+ +YG + F DE V H ++MA+AG N N SQF++T
Sbjct: 91 TRGDGTGG---ESIYGSK---FRDENFV-YTHDAPFLLSMANAGPNTNGSQFFITTVP-C 142
Query: 117 DYLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
+LD KH +FG+V EG+E + I E + +P K++ I
Sbjct: 143 PWLDGKHVVFGKVLEGMEVVKSI-EKCGSQNGKPTKSVCI 181
>pdb|2X2C|K Chain K, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|M Chain M, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|O Chain O, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|Q Chain Q, Acetyl-Cypa:cyclosporine Complex
pdb|2X2C|S Chain S, Acetyl-Cypa:cyclosporine Complex
pdb|2X2D|B Chain B, Acetyl-Cypa:hiv-1 N-Term Capsid Domain Complex
pdb|2X2D|C Chain C, Acetyl-Cypa:hiv-1 N-Term Capsid Domain Complex
Length = 165
Score = 65.1 bits (157), Expect = 1e-10, Method: Composition-based stats.
Identities = 52/158 (32%), Positives = 72/158 (45%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ ++LD H +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-EWLDGXHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|1DYW|A Chain A, Biochemical And Structural Characterization Of A Divergent
Loop Cyclophilin From Caenorhabditis Elegans
pdb|1E3B|A Chain A, Cyclophilin 3 From C.Elegans Complexed With Aup(Et)3
pdb|1E8K|A Chain A, Cyclophilin 3 Complexed With Dipeptide Ala-Pro
pdb|2IGV|A Chain A, Cyclophilin 3 Complexed With Dipeptide Ser-Pro
pdb|2IGW|A Chain A, Cyclophilin 3 Complexed With Dipeptide Gly-Pro
Length = 173
Score = 64.7 bits (156), Expect = 1e-10, Method: Composition-based stats.
Identities = 49/157 (31%), Positives = 73/157 (46%), Gaps = 19/157 (12%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLC----------KIKYYNGCLFHTVQKDFXXXXXXXXXX 59
G IV++L+ D P T NF LC K ++ G FH + +F
Sbjct: 18 GRIVMELYDDVVPKTAGNFRALCTGENGIGKSGKPLHFKGSKFHRIIPNFMIQGGDFTRG 77
Query: 60 XXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYL 119
+ +YGE+ F DE KH G ++MA+AG N N SQF++ ++L
Sbjct: 78 NGTGG---ESIYGEK---FPDE-NFKEKHTGPGVLSMANAGPNTNGSQFFLCTVKT-EWL 129
Query: 120 DEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
D KH +FG V EGL+ + + ES + +P K+ I
Sbjct: 130 DGKHVVFGRVVEGLDVVKAV-ESNGSQSGKPVKDCMI 165
>pdb|2X2A|A Chain A, Free Acetyl-Cypa Trigonal Form
pdb|2X2A|B Chain B, Free Acetyl-Cypa Trigonal Form
Length = 165
Score = 63.9 bits (154), Expect = 2e-10, Method: Composition-based stats.
Identities = 52/158 (32%), Positives = 71/158 (44%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 17 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 75
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ +LD H +
Sbjct: 76 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-KWLDGXHVV 128
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 129 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 165
>pdb|1QNH|A Chain A, Plasmodium Falciparum Cyclophilin (Double Mutant)
Complexed With Cyclosporin A
pdb|1QNH|B Chain B, Plasmodium Falciparum Cyclophilin (Double Mutant)
Complexed With Cyclosporin A
Length = 170
Score = 63.5 bits (153), Expect = 3e-10, Method: Composition-based stats.
Identities = 45/145 (31%), Positives = 70/145 (48%), Gaps = 19/145 (13%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLC---------KIKYYNGCLFHTVQKDFX-XXXXXX 56
++ G I+ +LF D P T +NF LC K +Y +FH + F
Sbjct: 15 SNAGRIIFELFSDITPRTCENFRALCTGEKIGSRGKNLHYKNSIFHRIIPQFMCQGGDIT 74
Query: 57 XXXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNL 116
+S+Y R F DE ++KH + G ++MA+AG N N+SQF +TL
Sbjct: 75 NGNGSGGESIY-------GRSFTDE-NFNMKHDQPGLLSMANAGPNTNSSQFLITLVP-C 125
Query: 117 DYLDEKHTIFGEVAEGLETLSRINE 141
+LD KH +FG+V EG+ + + +
Sbjct: 126 PWLDGKHVVFGKVIEGMNVVREMEK 150
>pdb|2X25|B Chain B, Free Acetyl-Cypa Orthorhombic Form
Length = 169
Score = 63.2 bits (152), Expect = 4e-10, Method: Composition-based stats.
Identities = 52/158 (32%), Positives = 71/158 (44%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 21 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRHNGTGG- 79
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++MA+AG N N SQF++ +LD H +
Sbjct: 80 --KSIYGEK---FEDENFI-LKHTGPGILSMANAGPNTNGSQFFICTAKT-KWLDGXHVV 132
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG+ + + E F + K I I LE
Sbjct: 133 FGKVKEGMNIVEAM-ERFGSRNGKTSKKITIADCGQLE 169
>pdb|2C3B|A Chain A, The Crystal Structure Of Aspergillus Fumigatus Cyclophilin
Reveals 3d Domain Swapping Of A Central Element
pdb|2C3B|B Chain B, The Crystal Structure Of Aspergillus Fumigatus Cyclophilin
Reveals 3d Domain Swapping Of A Central Element
Length = 172
Score = 62.4 bits (150), Expect = 7e-10, Method: Composition-based stats.
Identities = 46/128 (35%), Positives = 64/128 (50%), Gaps = 11/128 (8%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLCKI---KYYNGCLFHTVQKDFXXXXXXXXXXXXXX 63
T +G IV +LF P T KNF +LCK + Y FH + +F
Sbjct: 19 TKVGRIVFNLFDKDVPKTAKNFRELCKRPAGEGYRESTFHRIIPNFMIQGGDFTRGNGTG 78
Query: 64 DSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKH 123
+ +YG++ F DE KH K G ++MA+AG N N SQF++T +LD KH
Sbjct: 79 G---RSIYGDK---FADE-NFSRKHDKKGILSMANAGPNTNGSQFFITTAVT-SWLDGKH 130
Query: 124 TIFGEVAE 131
+FGEVA+
Sbjct: 131 VVFGEVAD 138
>pdb|3UCH|A Chain A, Crystal Structure Of A Hypotherical Peptidyl-Prolyl
Cis-Trans Isomerase E (Ppie) From Homo Sapiens At 2.50 A
Resolution
Length = 174
Score = 61.6 bits (148), Expect = 1e-09, Method: Composition-based stats.
Identities = 48/133 (36%), Positives = 66/133 (49%), Gaps = 11/133 (8%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
G I L D P T +NF LC + + G FH + F
Sbjct: 27 GRIQXLLRSDVVPXTAENFRCLCTHEKGFGFKGSSFHRIIPQFXCQGGDFTNHNGTGG-- 84
Query: 67 YKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTIF 126
K +YG++ F DE + LKH G ++ A++G N N SQF++T D D+LD KH +F
Sbjct: 85 -KSIYGKK---FDDENFI-LKHTGPGLLSXANSGPNTNGSQFFLTC-DKTDWLDGKHVVF 138
Query: 127 GEVAEGLETLSRI 139
GEV EGL+ L +I
Sbjct: 139 GEVTEGLDVLRQI 151
>pdb|1AWS|A Chain A, Secypa Complexed With Hagpia (Pseudo-Symmetric Monomer)
pdb|1AWT|A Chain A, Secypa Complexed With Hagpia
pdb|1AWT|B Chain B, Secypa Complexed With Hagpia
pdb|1AWT|C Chain C, Secypa Complexed With Hagpia
pdb|1AWT|D Chain D, Secypa Complexed With Hagpia
pdb|1AWT|E Chain E, Secypa Complexed With Hagpia
pdb|1AWT|F Chain F, Secypa Complexed With Hagpia
Length = 164
Score = 61.2 bits (147), Expect = 2e-09, Method: Composition-based stats.
Identities = 53/158 (33%), Positives = 71/158 (44%), Gaps = 12/158 (7%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
LG + +LF DK P T +NF L K Y G FH + F
Sbjct: 16 LGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFXCQGGDFTRHNGTGG- 74
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YGE+ F DE + LKH G ++ A+AG N N SQF++ ++LD KH +
Sbjct: 75 --KSIYGEK---FEDENFI-LKHTGPGILSXANAGPNTNGSQFFICTAKT-EWLDGKHVV 127
Query: 126 FGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYILE 163
FG+V EG + E F + K I I LE
Sbjct: 128 FGKVKEG-XNIVEAXERFGSRNGKTSKKITIADCGQLE 164
>pdb|1IST|A Chain A, Crystal Structure Of Yeast Cyclophilin A, Cpr1
pdb|1IST|B Chain B, Crystal Structure Of Yeast Cyclophilin A, Cpr1
pdb|1VDN|A Chain A, Crystal Structure Of Yeast Cyclophilin A Complexed With
Ace-Ala-Ala- Pro-Ala-7-Amino-4-Methylcoumarin
Length = 162
Score = 60.5 bits (145), Expect = 2e-09, Method: Composition-based stats.
Identities = 45/134 (33%), Positives = 64/134 (47%), Gaps = 11/134 (8%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC---KIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDS 65
+G +V L+ D P T +NF LC K Y G FH V DF
Sbjct: 15 IGRVVFKLYNDIVPKTAENFRALCTGEKGFGYAGSPFHRVIPDFMLQGGDFTAGNGTGG- 73
Query: 66 VYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTI 125
K +YG + F DE H + G ++MA+AG N N SQF++T +LD KH +
Sbjct: 74 --KSIYGGK---FPDE-NFKKHHDRPGLLSMANAGPNTNGSQFFITTVP-CPWLDGKHVV 126
Query: 126 FGEVAEGLETLSRI 139
FGEV +G + + ++
Sbjct: 127 FGEVVDGYDIVKKV 140
>pdb|1W74|A Chain A, X-Ray Structure Of Peptidyl-Prolyl Cis-Trans Isomerase A,
Ppia, Rv0009, From Mycobacterium Tuberculosis.
pdb|1W74|B Chain B, X-Ray Structure Of Peptidyl-Prolyl Cis-Trans Isomerase A,
Ppia, Rv0009, From Mycobacterium Tuberculosis
Length = 191
Score = 60.1 bits (144), Expect = 3e-09, Method: Composition-based stats.
Identities = 50/172 (29%), Positives = 76/172 (44%), Gaps = 28/172 (16%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLCKIK---------------YYNGCLFHTVQKDFXX 51
T+ GDI + LF + P T NF+ L + +Y+G +FH V + F
Sbjct: 30 TNRGDIKIALFGNHAPKTVANFVGLAQGTKDYSTQNASGGPSGPFYDGAVFHRVIQGFMI 89
Query: 52 XXXXXXXXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMT 111
YKF DE +L+ K +AMA+AG N SQF++T
Sbjct: 90 QGGDPTGTGRGGPG-YKF---------ADEFHPELQFDKPYLLAMANAGPGTNGSQFFIT 139
Query: 112 LRDNLDYLDEKHTIFGEV--AEGLETLSRINESFVDEKNRPYKNIRIKHTYI 161
+ +L+ +HTIFGEV AE + I+++ D +RP + I+ I
Sbjct: 140 V-GKTPHLNRRHTIFGEVIDAESQRVVEAISKTATDGNDRPTDPVVIESITI 190
>pdb|2CK1|A Chain A, The Structure Of Oxidised Cyclophilin A From S. Mansoni
pdb|2CMT|A Chain A, The Structure Of Reduced Cyclophilin A From S. Mansoni
Length = 172
Score = 60.1 bits (144), Expect = 4e-09, Method: Composition-based stats.
Identities = 44/133 (33%), Positives = 63/133 (47%), Gaps = 11/133 (8%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLCKIKY---YNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
G IV++L D P T +NF LC + Y+ C FH V F
Sbjct: 25 GRIVMELRSDIVPRTAENFRALCTGERGFGYHNCCFHRVIPQFMCQGGDFVKGDGTGG-- 82
Query: 67 YKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLDEKHTIF 126
K +YG R F DE L+H G ++MA++G N N SQF++ D+LD KH +F
Sbjct: 83 -KSIYG---RKFDDE-NFQLRHEGFGVLSMANSGPNTNGSQFFIC-TTKCDWLDGKHVVF 136
Query: 127 GEVAEGLETLSRI 139
G V +G + ++
Sbjct: 137 GRVVDGQNVVKKM 149
>pdb|2HQJ|A Chain A, Cyclophilin From Leishmania Major
Length = 183
Score = 59.7 bits (143), Expect = 5e-09, Method: Composition-based stats.
Identities = 42/141 (29%), Positives = 67/141 (47%), Gaps = 17/141 (12%)
Query: 10 GDIVVDLFVDKCPLTTKNFLKLC----------KIKYYNGCLFHTVQKDFXXXXXX-XXX 58
G IV++L+ D P T +NF LC K +Y +FH V +F
Sbjct: 22 GRIVMELYADTVPKTAENFRALCTGEKGKGRSGKPLHYKSSVFHRVIPNFMIQGGDFTRG 81
Query: 59 XXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDY 118
+S+Y + +++ F G R H G ++MA+AG N N SQF++ +
Sbjct: 82 NGTGGESIYGTTFRDES-FSGKAGR----HTGLGCLSMANAGPNTNGSQFFICTAAT-PW 135
Query: 119 LDEKHTIFGEVAEGLETLSRI 139
LD KH +FG V +GL+ + ++
Sbjct: 136 LDGKHVVFGRVIDGLDVVKKV 156
>pdb|1Z81|A Chain A, Crystal Structure Of Cyclophilin From Plasmodium Yoelii
Length = 229
Score = 56.6 bits (135), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 40/131 (30%), Positives = 64/131 (48%), Gaps = 16/131 (12%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLCKIKY--------YNGCLFHTVQKDFXXXXXXXXXXX 60
LG +LF + P T++NF + C +Y Y +FH V K+F
Sbjct: 73 LGKFKFELFQNIVPKTSENFRQFCTGEYKVNNLPVGYKNTIFHRVIKEFMIQGGDFINHN 132
Query: 61 XXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNASQFYMTLRDNLDYLD 120
+YGE+ F DE D+KH K G ++MA++G N N QF++T + ++LD
Sbjct: 133 GSGSLS---IYGEK---FDDE-NFDIKHDKEGLLSMANSGPNTNGCQFFITTKK-CEWLD 184
Query: 121 EKHTIFGEVAE 131
K+ +FG + +
Sbjct: 185 GKNVVFGRIID 195
>pdb|2K8G|A Chain A, Solution Structure Of Rrm2 Domain Of Pabp1
Length = 95
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+F+ L+ +++ L+ FS FG ++S +++ D S Y F+ FE ++A ERA KM
Sbjct: 14 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 71
Query: 305 DNALIDDRRIHV 316
+ L++DR++ V
Sbjct: 72 NGMLLNDRKVFV 83
>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
pdb|4F02|D Chain D, Crystal Structure Of The Pabp-Binding Site Of Eif4g In
Complex With Rrm1-2 Of Pabp And Poly(A)
Length = 213
Score = 53.1 bits (126), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+F+ L+ +++ L+ FS FG ++S +++ D S Y F+ FE ++A ERA KM
Sbjct: 106 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 163
Query: 305 DNALIDDRRIHV 316
+ L++DR++ V
Sbjct: 164 NGMLLNDRKVFV 175
Score = 46.6 bits (109), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 41/80 (51%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P L+V L+P + L+ FS G ++S + RD T SL YA++ F+ ERA
Sbjct: 14 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 73
Query: 301 YSKMDNALIDDRRIHVDFSQ 320
M+ +I + + + +SQ
Sbjct: 74 LDTMNFDVIKGKPVRIMWSQ 93
>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|B Chain B, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|C Chain C, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|D Chain D, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|E Chain E, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|F Chain F, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|G Chain G, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
pdb|1CVJ|H Chain H, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In
Complex With Polyadenylate Rna
Length = 190
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+F+ L+ +++ L+ FS FG ++S +++ D S Y F+ FE ++A ERA KM
Sbjct: 101 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 158
Query: 305 DNALIDDRRIHV 316
+ L++DR++ V
Sbjct: 159 NGMLLNDRKVFV 170
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 41/80 (51%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P L+V L+P + L+ FS G ++S + RD T SL YA++ F+ ERA
Sbjct: 9 PMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERA 68
Query: 301 YSKMDNALIDDRRIHVDFSQ 320
M+ +I + + + +SQ
Sbjct: 69 LDTMNFDVIKGKPVRIMWSQ 88
>pdb|2KXN|B Chain B, Nmr Structure Of Human Tra2beta1 Rrm In Complex With
Aagaac Rna
Length = 129
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 42/79 (53%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P L V L+ T + DL +FS++G + I+ D ++ S +AF+ FEN + A
Sbjct: 45 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 104
Query: 301 YSKMDNALIDDRRIHVDFS 319
+ + +D RRI VDFS
Sbjct: 105 KERANGMELDGRRIRVDFS 123
>pdb|2NUL|A Chain A, Peptidylprolyl Isomerase From E. Coli
pdb|2RS4|A Chain A, Nmr Strucure Of Stereo-Array Isotope Labelled (Sail)
Peptidyl-Prolyl Cis-Trans Isomerase From E. Coli (Eppib)
Length = 164
Score = 51.2 bits (121), Expect = 1e-06, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 70/145 (48%), Gaps = 26/145 (17%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
T+ GDIV+ F DK P T KNFL C+ +YN +FH V F
Sbjct: 6 TNHGDIVIKTFDDKAPETVKNFLDYCREGFYNNTIFHRVINGFMIQGG------------ 53
Query: 67 YKFLYGEQARFFGDEIRVD----LKHAKTGTVAMASAGENLNAS-QFYMTLRDN--LDYL 119
F G + + + I+ + LK+ + GT+AMA +A+ QF++ + DN L++
Sbjct: 54 -GFEPGMKQKATKEPIKNEANNGLKNTR-GTLAMARTQAPHSATAQFFINVVDNDFLNFS 111
Query: 120 DEK-----HTIFGEVAEGLETLSRI 139
E + +F EV +G++ + +I
Sbjct: 112 GESLQGWGYCVFAEVVDGMDVVDKI 136
>pdb|2RRA|A Chain A, Solution Structure Of Rna Binding Domain In Human Tra2
Beta Protein In Complex With Rna (Gaagaa)
Length = 99
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 42/79 (53%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P L V L+ T + DL +FS++G + I+ D ++ S +AF+ FEN + A
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 301 YSKMDNALIDDRRIHVDFS 319
+ + +D RRI VDFS
Sbjct: 74 KERANGMELDGRRIRVDFS 92
>pdb|1LOP|A Chain A, Cyclophilin A Complexed With
Succinyl-Ala-Pro-Ala-P-Nitroanilide
Length = 164
Score = 50.8 bits (120), Expect = 2e-06, Method: Composition-based stats.
Identities = 43/145 (29%), Positives = 70/145 (48%), Gaps = 26/145 (17%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
T+ GDIV+ F DK P T KNFL C+ +YN +FH V F
Sbjct: 6 TNHGDIVIKTFDDKAPETVKNFLDYCREGFYNNTIFHRVINGFMIQGG------------ 53
Query: 67 YKFLYGEQARFFGDEIRVD----LKHAKTGTVAMASAGENLNAS-QFYMTLRDN--LDYL 119
F G + + + I+ + LK+ + GT+AMA +A+ QF++ + DN L++
Sbjct: 54 -GFEPGMKQKATKEPIKNEANNGLKNTR-GTLAMARTQAPHSATAQFFINVVDNDFLNFS 111
Query: 120 DEK-----HTIFGEVAEGLETLSRI 139
E + +F EV +G++ + +I
Sbjct: 112 GESLQGWGYCVFAEVVDGMDEVDKI 136
>pdb|4F25|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
At Ph 6.0
pdb|4F26|A Chain A, Crystal Structure Of The Second Rrm Domain Of Human Pabpc1
A Ph 9.0
Length = 115
Score = 50.4 bits (119), Expect = 3e-06, Method: Composition-based stats.
Identities = 24/72 (33%), Positives = 44/72 (61%), Gaps = 2/72 (2%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+F+ L+ +++ L+ FS FG ++S +++ D S Y F+ FE ++A ERA KM
Sbjct: 8 IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKM 65
Query: 305 DNALIDDRRIHV 316
+ L++DR++ V
Sbjct: 66 NGMLLNDRKVFV 77
>pdb|2RRB|A Chain A, Refinement Of Rna Binding Domain In Human Tra2 Beta
Protein
Length = 96
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 42/79 (53%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P L V L+ T + DL +FS++G + I+ D ++ S +AF+ FEN + A
Sbjct: 11 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 70
Query: 301 YSKMDNALIDDRRIHVDFS 319
+ + +D RRI VDFS
Sbjct: 71 KERANGMELDGRRIRVDFS 89
>pdb|3PGW|S Chain S, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|L Chain L, Crystal Structure Of Human U1 Snrnp
Length = 437
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 1/84 (1%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
LFV ++N T + L F +G + ++ ++G YAFIE+E+ + AY
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 304 MDNALIDDRRIHVDFSQS-VSKLW 326
D ID RR+ VD + K W
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVKGW 187
>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Nucleolysin Tiar
Length = 105
Score = 48.9 bits (115), Expect = 7e-06, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 39/75 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+FV L+P ED+ + F+ FG + A +++D TG S Y F+ F N+ E A M
Sbjct: 18 VFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIVHM 77
Query: 305 DNALIDDRRIHVDFS 319
+ R+I +++
Sbjct: 78 GGQWLGGRQIRTNWA 92
>pdb|1B7F|A Chain A, Sxl-Lethal ProteinRNA COMPLEX
pdb|1B7F|B Chain B, Sxl-Lethal ProteinRNA COMPLEX
Length = 168
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 39/65 (60%)
Query: 256 DEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIH 315
D +L+ +F G + + I+RD+KTG S YAF++F + +RA ++ + ++R+
Sbjct: 17 DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK 76
Query: 316 VDFSQ 320
V +++
Sbjct: 77 VSYAR 81
Score = 46.6 bits (109), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L D+ L TIF ++G++V I+RD TG AF+ + R+ + A S +
Sbjct: 92 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 151
Query: 305 DNAL 308
+N +
Sbjct: 152 NNVI 155
>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp
Length = 102
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 41/76 (53%)
Query: 242 ENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAY 301
E LFV L+ T ++ L +FS++G + +++D +T S + F+ FEN + A
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAM 71
Query: 302 SKMDNALIDDRRIHVD 317
M+ +D R+I VD
Sbjct: 72 MAMNGKSVDGRQIRVD 87
>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic
Granule-Associated Rna Binding Protein 1
pdb|2RNE|A Chain A, Solution Structure Of The Second Rna Recognition Motif
(Rrm) Of Tia-1
Length = 115
Score = 48.5 bits (114), Expect = 1e-05, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 39/75 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+FV L+P ED+ F+ FG + A +++D TG S Y F+ F N+ E A +M
Sbjct: 18 VFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 77
Query: 305 DNALIDDRRIHVDFS 319
+ R+I +++
Sbjct: 78 GGQWLGGRQIRTNWA 92
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L D+ L TIF ++G++V I+RD TG AF+ + R+ + A S +
Sbjct: 16 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 75
Query: 305 DNAL 308
+N +
Sbjct: 76 NNVI 79
>pdb|1J2A|A Chain A, Structure Of E. Coli Cyclophilin B K163t Mutant
pdb|1V9T|A Chain A, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
Succinyl-Ala- Pro-Ala-P-Nitroanilide
pdb|1V9T|B Chain B, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
Succinyl-Ala- Pro-Ala-P-Nitroanilide
pdb|1VAI|A Chain A, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
N- Acetyl-Ala-Ala-Pro-Ala-7-Amino-4-Methylcoumarin
pdb|1VAI|B Chain B, Structure Of E. Coli Cyclophilin B K163t Mutant Bound To
N- Acetyl-Ala-Ala-Pro-Ala-7-Amino-4-Methylcoumarin
Length = 166
Score = 48.1 bits (113), Expect = 1e-05, Method: Composition-based stats.
Identities = 44/165 (26%), Positives = 78/165 (47%), Gaps = 16/165 (9%)
Query: 3 VLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXX 62
VL+ TS G+I ++L K P++ +NF+ +YN FH V F
Sbjct: 7 VLLTTSAGNIELELDKQKAPVSVQNFVDYVNSGFYNNTTFHRVIPGFMIQGGGFTEQMQQ 66
Query: 63 XDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMA-SAGENLNASQFYMTLRDN--LDY- 118
+ +E L++ + GT+AMA +A ++ SQF++ + DN LD+
Sbjct: 67 K---------KPNPPIKNEADNGLRNTR-GTIAMARTADKDSATSQFFINVADNAFLDHG 116
Query: 119 -LDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYIL 162
D + +FG+V +G++ +I++ + PY+N+ K IL
Sbjct: 117 QRDFGYAVFGKVVKGMDVADKISQVPTHDVG-PYQNVPSKPVVIL 160
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 41/76 (53%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L D +L+ +F G + + I RD+KTG S YAF++F + +RA +
Sbjct: 17 LIVNYLPQDXTDRELYALFRAIGPINTCRIXRDYKTGYSFGYAFVDFTSEXDSQRAIKVL 76
Query: 305 DNALIDDRRIHVDFSQ 320
+ + ++R+ V +++
Sbjct: 77 NGITVRNKRLKVSYAR 92
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L D+ L TIF ++G++V I+RD TG AF+ + R+ + A S +
Sbjct: 103 LYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISAL 162
Query: 305 DNAL 308
+N +
Sbjct: 163 NNVI 166
>pdb|3T1U|A Chain A, Crystal Structure Of The Complex Of Cyclophilin-a Enzyme
From Azotobacter Vinelandii With Sucafpfpna Peptide
Length = 163
Score = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 43/150 (28%), Positives = 68/150 (45%), Gaps = 26/150 (17%)
Query: 2 SVLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXX 61
S+ + T+ G I + LF DK P T NF + K +Y+G +FH V F
Sbjct: 1 SIKLQTNHGTITLKLFADKAPETAANFEQYVKDGHYDGTIFHRVIDGFMIQGG------- 53
Query: 62 XXDSVYKFLYGEQARFFGDEIRVDLKHA---KTGTVAMASAGENLNAS-QFYMTLRDNLD 117
F G + + I+ + + K T+AMA + +AS QF++ ++DN
Sbjct: 54 ------GFEPGMKQKSTRAPIKNEANNGLSNKKYTIAMARTPDPHSASAQFFINVKDNA- 106
Query: 118 YLDEK--------HTIFGEVAEGLETLSRI 139
+LD + +FGEV EG + + RI
Sbjct: 107 FLDHTAPTAHGWGYAVFGEVVEGTDVVDRI 136
>pdb|1CLH|A Chain A, Three-Dimensional Solution Structure Of Escherichia Coli
Periplasmic Cyclophilin
Length = 166
Score = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 44/165 (26%), Positives = 78/165 (47%), Gaps = 16/165 (9%)
Query: 3 VLIVTSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXX 62
VL+ TS G+I ++L K P++ +NF+ +YN FH V F
Sbjct: 7 VLLTTSAGNIELELDKQKAPVSVQNFVDYVNSGFYNNTTFHRVIPGFMIQGGGFTEQMQQ 66
Query: 63 XDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMA-SAGENLNASQFYMTLRDN--LDY- 118
+ +E L++ + GT+AMA +A ++ SQF++ + DN LD+
Sbjct: 67 K---------KPNPPIKNEADNGLRNTR-GTIAMARTADKDSATSQFFINVADNAFLDHG 116
Query: 119 -LDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRIKHTYIL 162
D + +FG+V +G++ +I++ + PY+N+ K IL
Sbjct: 117 QRDFGYAVFGKVVKGMDVADKISQVPTHDVG-PYQNVPSKPVVIL 160
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 36/63 (57%)
Query: 243 NVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYS 302
N ++V ++ D+D+ ++F FG + SA + RD TG Y FIE+E Q+ + A S
Sbjct: 126 NRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVS 185
Query: 303 KMD 305
M+
Sbjct: 186 SMN 188
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 30/54 (55%)
Query: 263 FSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIHV 316
F+ FG + S ++ D T +AF+E+E +A + A +M++ ++ R I V
Sbjct: 49 FAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV 102
>pdb|2SXL|A Chain A, Sex-Lethal Rbd1, Nmr, Minimized Average Structure
Length = 88
Score = 47.0 bits (110), Expect = 3e-05, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 39/65 (60%)
Query: 256 DEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIH 315
D +L+ +F G + + I+RD+KTG S YAF++F + +RA ++ + ++R+
Sbjct: 17 DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLK 76
Query: 316 VDFSQ 320
V +++
Sbjct: 77 VSYAR 81
>pdb|1X5T|A Chain A, Solution Structure Of The Second Rrm Domain In Splicing
Factor 3b
Length = 96
Score = 46.6 bits (109), Expect = 4e-05, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVV-SAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+F+ L+P +++ L+ FS FG ++ + +I+RD TG+S YAFI F + A + A
Sbjct: 8 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 67
Query: 304 MDNALIDDRRIHVDFS 319
M+ + +R I V ++
Sbjct: 68 MNGQYLCNRPITVSYA 83
>pdb|3CW1|K Chain K, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|6 Chain 6, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|7 Chain 7, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|8 Chain 8, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 216
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 40/84 (47%), Gaps = 1/84 (1%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
LFV ++N T + L F +G + ++ ++G YAFIE+E+ + AY
Sbjct: 104 TLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKH 163
Query: 304 MDNALIDDRRIHVDFSQS-VSKLW 326
D ID RR+ VD + K W
Sbjct: 164 ADGKKIDGRRVLVDVERGRTVKGW 187
>pdb|2LEA|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm
pdb|2LEB|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uccagu-3'
pdb|2LEC|A Chain A, Solution Structure Of Human Srsf2 (Sc35) Rrm In Complex
With 5'- Uggagu-3'
Length = 135
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 5/87 (5%)
Query: 239 KPPENV-----LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFEN 293
+PP +V L V L T + L +F ++G V I RD T +S +AF+ F +
Sbjct: 39 RPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHD 98
Query: 294 RQACERAYSKMDNALIDDRRIHVDFSQ 320
++ E A MD A++D R + V ++
Sbjct: 99 KRDAEDAMDAMDGAVLDGRELRVQMAR 125
>pdb|4ED5|A Chain A, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
pdb|4ED5|B Chain B, Crystal Structure Of The Two N-Terminal Rrm Domains Of Hur
Complexed With Rna
Length = 177
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 43/73 (58%), Gaps = 1/73 (1%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDR 312
+T+DE L ++FS G V SA++IRD G SL Y F+ + + ERA + ++ + +
Sbjct: 14 MTQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 313 RIHVDFSQSVSKL 325
I V +++ S++
Sbjct: 73 TIKVSYARPSSEV 85
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 234 PDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFEN 293
P +++ N L++ L +D+ +FSRFG ++++ ++ D TG S AFI F+
Sbjct: 81 PSSEVIKDAN-LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDK 139
Query: 294 RQACERAYSKMD 305
R E A + +
Sbjct: 140 RSEAEEAITSFN 151
>pdb|4EGL|A Chain A, Crystal Structure Of Two Tandem Rna Recognition Motifs Of
Human Antigen R
Length = 177
Score = 45.8 bits (107), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 43/73 (58%), Gaps = 1/73 (1%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDR 312
+T+DE L ++FS G V SA++IRD G SL Y F+ + + ERA + ++ + +
Sbjct: 14 MTQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 72
Query: 313 RIHVDFSQSVSKL 325
I V +++ S++
Sbjct: 73 TIKVSYARPSSEV 85
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 1/72 (1%)
Query: 234 PDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFEN 293
P +++ N L++ L +D+ +FSRFG ++++ ++ D TG S AFI F+
Sbjct: 81 PSSEVIKDAN-LYISGLPRTMTQKDVEDMFSRFGRIINSRVLVDQTTGLSRGVAFIRFDK 139
Query: 294 RQACERAYSKMD 305
R E A + +
Sbjct: 140 RSEAEEAITSFN 151
>pdb|2CQD|A Chain A, Solution Structure Of The Rna Recognition Motif In Rna-
Binding Region Containing Protein 1
Length = 116
Score = 45.8 bits (107), Expect = 7e-05, Method: Composition-based stats.
Identities = 28/75 (37%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+FV L T D L F FG + A +I D +TG S Y F+ +R A ERA K
Sbjct: 20 IFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA-CKD 78
Query: 305 DNALIDDRRIHVDFS 319
N +ID R+ +V+ +
Sbjct: 79 PNPIIDGRKANVNLA 93
>pdb|2CPZ|A Chain A, Solution Structure Of Rna Binding Domain 3 In Cug Triplet
Repeat Rna-Binding Protein 1
pdb|2RQ4|A Chain A, Refinement Of Rna Binding Domain 3 In Cug Triplet Repeat
Rna-Binding Protein 1
pdb|2RQC|A Chain A, Solution Structure Of Rna-Binding Domain 3 Of Cugbp1 In
Complex With Rna (Ug)3
Length = 115
Score = 45.8 bits (107), Expect = 7e-05, Method: Composition-based stats.
Identities = 30/100 (30%), Positives = 48/100 (48%)
Query: 222 SSAVVLESIGDIPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTG 281
SS + +SIG P LF+ L D+DL +F FG VVSA++ D +T
Sbjct: 5 SSGLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTN 64
Query: 282 DSLNYAFIEFENRQACERAYSKMDNALIDDRRIHVDFSQS 321
S + F+ ++N + + A M+ I +R+ V +S
Sbjct: 65 LSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKRS 104
>pdb|1U6F|A Chain A, Nmr Solution Structure Of Tcubp1, A Single Rbd-Unit From
Trypanosoma Cruzi
Length = 139
Score = 45.4 bits (106), Expect = 9e-05, Method: Composition-based stats.
Identities = 27/92 (29%), Positives = 50/92 (54%), Gaps = 3/92 (3%)
Query: 233 IPDADIKPPENVLFVCKLN--PVTEDE-DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFI 289
IP + P +VL +N P T DE L +F R+G + S +I+ D +T S Y F+
Sbjct: 30 IPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFV 89
Query: 290 EFENRQACERAYSKMDNALIDDRRIHVDFSQS 321
+F++ + ++A + ++ I ++R+ V + S
Sbjct: 90 KFQSGSSAQQAIAGLNGFNILNKRLKVALAAS 121
>pdb|4FXV|A Chain A, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|B Chain B, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|C Chain C, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
pdb|4FXV|D Chain D, Crystal Structure Of An Elav-Like Protein 1 (Elavl1) From
Homo Sapiens At 1.90 A Resolution
Length = 99
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 254 TEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRR 313
T+DE L ++FS G V SA++IRD G SL Y F+ + + ERA + ++ + +
Sbjct: 32 TQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKT 90
Query: 314 IHVDFSQ 320
I V +++
Sbjct: 91 IKVSYAR 97
>pdb|2CQC|A Chain A, Solution Structure Of The Rna Recognition Motif In
ArginineSERINE-Rich Splicing Factor 10
Length = 95
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P L V L+ T + DL +FS++G + I+ D ++ S +AF+ FEN + A
Sbjct: 14 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEA 73
Query: 301 YSKMDNALIDDRRIHV 316
+ + +D RRI V
Sbjct: 74 KERANGMELDGRRIRV 89
>pdb|3HI9|A Chain A, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|B Chain B, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|C Chain C, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
pdb|3HI9|D Chain D, The X-Ray Crystal Structure Of The First Rna Recognition
Motif (Rrm1) Of The Au-Rich Element (Are) Binding
Protein Hur At 2.0 Angstrom Resolution
Length = 84
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 40/68 (58%), Gaps = 1/68 (1%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDR 312
+T+DE L ++FS G V SA++IRD G SL Y F+ + + ERA + ++ + +
Sbjct: 16 MTQDE-LRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSK 74
Query: 313 RIHVDFSQ 320
I V +++
Sbjct: 75 TIKVSYAR 82
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 35/63 (55%)
Query: 243 NVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYS 302
N ++V ++ D+D+ ++F FG + S + RD TG Y FIE+E Q+ + A S
Sbjct: 111 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 170
Query: 303 KMD 305
M+
Sbjct: 171 SMN 173
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 33/61 (54%)
Query: 256 DEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIH 315
++ + F+ FG + S ++ D T +AF+E+E +A + A +M++ ++ R I
Sbjct: 27 EDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIK 86
Query: 316 V 316
V
Sbjct: 87 V 87
>pdb|2ERR|A Chain A, Nmr Structure Of The Rna Binding Domain Of Human Fox-1 In
Complex With Ugcaugu
Length = 109
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 256 DEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIH 315
D DL +F +FG ++ EII F S + F+ FEN +RA K+ +++ R+I
Sbjct: 43 DPDLRQMFGQFGKILDVEII--FNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIE 100
Query: 316 VD 317
V+
Sbjct: 101 VN 102
>pdb|2CQ3|A Chain A, Solution Structure Of Rna Binding Domain In Rna Binding
Motif Protein 9
Length = 103
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 256 DEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIH 315
D DL +F +FG ++ EII F S + F+ FEN +RA K+ +++ R+I
Sbjct: 29 DPDLRQMFGQFGKILDVEII--FNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIE 86
Query: 316 VD 317
V+
Sbjct: 87 VN 88
>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein
Length = 102
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 41/80 (51%), Gaps = 3/80 (3%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P LFV L +ED T+ F V A I+ D +TG S + F++F + + + A
Sbjct: 14 PSKTLFVKGL---SEDTTEETLKESFDGSVRARIVTDRETGSSKGFGFVDFNSEEDAKAA 70
Query: 301 YSKMDNALIDDRRIHVDFSQ 320
M++ ID ++ +D+++
Sbjct: 71 KEAMEDGEIDGNKVTLDWAK 90
>pdb|2KHC|A Chain A, Bruno Rrm3+
Length = 118
Score = 42.7 bits (99), Expect = 5e-04, Method: Composition-based stats.
Identities = 25/84 (29%), Positives = 42/84 (50%), Gaps = 1/84 (1%)
Query: 238 IKPPENV-LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
I+ PE LF+ L D DL + F FG V+SA++ D +T S + F+ F+N +
Sbjct: 35 IEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDS 94
Query: 297 CERAYSKMDNALIDDRRIHVDFSQ 320
+ A M+ + +R+ V +
Sbjct: 95 AQVAIKAMNGFQVGTKRLKVQLKK 118
>pdb|2CJK|A Chain A, Structure Of The Rna Binding Domain Of Hrp1 In Complex
With Rna
pdb|2KM8|C Chain C, Interdomain Rrm Packing Contributes To Rna Recognition In
The Rna15, Hrp1, Anchor Rna 3' Processing Ternary
Complex
Length = 167
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 40/74 (54%), Gaps = 5/74 (6%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+FV + P ++ FS++GT++ A+++ D TG S + F+ +++ A +R
Sbjct: 90 IFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV---C 146
Query: 305 DNALID--DRRIHV 316
N ID DR+I +
Sbjct: 147 QNKFIDFKDRKIEI 160
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 3/72 (4%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK- 303
+F+ LN T +++L F ++GTV +I++D TG S + F+ FE + +
Sbjct: 6 MFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKTQ 65
Query: 304 --MDNALIDDRR 313
+D +ID +R
Sbjct: 66 HILDGKVIDPKR 77
>pdb|3MD3|A Chain A, Crystal Structure Of The First Two Rrm Domains Of Yeast
Poly Binding Protein (Pub1)
Length = 166
Score = 42.4 bits (98), Expect = 8e-04, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 38/75 (50%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV LN +DE L F F + +S ++ D +TG S Y F+ F ++ + A M
Sbjct: 90 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 149
Query: 305 DNALIDDRRIHVDFS 319
++ R + ++++
Sbjct: 150 QGQDLNGRPLRINWA 164
Score = 29.3 bits (64), Expect = 6.2, Method: Composition-based stats.
Identities = 17/76 (22%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
VL+V L+ ++ L F G + + +I+ D K ++NYAF+E+ A
Sbjct: 2 VLYVGNLDKAITEDILKQYFQVGGPIANIKIMID-KNNKNVNYAFVEYHQSHDANIALQT 60
Query: 304 MDNALIDDRRIHVDFS 319
++ I++ + ++++
Sbjct: 61 LNGKQIENNIVKINWA 76
>pdb|2KN4|A Chain A, The Structure Of The Rrm Domain Of Sc35
Length = 158
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 39/76 (51%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L T + L +F ++G V I RD T +S +AF+ F +++ E A M
Sbjct: 73 LKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAM 132
Query: 305 DNALIDDRRIHVDFSQ 320
D A++D R + V ++
Sbjct: 133 DGAVLDGRELRVQMAR 148
>pdb|3MD1|A Chain A, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
pdb|3MD1|B Chain B, Crystal Structure Of The Second Rrm Domain Of Yeast
Poly(U)-Binding Protein (Pub1)
Length = 83
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 38/75 (50%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV LN +DE L F F + +S ++ D +TG S Y F+ F ++ + A M
Sbjct: 4 LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM 63
Query: 305 DNALIDDRRIHVDFS 319
++ R + ++++
Sbjct: 64 QGQDLNGRPLRINWA 78
>pdb|3UWT|A Chain A, Crystal Structure Of A Rna Binding Domain Of Poly-U
Binding Splicing Factor 60kda (Puf60) From Homo Sapiens
At 2.50 A Resolution
Length = 200
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%)
Query: 243 NVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYS 302
N ++V ++ D+D+ ++F FG + S + RD TG Y FIE+E Q+ + A S
Sbjct: 110 NRIYVASVHQDLSDDDIKSVFEAFGKIKSCTLARDPTTGKHKGYGFIEYEKAQSSQDAVS 169
Query: 303 KMD 305
+
Sbjct: 170 SXN 172
Score = 29.6 bits (65), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 30/61 (49%)
Query: 256 DEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIH 315
++ + F+ FG + S + D T +AF+E+E +A + A + ++ + R I
Sbjct: 26 EDTIRQAFAPFGPIKSIDXSWDSVTXKHKGFAFVEYEVPEAAQLALEQXNSVXLGGRNIK 85
Query: 316 V 316
V
Sbjct: 86 V 86
>pdb|2DGT|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Rna- Binding Protein 30
Length = 92
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 8/77 (10%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V ++P +++L F +G V+ +I++D YAF+ E + A +
Sbjct: 13 LHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRGL 64
Query: 305 DNALIDDRRIHVDFSQS 321
DN +R+HV S S
Sbjct: 65 DNTEFQGKRMHVQLSTS 81
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%)
Query: 242 ENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAY 301
+ VL+V L +D+ LH F FG + +I D++T +AF+EFE + A
Sbjct: 12 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 71
Query: 302 SKMDNALIDDRRIHVDFSQ 320
M+ + + R I V+ ++
Sbjct: 72 DNMNESELFGRTIRVNLAK 90
>pdb|3MDF|A Chain A, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
pdb|3MDF|B Chain B, Crystal Structure Of The Rrm Domain Of Cyclophilin 33
Length = 85
Score = 40.4 bits (93), Expect = 0.003, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%)
Query: 242 ENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAY 301
+ VL+V L +D+ LH F FG + +I D++T +AF+EFE + A
Sbjct: 7 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 66
Query: 302 SKMDNALIDDRRIHVDFSQ 320
M+ + + R I V+ ++
Sbjct: 67 DNMNESELFGRTIRVNLAK 85
>pdb|2KYX|A Chain A, Solution Structure Of The Rrm Domain Of Cyp33
Length = 83
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%)
Query: 242 ENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAY 301
+ VL+V L +D+ LH F FG + +I D++T +AF+EFE + A
Sbjct: 5 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 64
Query: 302 SKMDNALIDDRRIHVDFSQ 320
M+ + + R I V+ ++
Sbjct: 65 DNMNESELFGRTIRVNLAK 83
>pdb|2KU7|A Chain A, Solution Structure Of Mll1 Phd3-Cyp33 Rrm Chimeric Protein
Length = 140
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 39/78 (50%)
Query: 242 ENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAY 301
+ VL+V L +D+ LH F FG + +I D++T +AF+EFE + A
Sbjct: 63 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 122
Query: 302 SKMDNALIDDRRIHVDFS 319
M+ + + R I V+ +
Sbjct: 123 DNMNESELFGRTIRVNLA 140
>pdb|1WHY|A Chain A, Solution Structure Of The Rna Recognition Motif From
Hypothetical Rna Binding Protein Bc052180
Length = 97
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 28/83 (33%), Positives = 46/83 (55%), Gaps = 8/83 (9%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P L+V L P T L F RFG++ + + ++ GDS +A+I++E+ A + A
Sbjct: 16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK----GDS--FAYIQYESLDAAQAA 69
Query: 301 YSKMDNALID--DRRIHVDFSQS 321
+KM + DRR+ VDF++S
Sbjct: 70 CAKMRGFPLGGPDRRLRVDFAKS 92
>pdb|2CQ0|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic
Translation Initiation Factor 3 Subunit 4
Length = 103
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 38/74 (51%)
Query: 247 VCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDN 306
V L+ T + DL +F FG++ + +D TG S +AFI F R+ RA + +
Sbjct: 20 VTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG 79
Query: 307 ALIDDRRIHVDFSQ 320
D ++V++++
Sbjct: 80 FGYDHLILNVEWAK 93
>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger
Cchc-Type And Rna Binding Motif 1
Length = 94
Score = 40.0 bits (92), Expect = 0.004, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 238 IKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEF---ENR 294
+ P ++ ++V L + DL+ IFS++G VV I++D T S AFI F ++
Sbjct: 12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSA 71
Query: 295 QACERA 300
Q C RA
Sbjct: 72 QNCTRA 77
>pdb|2CPF|A Chain A, Solution Structure Of The Penultimate Rna Recognition
Motif Of Hypothetical Rna-Binding Protein Rbm19
Length = 98
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 20/83 (24%), Positives = 41/83 (49%), Gaps = 3/83 (3%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGD---SLNYAFIEFENRQACERAY 301
LF+ LN T +E L +FS+ G + S I + S+ + F+E++ + ++A
Sbjct: 8 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKAL 67
Query: 302 SKMDNALIDDRRIHVDFSQSVSK 324
++ +D ++ V S+ +K
Sbjct: 68 KQLQGHTVDGHKLEVRISERATK 90
>pdb|2XS5|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS5|B Chain B, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Mvh Rna, Uguuc
pdb|2XS7|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Sycp3 Rna, Uuguuu
Length = 87
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 3/61 (4%)
Query: 233 IPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFE 292
+P+ I P N +FV ++ ++ ++ + F+R+G+V +II D +TG S Y F+ F
Sbjct: 2 LPEGKIMP--NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSFY 58
Query: 293 N 293
N
Sbjct: 59 N 59
>pdb|1FXL|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The C-Fos
Rna
pdb|1G2E|A Chain A, Crystal Structure Of Hud And Au-Rich Element Of The Tumor
Necrosis Factor Alpha Rna
Length = 167
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 17/67 (25%), Positives = 37/67 (55%)
Query: 257 EDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIHV 316
E+ ++F G + S +++RD TG SL Y F+ + + + E+A + ++ + + I V
Sbjct: 17 EEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKV 76
Query: 317 DFSQSVS 323
+++ S
Sbjct: 77 SYARPSS 83
Score = 36.2 bits (82), Expect = 0.049, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 32/61 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L ++L +FS++G ++++ I+ D TG S FI F+ R E A +
Sbjct: 91 LYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGL 150
Query: 305 D 305
+
Sbjct: 151 N 151
>pdb|3LPY|A Chain A, Crystal Structure Of The Rrm Domain Of Cyp33
pdb|3LPY|B Chain B, Crystal Structure Of The Rrm Domain Of Cyp33
Length = 79
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 39/78 (50%)
Query: 242 ENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAY 301
+ VL+V L +D+ LH F FG + +I D++T +AF+EFE + A
Sbjct: 2 KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 61
Query: 302 SKMDNALIDDRRIHVDFS 319
M+ + + R I V+ +
Sbjct: 62 DNMNESELFGRTIRVNLA 79
>pdb|3BS9|A Chain A, X-Ray Structure Of Human Tia-1 Rrm2
pdb|3BS9|B Chain B, X-Ray Structure Of Human Tia-1 Rrm2
Length = 87
Score = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 37/75 (49%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+FV L+P + F+ FG + A +++D TG S Y F+ F N+ E A +M
Sbjct: 9 VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQM 68
Query: 305 DNALIDDRRIHVDFS 319
+ R+I +++
Sbjct: 69 GGQWLGGRQIRTNWA 83
>pdb|1X4E|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 2
Length = 85
Score = 39.3 bits (90), Expect = 0.006, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 33/60 (55%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L++ L P T D+DL + +G +VS + I D T Y F++F++ A ++A + +
Sbjct: 8 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67
>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage
Stimulation Factor 64 Kda Subunit
Length = 104
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+FV + +E L IFS G VVS ++ D +TG Y F E+++++ A +
Sbjct: 11 VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNL 70
Query: 305 DNALIDDRRIHVDFSQS 321
+ R + VD + S
Sbjct: 71 NGREFSGRALRVDNAAS 87
>pdb|1HL6|A Chain A, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1HL6|C Chain C, A Novel Mode Of Rbd-Protein Recognition In The Y14-Mago
Complex
pdb|1RK8|A Chain A, Structure Of The Cytosolic Protein Pym Bound To The Mago-
Y14 Core Of The Exon Junction Complex
pdb|2X1G|A Chain A, Crystal Structure Of Importin13 - Mago-Y14 Complex
pdb|2X1G|C Chain C, Crystal Structure Of Importin13 - Mago-Y14 Complex
Length = 165
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+LFV ++ +++++ F +G + + + D +TG S YA +E+E + A
Sbjct: 74 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 133
Query: 304 MDNALIDDRRIHVDF 318
++ A I + I VD+
Sbjct: 134 LNGAEIMGQTIQVDW 148
>pdb|2XS2|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like In Complex With Rna, Uuguucuu
Length = 102
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
Query: 232 DIPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEF 291
+P+ I P N +FV ++ ++ ++ + F+R+G+V +II D +TG S Y F+ F
Sbjct: 1 SLPEGKIMP--NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVSF 57
Query: 292 EN 293
N
Sbjct: 58 YN 59
>pdb|2D9P|A Chain A, Solution Structure Of Rna Binding Domain 4 In
Polyadenylation Binding Protein 3
Length = 103
Score = 38.9 bits (89), Expect = 0.008, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 43/76 (56%), Gaps = 2/76 (2%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L+ +DE L FS FGT+ SA+++ + G S + F+ F + + +A ++M
Sbjct: 18 LYVKNLDDGIDDERLRKAFSPFGTITSAKVM--MEGGRSKGFGFVCFSSPEEATKAVTEM 75
Query: 305 DNALIDDRRIHVDFSQ 320
+ ++ + ++V +Q
Sbjct: 76 NGRIVATKPLYVALAQ 91
>pdb|1OO0|B Chain B, Crystal Structure Of The Drosophila Mago Nashi-Y14 Complex
Length = 110
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 39/76 (51%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+LFV ++ +++++ F +G + + + D +TG S YA +E+E + A
Sbjct: 28 ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 87
Query: 304 MDNALIDDRRIHVDFS 319
++ A I + I VD+
Sbjct: 88 LNGAEIMGQTIQVDWC 103
>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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 246 FVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYS--- 302
FV L+ T +DL F++FG VV I D TG S + FI F++ + E+
Sbjct: 15 FVGGLSWDTSKKDLKDYFTKFGEVVDCTIKXDPNTGRSRGFGFILFKDAASVEKVLDQKE 74
Query: 303 -KMDNALIDDRR 313
++D +ID ++
Sbjct: 75 HRLDGRVIDPKK 86
>pdb|1P27|B Chain B, Crystal Structure Of The Human Y14MAGOH COMPLEX
pdb|1P27|D Chain D, Crystal Structure Of The Human Y14MAGOH COMPLEX
Length = 106
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 43/93 (46%)
Query: 227 LESIGDIPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNY 286
+E GD P +LFV ++ +ED+H F+ +G + + + D +TG Y
Sbjct: 8 VEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGY 67
Query: 287 AFIEFENRQACERAYSKMDNALIDDRRIHVDFS 319
+E+E + + A ++ + + I VD+
Sbjct: 68 TLVEYETYKEAQAAMEGLNGQDLMGQPISVDWC 100
>pdb|2DNM|A Chain A, Solution Structure Of Rna Binding Domain In Srp46 Splicing
Factor
Length = 103
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
L V L T + L +F ++G V I R+ T +AF+ F +R+ + A +
Sbjct: 15 TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAA 74
Query: 304 MDNALIDDRRIHVDFSQ 320
MD A +D R + V ++
Sbjct: 75 MDGAELDGRELRVQVAR 91
>pdb|1WHW|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain
From Hypothetical Protein Bab23448
Length = 99
Score = 38.1 bits (87), Expect = 0.014, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 36/72 (50%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV L+ + +EDL +FS +G + D T +AF+ F + +AY+++
Sbjct: 11 LFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEV 70
Query: 305 DNALIDDRRIHV 316
D + R +HV
Sbjct: 71 DGQVFQGRMLHV 82
>pdb|2F3J|A Chain A, The Solution Structure Of The Ref2-I Mrna Export Factor
(Residues 1-155)
Length = 177
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L+ D D+ +F+ FGT+ A + D ++G SL A + FE R +A +
Sbjct: 91 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKAMKQY 149
Query: 305 DNALIDDRRIHVDFSQS 321
+D R + + S
Sbjct: 150 KGVPLDGRPMDIQLVAS 166
>pdb|1FNX|H Chain H, Solution Structure Of The Huc Rbd1-Rbd2 Complexed With The
Au-Rich Element
Length = 174
Score = 37.7 bits (86), Expect = 0.016, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDR 312
+T+DE ++F G + S +++RD TG SL Y F+ + + ++A + ++ + +
Sbjct: 16 MTQDE-FKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 313 RIHVDFSQSVS 323
I V +++ S
Sbjct: 75 TIKVSYARPSS 85
Score = 35.8 bits (81), Expect = 0.060, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L +++ +FS++G ++++ I+ D TG S FI F+ R E A +
Sbjct: 93 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 152
Query: 305 D 305
+
Sbjct: 153 N 153
>pdb|2DGU|A Chain A, Solution Structure Of The Rna Binding Domain In
Heterogeneous Nuclear Ribonucleoprotein Q
Length = 103
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
VLFV L +E L FS+FG + + ++D YAFI F+ R +A +
Sbjct: 13 VLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEE 64
Query: 304 MDNALIDDRRIHVDFSQ 320
M+ ++ I + F++
Sbjct: 65 MNGKDLEGENIEIVFAK 81
>pdb|2YH0|A Chain A, Solution Structure Of The Closed Conformation Of Human
U2af65 Tandem Rrm1 And Rrm2 Domains
pdb|2YH1|A Chain A, Model Of Human U2af65 Tandem Rrm1 And Rrm2 Domains With
Eight-Site Uridine Binding
Length = 198
Score = 37.7 bits (86), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 38/72 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LF+ L D+ + + + FG + + +++D TG S YAF E+ + ++A + +
Sbjct: 117 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 176
Query: 305 DNALIDDRRIHV 316
+ + D+++ V
Sbjct: 177 NGMQLGDKKLLV 188
>pdb|1D8Z|A Chain A, Solution Structure Of The First Rna-Binding Domain (Rbd1)
Of Hu Antigen C (Huc)
Length = 89
Score = 37.4 bits (85), Expect = 0.022, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDR 312
+T+DE ++F G + S +++RD TG SL Y F+ + + ++A + ++ + +
Sbjct: 16 MTQDE-FKSLFGSIGDIESCKLVRDKITGQSLGYGFVNYSDPNDADKAINTLNGLKLQTK 74
Query: 313 RIHVDFSQSVS 323
I V +++ S
Sbjct: 75 TIKVSYARPSS 85
>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 = 37.4 bits (85), Expect = 0.024, Method: Composition-based stats.
Identities = 20/82 (24%), Positives = 42/82 (51%)
Query: 240 PPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
PP V+++ + +E + + S G V++ +++ D +TG S YAFIEF + ++
Sbjct: 2 PPSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSAS 61
Query: 300 AYSKMDNALIDDRRIHVDFSQS 321
A ++ + R + +S +
Sbjct: 62 AVRNLNGYQLGSRFLKCGYSSN 83
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 239 KPPENV--LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
K PE + LF+ L+ T DE L + F ++GT+ ++RD T S + F+ + +
Sbjct: 9 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 68
Query: 297 CERAYS----KMDNALIDDRR 313
+ A + K+D +++ +R
Sbjct: 69 VDAAMNARPHKVDGRVVEPKR 89
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 29/55 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
+FV + TE+ L F ++G + EI+ D +G +AF+ F++ + ++
Sbjct: 108 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK 162
>pdb|3H2U|B Chain B, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
pdb|3H2U|D Chain D, Human Raver1 Rrm1, Rrm2, And Rrm3 Domains In Complex With
Human Vinculin Tail Domain Vt
Length = 283
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 38/82 (46%)
Query: 238 IKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQAC 297
++P + +L V L P + + FG++ ++ +TG S Y F E+ + +
Sbjct: 89 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 148
Query: 298 ERAYSKMDNALIDDRRIHVDFS 319
RA S + + R ++V ++
Sbjct: 149 ARAKSDLLGKPLGPRTLYVHWT 170
>pdb|1H2T|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|X Chain X, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2U|Y Chain Y, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
In Complex With A Cap Analogue M7gpppg
pdb|1H2V|Z Chain Z, Structure Of The Human Nuclear Cap-Binding-Complex (Cbc)
pdb|1N52|B Chain B, Cap Binding Complex
pdb|1N54|B Chain B, Cap Binding Complex M7gpppg Free
pdb|3FEX|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex.
pdb|3FEY|B Chain B, Crystal Structure Of The Cbc-Importin Alpha Complex
Length = 156
Score = 37.0 bits (84), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 37/75 (49%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
L+V L+ T +E ++ +FS+ G + + D + + F+E+ +R E A
Sbjct: 41 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 100
Query: 304 MDNALIDDRRIHVDF 318
++ +DDR I D+
Sbjct: 101 INGTRLDDRIIRTDW 115
>pdb|3VF0|B Chain B, Raver1 In Complex With Metavinculin L954 Deletion Mutant
Length = 285
Score = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 38/82 (46%)
Query: 238 IKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQAC 297
++P + +L V L P + + FG++ ++ +TG S Y F E+ + +
Sbjct: 91 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
Query: 298 ERAYSKMDNALIDDRRIHVDFS 319
RA S + + R ++V ++
Sbjct: 151 ARAKSDLLGKPLGPRTLYVHWT 172
>pdb|3SMZ|A Chain A, Human Raver1 Rrm1-3 Domains (Residues 39-320)
Length = 284
Score = 37.0 bits (84), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 38/82 (46%)
Query: 238 IKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQAC 297
++P + +L V L P + + FG++ ++ +TG S Y F E+ + +
Sbjct: 91 LQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSA 150
Query: 298 ERAYSKMDNALIDDRRIHVDFS 319
RA S + + R ++V ++
Sbjct: 151 ARAKSDLLGKPLGPRTLYVHWT 172
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 239 KPPENV--LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
K PE + LF+ L+ T DE L + F ++GT+ ++RD T S + F+ + +
Sbjct: 7 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 66
Query: 297 CERAYS----KMDNALIDDRR 313
+ A + K+D +++ +R
Sbjct: 67 VDAAMNARPHKVDGRVVEPKR 87
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 29/55 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
+FV + TE+ L F ++G + EI+ D +G +AF+ F++ + ++
Sbjct: 106 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK 160
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 239 KPPENV--LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
K PE + LF+ L+ T DE L + F ++GT+ ++RD T S + F+ + +
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 297 CERAYS----KMDNALIDDRR 313
+ A + K+D +++ +R
Sbjct: 68 VDAAMNARPHKVDGRVVEPKR 88
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 29/55 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
+FV + TE+ L F ++G + EI+ D +G +AF+ F++ + ++
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK 161
>pdb|1NO8|A Chain A, Solution Structure Of The Nuclear Factor Aly Rbd Domain
Length = 106
Score = 36.6 bits (83), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L+ D D+ +F+ FGT+ A + D ++G SL A + FE + +A +
Sbjct: 31 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAMKQY 89
Query: 305 DNALIDDRRIHVDFSQS 321
+ +D R +++ S
Sbjct: 90 NGVPLDGRPMNIQLVTS 106
>pdb|2CQG|A Chain A, Solution Structure Of The Rna Binding Domain Of Tar Dna-
Binding Protein-43
Length = 103
Score = 36.6 bits (83), Expect = 0.039, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L T ++DL FS FG V+ ++ +D KTG S + F+ F + + S+
Sbjct: 18 LIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ- 76
Query: 305 DNALIDDR 312
+ID R
Sbjct: 77 -RHMIDGR 83
>pdb|1D9A|A Chain A, Solution Structure Of The Second Rna-Binding Domain (Rbd2)
Of Hu Antigen C (Huc)
Length = 85
Score = 36.6 bits (83), Expect = 0.042, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L +++ +FS++G ++++ I+ D TG S FI F+ R E A +
Sbjct: 4 LYVSGLPKTMSQKEMEQLFSQYGRIITSRILLDQATGVSRGVGFIRFDKRIEAEEAIKGL 63
Query: 305 D 305
+
Sbjct: 64 N 64
>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast
Structural Genomics Target Hr4730a
Length = 108
Score = 36.6 bits (83), Expect = 0.045, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDR 312
+TED L IF FG + S +++ D +TG S Y FI F + + ++A +++ + R
Sbjct: 38 ITEDM-LRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGR 96
Query: 313 RIHV 316
+ V
Sbjct: 97 PMKV 100
>pdb|1UP1|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
Length = 182
Score = 36.2 bits (82), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 239 KPPENV--LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
K PE + LF+ L+ T DE L + F ++GT+ ++RD T S + F+ + +
Sbjct: 6 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 65
Query: 297 CERAYS----KMDNALIDDRR 313
+ A + K+D +++ +R
Sbjct: 66 VDAAMNARPHKVDGRVVEPKR 86
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 29/55 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
+FV + TE+ L F ++G + EI+ D +G +AF+ F++ + ++
Sbjct: 105 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK 159
>pdb|3S6M|A Chain A, The Structure Of A Peptidyl-Prolyl Cis-Trans Isomerase
From Burkholderia Pseudomallei
Length = 167
Score = 36.2 bits (82), Expect = 0.046, Method: Composition-based stats.
Identities = 37/142 (26%), Positives = 63/142 (44%), Gaps = 20/142 (14%)
Query: 7 TSLGDIVVDLFVDKCPLTTKNFLKLCKIKYYNGCLFHTVQKDFXXXXXXXXXXXXXXDSV 66
T+ G I ++L K P T +NFL K +Y+G +FH V F +
Sbjct: 10 TNHGVIKLELDEAKAPKTVENFLNYVKKGHYDGTIFHRVINGFMIQGGGFEPGLKQKPTD 69
Query: 67 YKFLYGEQARFFGDEIRVDLKHAKTGTVAMASAGENLNAS-QFYMTLRDNLDYLDEK--- 122
+E LK+ T T+AMA + +A+ QF++ + DN ++L+
Sbjct: 70 AP---------IANEANNGLKN-DTYTIAMARTNDPHSATAQFFINVNDN-EFLNHSSPT 118
Query: 123 -----HTIFGEVAEGLETLSRI 139
+ +FG+V EG + + +I
Sbjct: 119 PQGWGYAVFGKVVEGQDIVDKI 140
>pdb|1HA1|A Chain A, Hnrnp A1 (Rbd1,2) From Homo Sapiens
Length = 184
Score = 36.2 bits (82), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 239 KPPENV--LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
K PE + LF+ L+ T DE L + F ++GT+ ++RD T S + F+ + +
Sbjct: 8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 67
Query: 297 CERAYS----KMDNALIDDRR 313
+ A + K+D +++ +R
Sbjct: 68 VDAAMNARPHKVDGRVVEPKR 88
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 29/55 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
+FV + TE+ L F ++G + EI+ D +G +AF+ F++ + ++
Sbjct: 107 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK 161
>pdb|3VAF|A Chain A, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAF|B Chain B, Structure Of U2af65 Variant With Bru3 Dna
pdb|3VAG|A Chain A, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAG|B Chain B, Structure Of U2af65 Variant With Bru3c2 Dna
pdb|3VAH|A Chain A, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAH|B Chain B, Structure Of U2af65 Variant With Bru3c4 Dna
pdb|3VAI|A Chain A, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAI|B Chain B, Structure Of U2af65 Variant With Bru3c5 Dna
pdb|3VAJ|A Chain A, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAJ|B Chain B, Structure Of U2af65 Variant With Bru5c6 Dna
pdb|3VAK|A Chain A, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAK|B Chain B, Structure Of U2af65 Variant With Bru5 Dna
pdb|3VAL|A Chain A, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|B Chain B, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|D Chain D, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAL|I Chain I, Structure Of U2af65 Variant With Bru5c1 Dna
pdb|3VAM|A Chain A, Structure Of U2af65 Variant With Bru5c2 Dna
pdb|3VAM|B Chain B, Structure Of U2af65 Variant With Bru5c2 Dna
Length = 174
Score = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 18/77 (23%), Positives = 40/77 (51%)
Query: 240 PPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
P + LF+ L D+ + + + FG + + +++D TG S YAF E+ + ++
Sbjct: 94 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 153
Query: 300 AYSKMDNALIDDRRIHV 316
A + ++ + D+++ V
Sbjct: 154 AIAGLNGMQLGDKKLLV 170
>pdb|2DH8|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Daz-Associated Protein 1
Length = 105
Score = 36.2 bits (82), Expect = 0.048, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 29/49 (59%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFEN 293
LFV L+ T E L + FS++G VV I++D T S + F++F++
Sbjct: 19 LFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKD 67
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 6/81 (7%)
Query: 239 KPPENV--LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
K PE + LF+ L+ T DE L + F ++GT+ ++RD T S + F+ + +
Sbjct: 1 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60
Query: 297 CERAYS----KMDNALIDDRR 313
+ A + K+D +++ +R
Sbjct: 61 VDAAMNARPHKVDGRVVEPKR 81
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 29/55 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
+FV + TE+ L F ++G + EI+ D +G +AF+ F++ + ++
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK 154
>pdb|2G4B|A Chain A, Structure Of U2af65 Variant With Polyuridine Tract
Length = 172
Score = 36.2 bits (82), Expect = 0.053, Method: Composition-based stats.
Identities = 18/77 (23%), Positives = 40/77 (51%)
Query: 240 PPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
P + LF+ L D+ + + + FG + + +++D TG S YAF E+ + ++
Sbjct: 92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQ 151
Query: 300 AYSKMDNALIDDRRIHV 316
A + ++ + D+++ V
Sbjct: 152 AIAGLNGMQLGDKKLLV 168
>pdb|2DNP|A Chain A, Solution Structure Of Rna Binding Domain 2 In Rna-Binding
Protein 14
Length = 90
Score = 36.2 bits (82), Expect = 0.057, Method: Composition-based stats.
Identities = 18/80 (22%), Positives = 40/80 (50%), Gaps = 8/80 (10%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
+FV ++ ++L ++F R G V+ ++++D YAF+ E + A +++
Sbjct: 12 IFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQL 63
Query: 305 DNALIDDRRIHVDFSQSVSK 324
+ + +RI+V+ S K
Sbjct: 64 NGKEVKGKRINVELSTKGQK 83
>pdb|2OSE|A Chain A, Crystal Structure Of The Mimivirus Cyclophilin
Length = 234
Score = 35.8 bits (81), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 44/178 (24%), Positives = 62/178 (34%), Gaps = 35/178 (19%)
Query: 9 LGDIVVDLFVDKCPLTTKNFLKLC-------------KIKY-------YNGCLFHTV-QK 47
+G + + LF D P +NF++L K KY Y GC FH V
Sbjct: 28 IGRLQIKLFRDAFPAGVENFVQLTNGKTYRVNSNGTGKYKYNRHINRTYEGCKFHNVLHN 87
Query: 48 DFXXXXXXXXXXXXXXDSVYKFLYGEQARFFGDEIRVDLKHAKTGTVAMAS----AGENL 103
++ +VY FGD H G +++ +G
Sbjct: 88 NYIVSGDIYNSNGSSAGTVY--CDEPIPPVFGDYF---YPHESKGLLSLVPYTDESGNRY 142
Query: 104 NASQFYMTLRD-----NLDYLDEKHTIFGEVAEGLETLSRINESFVDEKNRPYKNIRI 156
S F +TL D LD LD + G+V GL+ L +IN R Y I
Sbjct: 143 YDSTFMITLDDIRPSNVLDELDRDQVVIGQVYGGLDVLDKINSMIKPYAGRKYPTFSI 200
>pdb|2FY1|A Chain A, A Dual Mode Of Rna Recognition By The Rbmy Protein
Length = 116
Score = 35.8 bits (81), Expect = 0.073, Method: Composition-based stats.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 1/79 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LF+ LN T ++ L +F + G + +I+D +T S +AFI FEN + A M
Sbjct: 10 LFIGGLNRETNEKMLKAVFGKHGPISEVLLIKD-RTSKSRGFAFITFENPADAKNAAKDM 68
Query: 305 DNALIDDRRIHVDFSQSVS 323
+ + + I V+ ++ S
Sbjct: 69 NGKSLHGKAIKVEQAKKPS 87
>pdb|2XSF|A Chain A, Crystal Structure Of The Rrm Domain Of Mouse Deleted In
Azoospermia-Like
Length = 89
Score = 35.4 bits (80), Expect = 0.081, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 231 GDIPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIE 290
G + I P N +FV ++ ++ ++ + F+R+G+V +II D +TG S Y F+
Sbjct: 1 GPLGSGKIMP--NTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITD-RTGVSKGYGFVS 57
Query: 291 FEN 293
F N
Sbjct: 58 FYN 60
>pdb|3SDE|A Chain A, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.4 bits (80), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 6/81 (7%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV L +ED +F R+G I RD + FI E+R E A +++
Sbjct: 25 LFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAEIAKAEL 78
Query: 305 DNALIDDRRIHVDFSQSVSKL 325
D ++ R + + F+ + L
Sbjct: 79 DGTILKSRPLRIRFATHGAAL 99
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
L V L+PV +E L FS+FG V A ++ D G + F+EF + +A +
Sbjct: 98 ALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALER 156
Query: 304 M-DNALI 309
D A +
Sbjct: 157 CGDGAFL 163
>pdb|2U2F|A Chain A, Solution Structure Of The Second Rna-Binding Domain Of
Hu2af65
Length = 85
Score = 35.4 bits (80), Expect = 0.089, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 38/72 (52%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LF+ L D+ + + + FG + + +++D TG S YAF E+ + ++A + +
Sbjct: 4 LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 63
Query: 305 DNALIDDRRIHV 316
+ + D+++ V
Sbjct: 64 NGMQLGDKKLLV 75
>pdb|3ULH|A Chain A, Crystal Structure Of A Rna Binding Domain Of Tho Complex
Subunit 4 Protein (Thoc4) From Homo Sapiens At 2.54 A
Resolution
Length = 107
Score = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L+ D D+ +F+ FGT+ A + D ++G SL A + FE + +A +
Sbjct: 32 LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVHFERKADALKAXKQY 90
Query: 305 DNALIDDRRIHVDFSQS 321
+ +D R ++ S
Sbjct: 91 NGVPLDGRPXNIQLVTS 107
>pdb|2HYI|B Chain B, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|H Chain H, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
Length = 91
Score = 35.4 bits (80), Expect = 0.099, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 38/75 (50%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+LFV ++ +ED+H F+ +G + + + D +TG Y +E+E + + A
Sbjct: 11 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 70
Query: 304 MDNALIDDRRIHVDF 318
++ + + I VD+
Sbjct: 71 LNGQDLMGQPISVDW 85
>pdb|2J0Q|D Chain D, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|G Chain G, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
Length = 109
Score = 35.4 bits (80), Expect = 0.10, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 38/75 (50%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+LFV ++ +ED+H F+ +G + + + D +TG Y +E+E + + A
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 304 MDNALIDDRRIHVDF 318
++ + + I VD+
Sbjct: 69 LNGQDLMGQPISVDW 83
>pdb|2XB2|D Chain D, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|Z Chain Z, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 90
Score = 35.0 bits (79), Expect = 0.10, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 38/75 (50%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+LFV ++ +ED+H F+ +G + + + D +TG Y +E+E + + A
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 304 MDNALIDDRRIHVDF 318
++ + + I VD+
Sbjct: 69 LNGQDLMGQPISVDW 83
>pdb|2J0S|D Chain D, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 89
Score = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 38/75 (50%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+LFV ++ +ED+H F+ +G + + + D +TG Y +E+E + + A
Sbjct: 9 ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 68
Query: 304 MDNALIDDRRIHVDF 318
++ + + I VD+
Sbjct: 69 LNGQDLMGQPISVDW 83
>pdb|2DO0|A Chain A, Solution Structure Of The Rna Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein M
Length = 114
Score = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 1/78 (1%)
Query: 243 NVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYS 302
+ +FV L+ + L +FS G VV A+I+ D K G S + FE +A S
Sbjct: 16 STVFVANLDYKVGWKKLKEVFSMAGVVVRADILED-KDGKSRGIGTVTFEQSIEAVQAIS 74
Query: 303 KMDNALIDDRRIHVDFSQ 320
+ L+ DR +HV +
Sbjct: 75 MFNGQLLFDRPMHVKMDE 92
>pdb|2DK2|A Chain A, Solution Structure Of Rrm Domain In Heterogeneous Nuclear
Ribonucleoprotein R (Hnrnp R)
Length = 97
Score = 35.0 bits (79), Expect = 0.11, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 8/77 (10%)
Query: 229 SIGDIPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAF 288
S G D ++ VLFV L +E L FS FG + + ++D YAF
Sbjct: 2 SSGSSGDPEVMAKVKVLFVRNLATTVTEEILEKSFSEFGKLERVKKLKD--------YAF 53
Query: 289 IEFENRQACERAYSKMD 305
+ FE+R A +A +M+
Sbjct: 54 VHFEDRGAAVKAMDEMN 70
>pdb|3EX7|B Chain B, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|G Chain G, The Crystal Structure Of Ejc In Its Transition State
Length = 126
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 22/92 (23%), Positives = 43/92 (46%)
Query: 227 LESIGDIPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNY 286
+E GD P +LFV ++ +ED+H F+ +G + + + D +TG Y
Sbjct: 7 VEQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGY 66
Query: 287 AFIEFENRQACERAYSKMDNALIDDRRIHVDF 318
+E+E + + A ++ + + I VD+
Sbjct: 67 TLVEYETYKEAQAAMEGLNGQDLMGQPISVDW 98
>pdb|2DNZ|A Chain A, Solution Structure Of The Second Rna Binding Domain Of Rna
Binding Motif Protein 23
Length = 95
Score = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDR 312
+TED L IF FG + + +++D TG S Y FI F + + RA +++ + R
Sbjct: 17 ITEDM-LRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGR 75
Query: 313 RIHV 316
+ V
Sbjct: 76 PMRV 79
>pdb|3SDE|B Chain B, Crystal Structure Of A Paraspeckle-Protein Heterodimer,
Pspc1NONO
Length = 261
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV L P +E++ +F ++G I +D + FI E R E A ++
Sbjct: 25 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 78
Query: 305 DNALIDDRRIHVDFS 319
DN + +++ V F+
Sbjct: 79 DNMPLRGKQLRVRFA 93
>pdb|1WTB|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D (Auf1) With Telomere Dna
pdb|1X0F|A Chain A, Complex Structure Of The C-Terminal Rna-Binding Domain Of
Hnrnp D(Auf1) With Telomeric Dna
Length = 79
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 29/59 (49%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+FV L+P T +E + F FG V S E+ D KT + FI F+ + ++ K
Sbjct: 4 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 62
>pdb|1IQT|A Chain A, Solution Structure Of The C-Terminal Rna-Binding Domain Of
Heterogeneous Nuclear Ribonucleoprotein D0 (Auf1)
Length = 75
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 29/59 (49%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
+FV L+P T +E + F FG V S E+ D KT + FI F+ + ++ K
Sbjct: 2 IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEK 60
>pdb|2DO4|A Chain A, Solution Structure Of The Rna Binding Domain Of Squamous
Cell Carcinoma Antigen Recognized By T Cells 3
Length = 100
Score = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 1/77 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LF+ L E+L I GTV ++ + + G A++E+EN +A KM
Sbjct: 20 LFISGLPFSCTKEELEEICKAHGTVKDLRLVTN-RAGKPKGLAYVEYENESQASQAVMKM 78
Query: 305 DNALIDDRRIHVDFSQS 321
D I + I V S S
Sbjct: 79 DGMTIKENIIKVAISNS 95
>pdb|2DIV|A Chain A, Solution Structure Of The Rrm Domain Of Trna
Selenocysteine Associated Protein
Length = 99
Score = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 1/62 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFG-TVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
L++ L P ++ + F+ G TV+S +IIR+ TG Y F+EF + E+ K
Sbjct: 12 LWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHK 71
Query: 304 MD 305
++
Sbjct: 72 IN 73
>pdb|2YTC|A Chain A, Solution Structure Of Rna Binding Domain In Pre-Mrna-
Splicing Factor Rbm22
Length = 85
Score = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 39/77 (50%), Gaps = 7/77 (9%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L+V L + DL F +FG + + +++ + AFI+F RQA E A K
Sbjct: 15 LYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQC------AFIQFATRQAAEVAAEKS 68
Query: 305 DNALI-DDRRIHVDFSQ 320
N LI + RR++V + +
Sbjct: 69 FNKLIVNGRRLNVKWGR 85
>pdb|2X1F|A Chain A, Structure Of Rna15 Rrm With Bound Rna (Gu)
Length = 96
Score = 34.3 bits (77), Expect = 0.19, Method: Composition-based stats.
Identities = 19/81 (23%), Positives = 41/81 (50%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P V+++ + +E + + S G V++ +++ D +TG S YAFIEF + ++ A
Sbjct: 1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60
Query: 301 YSKMDNALIDDRRIHVDFSQS 321
++ + R + +S +
Sbjct: 61 VRNLNGYQLGSRFLKCGYSSN 81
>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 = 34.3 bits (77), Expect = 0.19, Method: Composition-based stats.
Identities = 19/81 (23%), Positives = 41/81 (50%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P V+++ + +E + + S G V++ +++ D +TG S YAFIEF + ++ A
Sbjct: 2 PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 61
Query: 301 YSKMDNALIDDRRIHVDFSQS 321
++ + R + +S +
Sbjct: 62 VRNLNGYQLGSRFLKCGYSSN 82
>pdb|1X5O|A Chain A, Solution Structure Of Rrm Domain In Rna Binding Motif,
Single-Stranded Interacting Protein 1
Length = 114
Score = 34.3 bits (77), Expect = 0.19, Method: Composition-based stats.
Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P N L++ L ++++L + FG V+S I+RD +G S F E+ + CE
Sbjct: 25 PTN-LYISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAV 82
Query: 301 YSKMDNALI 309
+ I
Sbjct: 83 IGHFNGKFI 91
>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 = 34.3 bits (77), Expect = 0.21, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYS-- 302
+F+ L+ T +DL FS+FG VV + D TG S + F+ F+ ++ ++
Sbjct: 2 MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61
Query: 303 --KMDNALIDDRR 313
K++ +ID +R
Sbjct: 62 EHKLNGKVIDPKR 74
>pdb|1H6K|Z Chain Z, Nuclear Cap Binding Complex
pdb|1H6K|X Chain X, Nuclear Cap Binding Complex
pdb|1H6K|Y Chain Y, Nuclear Cap Binding Complex
Length = 98
Score = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 38/75 (50%), Gaps = 1/75 (1%)
Query: 244 VLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK 303
L+V L+ T +E ++ +FS+ G + + D K + + F+E+ +R E A
Sbjct: 20 TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLD-KMKTACGFCFVEYYSRADAENAMRY 78
Query: 304 MDNALIDDRRIHVDF 318
++ +DDR I D+
Sbjct: 79 INGTRLDDRIIRTDW 93
>pdb|2KT5|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hsv-1
Icp27 Peptide
Length = 124
Score = 33.9 bits (76), Expect = 0.28, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L+ D D+ +F+ FGT+ A + D ++G SL A + FE R +A +
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKAMKQY 96
Query: 305 DNALIDDRRIHVDFSQS 321
+D R + + S
Sbjct: 97 KGVPLDGRPMDIQLVAS 113
>pdb|2YKA|A Chain A, Rrm Domain Of Mrna Export Adaptor Ref2-I Bound To Hvs
Orf57 Peptide
Length = 124
Score = 33.5 bits (75), Expect = 0.30, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
L V L+ D D+ +F+ FGT+ A + D ++G SL A + FE R +A +
Sbjct: 38 LLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADALKAMKQY 96
Query: 305 DNALIDDRRIHVDFSQS 321
+D R + + S
Sbjct: 97 KGVPLDGRPMDIQLVAS 113
>pdb|1X4A|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor Sf2
Length = 109
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
++V L P +D+ +F ++G + ++ ++ + G +AF+EFE+ + E A
Sbjct: 25 IYVGNLPPDIRTKDIEDVFYKYGAIRDIDL-KNRRGGPP--FAFVEFEDPRDAEDAVYGR 81
Query: 305 DNALIDDRRIHVDFSQS 321
D D R+ V+F +S
Sbjct: 82 DGYDYDGYRLRVEFPRS 98
>pdb|2KI2|A Chain A, Solution Structure Of Ss-Dna Binding Protein 12rnp2
Precursor, Hp0827(O25501_helpy) Form Helicobacter Pylori
Length = 90
Score = 33.5 bits (75), Expect = 0.34, Method: Composition-based stats.
Identities = 21/72 (29%), Positives = 35/72 (48%), Gaps = 1/72 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
++V L E + +FS+FG V + ++I D +T + F+E + E A +K+
Sbjct: 4 IYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSE-AIAKL 62
Query: 305 DNALIDDRRIHV 316
DN R I V
Sbjct: 63 DNTDFMGRTIRV 74
>pdb|3BO2|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO3|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3BO4|A Chain A, A Relaxed Active Site Following Exon Ligation By A Group I
Intron
pdb|3IIN|A Chain A, Plasticity Of The Kink Turn Structural Motif
Length = 95
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 5 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 61
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS 321
A M D+ + + ++++
Sbjct: 62 ATNALRSMQGFPFYDKPMRIQYAKT 86
>pdb|2CPX|A Chain A, Solution Structure Of Rna Binding Domain In Hypothetical
Protein Flj11016
Length = 115
Score = 33.1 bits (74), Expect = 0.40, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 29/60 (48%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
P VL++ L+P + DL ++F+RF I TG AFI F N++ +A
Sbjct: 24 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQA 83
>pdb|3IWN|C Chain C, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
pdb|3IWN|D Chain D, Co-Crystal Structure Of A Bacterial C-Di-Gmp Riboswitch
Length = 91
Score = 33.1 bits (74), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 3 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 59
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS 321
A M D+ + + ++++
Sbjct: 60 ATNALRSMQGFPFYDKPMRIQYAKT 84
>pdb|2NZ4|A Chain A, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|B Chain B, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|C Chain C, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
pdb|2NZ4|D Chain D, Structural Investigation Of The Glms Ribozyme Bound To Its
Catalytic Cofactor
Length = 94
Score = 33.1 bits (74), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 4 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 60
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS 321
A M D+ + + ++++
Sbjct: 61 ATNALRSMQGFPFYDKPMRIQYAKT 85
>pdb|1URN|A Chain A, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|B Chain B, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1URN|C Chain C, U1a MutantRNA COMPLEX + GLYCEROL
pdb|1NU4|A Chain A, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|1NU4|B Chain B, U1a Rna Binding Domain At 1.8 Angstrom Resolution Reveals
A Pre- Organized C-Terminal Helix
pdb|3HHN|B Chain B, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
pdb|3HHN|D Chain D, Crystal Structure Of Class I Ligase Ribozyme Self-Ligation
Product, In Complex With U1a Rbd
Length = 97
Score = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 63
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS 321
A M D+ + + ++++
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYAKT 88
>pdb|3L3C|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
pdb|3L3C|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Glc6p
Length = 90
Score = 33.1 bits (74), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 58
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS 321
A M D+ + + ++++
Sbjct: 59 ATNALRSMQGFPFYDKPMRIQYAKT 83
>pdb|1U6B|A Chain A, Crystal Structure Of A Self-Splicing Group I Intron With
Both Exons
pdb|1ZZN|A Chain A, Crystal Structure Of A Group I IntronTWO EXON COMPLEX THAT
Includes All Catalytic Metal Ion Ligands.
pdb|3G8S|A Chain A, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|B Chain B, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|C Chain C, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8S|D Chain D, Crystal Structure Of The Pre-Cleaved Bacillus Anthracis
Glms Ribozyme
pdb|3G8T|A Chain A, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|B Chain B, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|C Chain C, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G8T|D Chain D, Crystal Structure Of The G33a Mutant Bacillus Anthracis
Glms Ribozyme Bound To Glcn6p
pdb|3G96|A Chain A, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|B Chain B, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|C Chain C, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G96|D Chain D, Crystal Structure Of The Bacillus Anthracis Glms Ribozyme
Bound To Man6p
pdb|3G9C|A Chain A, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|B Chain B, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|C Chain C, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3G9C|D Chain D, Crystal Structure Of The Product Bacillus Anthracis Glms
Ribozyme
pdb|3IRW|P Chain P, Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3MUM|P Chain P, Crystal Structure Of The G20a Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUR|P Chain P, Crystal Structure Of The C92u Mutant C-Di-Gmp Riboswith
Bound To C-Di- Gmp
pdb|3MUT|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Gmp
pdb|3MUV|P Chain P, Crystal Structure Of The G20aC92U MUTANT C-Di-Gmp
Riboswith Bound To C-Di-Amp
pdb|3MXH|P Chain P, Native Structure Of A C-Di-Gmp Riboswitch From V. Cholerae
pdb|3P49|B Chain B, Crystal Structure Of A Glycine Riboswitch From
Fusobacterium Nucleatum
pdb|3R1H|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1H|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Ca2+ Bound
pdb|3R1L|A Chain A, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3R1L|D Chain D, Crystal Structure Of The Class I Ligase Ribozyme-Substrate
Preligation Complex, C47u Mutant, Mg2+ Bound
pdb|3UCU|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Pgpg
pdb|3UCZ|P Chain P, The C-Di-Gmp-I Riboswitch Bound To Gpg
pdb|3UD3|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Pgpa
pdb|3UD4|P Chain P, The C92u Mutant C-Di-Gmp-I Riboswitch Bound To Gpa
Length = 98
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 64
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS 321
A M D+ + + ++++
Sbjct: 65 ATNALRSMQGFPFYDKPMRIQYAKT 89
>pdb|3PGW|A Chain A, Crystal Structure Of Human U1 Snrnp
pdb|3PGW|P Chain P, Crystal Structure Of Human U1 Snrnp
Length = 282
Score = 33.1 bits (74), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 23/101 (22%), Positives = 47/101 (46%), Gaps = 11/101 (10%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE L+ IFS+FG ++ + R K AF+ F+ +
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQ---AFVIFKEVSS 64
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS----VSKLWNQFRRRD 333
A M D+ + + ++++ ++K+ F RD
Sbjct: 65 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERD 105
>pdb|3K0J|A Chain A, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|B Chain B, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|C Chain C, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
pdb|3K0J|D Chain D, Crystal Structure Of The E. Coli Thim Riboswitch In
Complex With Thiamine Pyrophosphate And The U1a
Crystallization Module
Length = 96
Score = 33.1 bits (74), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 7/85 (8%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 63
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS 321
A M D+ + + ++++
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYAKT 88
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 33.1 bits (74), Expect = 0.49, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 253 VTEDEDLHTIFSRFGTVVSAEI-IRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDD 311
VT+D + IFS +G + ++ + S YA++EFEN E+A MD ID
Sbjct: 16 VTKDH-IMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDG 74
Query: 312 RRI 314
+ I
Sbjct: 75 QEI 77
>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr
pdb|2MST|A Chain A, Musashi1 Rbd2, Nmr
Length = 75
Score = 32.7 bits (73), Expect = 0.52, Method: Composition-based stats.
Identities = 19/73 (26%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFEN----RQACERA 300
+FV L+ T ED+ F +FG V A ++ D T + F+ FE+ + CE
Sbjct: 2 IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61
Query: 301 YSKMDNALIDDRR 313
+ +++N +++ ++
Sbjct: 62 FHEINNKMVECKK 74
>pdb|2CPD|A Chain A, Solution Structure Of The Rna Recognition Motif Of Human
Apobec-1 Complementation Factor, Acf
Length = 99
Score = 32.7 bits (73), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 41/98 (41%), Gaps = 10/98 (10%)
Query: 229 SIGDIPDADIKPPENVLFVCKLNPVTEDEDLHTIFSRF--GTVVSAEIIRDFKTGDSLNY 286
S G D D +L+V L T +E + F+ G V + IRD Y
Sbjct: 2 SSGSSGDEDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIRD--------Y 53
Query: 287 AFIEFENRQACERAYSKMDNALIDDRRIHVDFSQSVSK 324
AF+ F NR+ A ++ ++D I V ++ V K
Sbjct: 54 AFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAKPVDK 91
>pdb|1FHT|A Chain A, Rna-Binding Domain Of The U1a Spliceosomal Protein U1a117,
Nmr, 43 Structures
Length = 116
Score = 32.7 bits (73), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 48/103 (46%), Gaps = 11/103 (10%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE L+ IFS+FG ++ + R K AF+ F+ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKMRGQ---AFVIFKEVSS 63
Query: 297 CERAYSKMDNALIDDRRIHVDFSQS----VSKLWNQFRRRDHQ 335
A M D+ + + ++++ ++K+ F RD +
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKMKGTFVERDRK 106
>pdb|2CPJ|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
pdb|2RS8|A Chain A, Solution Structure Of The N-Terminal Rna Recognition Motif
Of Nono
Length = 99
Score = 32.3 bits (72), Expect = 0.71, Method: Composition-based stats.
Identities = 20/75 (26%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV L P +E++ +F ++G I +D + FI E R E A ++
Sbjct: 18 LFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVEL 71
Query: 305 DNALIDDRRIHVDFS 319
DN + +++ V F+
Sbjct: 72 DNMPLRGKQLRVRFA 86
>pdb|1M5K|C Chain C, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5K|F Chain F, Crystal Structure Of A Hairpin Ribozyme In The
Catalytically-Active Conformation
pdb|1M5O|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5O|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5P|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|C Chain C, Transition State Stabilization By A Catalytic Rna
pdb|1M5V|F Chain F, Transition State Stabilization By A Catalytic Rna
pdb|1SJ3|P Chain P, Hepatitis Delta Virus Gemonic Ribozyme Precursor, With
Mg2+ Bound
pdb|1SJ4|P Chain P, Crystal Structure Of A C75u Mutant Hepatitis Delta Virus
Ribozyme Precursor, In Cu2+ Solution
pdb|1SJF|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Cobalt
Hexammine Solution
pdb|1VBX|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Edta Solution
pdb|1VBY|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, And Mn2+ Bound
pdb|1VBZ|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Ba2+ Solution
pdb|1VC0|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Imidazole And
Sr2+ Solution
pdb|1VC5|A Chain A, Crystal Structure Of The Wild Type Hepatitis Delta Virus
Gemonic Ribozyme Precursor, In Edta Solution
pdb|1VC6|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Product With C75u Mutaion, Cleaved In Imidazole
And Mg2+ Solutions
pdb|1VC7|A Chain A, Crystal Structure Of The Hepatitis Delta Virus Gemonic
Ribozyme Precursor, With C75u Mutaion, In Sr2+ Solution
pdb|2OIH|A Chain A, Hepatitis Delta Virus Gemonic Ribozyme Precursor With C75u
Mutation And Bound To Monovalent Cation Tl+
pdb|2OJ3|A Chain A, Hepatitis Delta Virus Ribozyme Precursor Structure, With
C75u Mutation, Bound To Tl+ And Cobalt Hexammine
(Co(Nh3) 63+)
Length = 100
Score = 32.3 bits (72), Expect = 0.85, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 7/89 (7%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 64
Query: 297 CERAYSKMDNALIDDRRIHVDFSQSVSKL 325
A M D+ + + ++++ S +
Sbjct: 65 ATNALRSMQGFPFYDKPMRIQYAKTDSDI 93
>pdb|1AUD|A Chain A, U1a-Utrrna, Nmr, 31 Structures
pdb|1DZ5|A Chain A, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
pdb|1DZ5|B Chain B, The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex
Reveals The Basis Of Cooperativity In Regulation Of
Polyadenylation By Human U1a Protein
Length = 101
Score = 32.3 bits (72), Expect = 0.85, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 7/89 (7%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQ---AFVIFKEVSS 63
Query: 297 CERAYSKMDNALIDDRRIHVDFSQSVSKL 325
A M D+ + + ++++ S +
Sbjct: 64 ATNALRSMQGFPFYDKPMRIQYAKTDSDI 92
>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 = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 257 EDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIHV 316
+DL FS G++ I+ D +G YA+IEF R + + A + MD + R I V
Sbjct: 51 QDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA-MDETVFRGRTIKV 109
>pdb|2DHG|A Chain A, Solution Structure Of The C-Terminal Rna Recognition Motif
In Trna Selenocysteine Associated Protein
Length = 104
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 241 PENVLFVCKLNPVTEDEDLHTIFSR-FGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
PE LFV L P +D L+ F + + + +++ D +TG S Y F++F + +R
Sbjct: 8 PEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLD-QTGVSKGYGFVKFTDELEQKR 66
Query: 300 AYSKMDNAL 308
A ++ A+
Sbjct: 67 ALTECQGAV 75
>pdb|3TWK|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg
pdb|3TWK|B Chain B, Crystal Structure Of Arabidopsis Thaliana Fpg
Length = 297
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%)
Query: 351 IAKDCTGQQPAKYILRDDNRQHGGYSDSRYEMVFDGETPEKSRREKKH 398
I ++C G++ + I+ DDN+ G S S ++ G+T +RR+ K+
Sbjct: 14 IEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGKN 61
>pdb|2DNO|A Chain A, Solution Structure Of Rna Binding Domain In Trinucleotide
Repeat Containing 4 Variant
Length = 102
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV L DED+ +F FGT+ ++R G S AF++F+ + A + +
Sbjct: 15 LFVGMLGKQQTDEDVRKMFEPFGTIDECTVLRG-PDGTSKGCAFVKFQTHAEAQAAINTL 73
Query: 305 DNA 307
++
Sbjct: 74 HSS 76
>pdb|2RS2|A Chain A, 1h, 13c, And 15n Chemical Shift Assignments For Musashi1
Rbd1:r(Guagu) Complex
Length = 109
Score = 30.8 bits (68), Expect = 2.5, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK- 303
+F+ L+ T E L F +FG V ++RD T S + F+ F ++ ++ ++
Sbjct: 28 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 87
Query: 304 ---MDNALIDDR 312
+D+ ID +
Sbjct: 88 RHELDSKTIDPK 99
>pdb|1UAW|A Chain A, Solution Structure Of The N-Terminal Rna-Binding Domain Of
Mouse Musashi1
Length = 77
Score = 30.4 bits (67), Expect = 2.5, Method: Composition-based stats.
Identities = 18/72 (25%), Positives = 35/72 (48%), Gaps = 4/72 (5%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSK- 303
+F+ L+ T E L F +FG V ++RD T S + F+ F ++ ++ ++
Sbjct: 3 MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62
Query: 304 ---MDNALIDDR 312
+D+ ID +
Sbjct: 63 RHELDSKTIDPK 74
>pdb|3TWL|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg
pdb|3TWM|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg
pdb|3TWM|B Chain B, Crystal Structure Of Arabidopsis Thaliana Fpg
Length = 310
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%)
Query: 351 IAKDCTGQQPAKYILRDDNRQHGGYSDSRYEMVFDGETPEKSRREKKH 398
I ++C G++ + I+ DDN+ G S S ++ G+T +RR+ K+
Sbjct: 14 IEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGKN 61
>pdb|1SJR|A Chain A, Nmr Structure Of Rrm2 From Human Polypyrimidine Tract
Binding Protein Isoform 1 (Ptb1)
Length = 164
Score = 30.4 bits (67), Expect = 3.0, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 9/87 (10%)
Query: 252 PVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDD 311
PVT D LH IFS+FGTV+ I F + A +++ + + + A +D I +
Sbjct: 57 PVTLDV-LHQIFSKFGTVLK---IITFTKNNQFQ-ALLQYADPVSAQHAKLSLDGQNIYN 111
Query: 312 R--RIHVDFSQ--SVSKLWNQFRRRDH 334
+ +DFS+ S++ +N + RD+
Sbjct: 112 ACCTLRIDFSKLTSLNVKYNNDKSRDY 138
>pdb|2DNK|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 4
Rna Binding Protein
Length = 105
Score = 30.4 bits (67), Expect = 3.0, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 240 PPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACER 299
P LFV LN ++D+ +F FG + I+R G+S AF+++ + +
Sbjct: 13 PSHRKLFVGMLNKQQSEDDVRRLFEAFGNIEECTILRG-PDGNSKGCAFVKYSSHAEAQA 71
Query: 300 AYSKM 304
A + +
Sbjct: 72 AINAL 76
>pdb|2DGP|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 4 Rna-Binding Protein
Length = 106
Score = 30.4 bits (67), Expect = 3.1, Method: Composition-based stats.
Identities = 15/60 (25%), Positives = 32/60 (53%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LF+ ++ +++DL +F FG + +++D TG AF+ + R++ +A S +
Sbjct: 16 LFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75
>pdb|2DGS|A Chain A, Solution Structure Of The Second Rna Binding Domain In
Daz- Associated Protein 1
Length = 99
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 243 NVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
N +FV + + +L F +FG V +I D + + FI FE+ Q+ ++A
Sbjct: 11 NKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQA 68
>pdb|3NNC|A Chain A, Crystal Structure Of Cugbp1 Rrm12-Rna Complex
Length = 175
Score = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LF+ ++ + D+ +FS FG + I+R G S AF+ F R + A M
Sbjct: 98 LFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVTFTTRAMAQTAIKAM 156
Query: 305 DNA 307
A
Sbjct: 157 HQA 159
>pdb|2DGQ|A Chain A, Solution Structure Of The N-Terminal Rna Binding Domain In
Bruno-Like 6 Rna-Binding Protein
Length = 108
Score = 30.0 bits (66), Expect = 3.8, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 31/60 (51%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LFV ++ +++DL +F FG + +++D TG AF+ + R + +A S +
Sbjct: 18 LFVGQIPRGLDEQDLKPLFEEFGRIYELTVLKDRLTGLHKGCAFLTYCARDSALKAQSAL 77
>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein
Length = 98
Score = 30.0 bits (66), Expect = 4.1, Method: Composition-based stats.
Identities = 20/92 (21%), Positives = 42/92 (45%), Gaps = 9/92 (9%)
Query: 229 SIGDIPDADIKPPENVLFVCKLNP-VTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYA 287
S G D + + +F+ LN V + D+ IFS++G +V + + F A
Sbjct: 2 SSGSSGKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGF--------A 53
Query: 288 FIEFENRQACERAYSKMDNALIDDRRIHVDFS 319
F+++ N + A + D +I + + ++ +
Sbjct: 54 FVQYVNERNARAAVAGEDGRMIAGQVLDINLA 85
>pdb|2DHS|A Chain A, Solution Structure Of Nucleic Acid Binding Protein
Cugbp1ab And Its Binding Study With Dna And Rna
Length = 187
Score = 29.6 bits (65), Expect = 4.5, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
LF+ ++ + D+ +FS FG + I+R G S AF+ F R + A M
Sbjct: 110 LFIGMISKKCTENDIRVMFSSFGQIEECRILRG-PDGLSRGCAFVTFTTRAMAQTAIKAM 168
Query: 305 DNA 307
A
Sbjct: 169 HQA 171
Score = 28.9 bits (63), Expect = 8.8, Method: Composition-based stats.
Identities = 22/78 (28%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 232 DIPDAD-IKPPENVLFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTG--DSLNYAF 288
D PD D IK +FV ++ ++DL +F ++G V ++RD S F
Sbjct: 9 DQPDLDAIK-----MFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCF 63
Query: 289 IEFENRQACERAYSKMDN 306
+ F R+A A + + N
Sbjct: 64 VTFYTRKAALEAQNALHN 81
>pdb|2ADB|A Chain A, Solution Structure Of Polypyrimidine Tract Binding Protein
Rbd2 Complexed With Cucucu Rna
Length = 148
Score = 29.6 bits (65), Expect = 4.8, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 9/87 (10%)
Query: 252 PVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDD 311
PVT D LH IFS+FGTV+ I F + A +++ + + + A +D I +
Sbjct: 44 PVTLDV-LHQIFSKFGTVLK---IITFTKNNQFQ-ALLQYADPVSAQHAKLSLDGQNIYN 98
Query: 312 R--RIHVDFSQ--SVSKLWNQFRRRDH 334
+ +DFS+ S++ +N + RD+
Sbjct: 99 ACCTLRIDFSKLTSLNVKYNNDKSRDY 125
>pdb|1DRZ|A Chain A, U1a Spliceosomal ProteinHEPATITIS DELTA VIRUS GENOMIC
Ribozyme Complex
Length = 97
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQ---AFVIFKEVSS 63
Query: 297 CERA 300
A
Sbjct: 64 ATNA 67
>pdb|3CUL|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUL|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|A Chain A, Aminoacyl-Trna Synthetase Ribozyme
pdb|3CUN|B Chain B, Aminoacyl-Trna Synthetase Ribozyme
pdb|3EGZ|A Chain A, Crystal Structure Of An In Vitro Evolved Tetracycline
Aptamer And Artificial Riboswitch
Length = 98
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 8 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQ---AFVIFKEVSS 64
Query: 297 CERA 300
A
Sbjct: 65 ATNA 68
>pdb|1CX0|A Chain A, Hepatitis Delta Virus Ribozyme
Length = 95
Score = 29.6 bits (65), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 241 PENVLFVCKLN-PVTEDE---DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQA 296
P + +++ LN + +DE LH IFSRFG ++ + R K AF+ F+ +
Sbjct: 5 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKXRGQ---AFVIFKEVSS 61
Query: 297 CERA 300
A
Sbjct: 62 ATNA 65
>pdb|1X5U|A Chain A, Solution Structure Of Rrm Domain In Splicing Factor 3b
Length = 105
Score = 29.6 bits (65), Expect = 5.5, Method: Composition-based stats.
Identities = 20/80 (25%), Positives = 39/80 (48%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKM 304
++V L+ + L +F + G VV+ + +D TG Y F+EF + + + A M
Sbjct: 18 VYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIM 77
Query: 305 DNALIDDRRIHVDFSQSVSK 324
D + + I V+ + + +K
Sbjct: 78 DMIKLYGKPIRVNKASAHNK 97
>pdb|3ZZY|A Chain A, Crystal Structure Of A Raver1 Pri3 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
pdb|3ZZY|B Chain B, Crystal Structure Of A Raver1 Pri3 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
pdb|3ZZZ|A Chain A, Crystal Structure Of A Raver1 Pri4 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
pdb|3ZZZ|B Chain B, Crystal Structure Of A Raver1 Pri4 Peptide In Complex With
Polypyrimidine Tract Binding Protein Rrm2
Length = 130
Score = 29.6 bits (65), Expect = 5.6, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 9/87 (10%)
Query: 252 PVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDD 311
PVT D LH IFS+FGTV+ I F + A +++ + + + A +D I +
Sbjct: 39 PVTLDV-LHQIFSKFGTVLK---IITFTKNNQFQ-ALLQYADPVSAQHAKLSLDGQNIYN 93
Query: 312 R--RIHVDFSQ--SVSKLWNQFRRRDH 334
+ +DFS+ S++ +N + RD+
Sbjct: 94 ACCTLRIDFSKLTSLNVKYNNDKSRDY 120
>pdb|2F8L|A Chain A, Crystal Structure Of A Putative Class I
S-Adenosylmethionine-Dependent Methyltransferase
(Lmo1582) From Listeria Monocytogenes At 2.20 A
Resolution
Length = 344
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 212 EQVIRSKDARSSAVVLESIGDIPDADIKPPENVLF 246
E + +S+ AR S ++LE D D+KPP+ VL
Sbjct: 287 ETLFKSEQARKSILILEK----ADVDVKPPKEVLL 317
>pdb|2HVZ|A Chain A, Solution Structure Of The Rrm Domain Of Sr Rich Factor 9g8
Length = 101
Score = 29.3 bits (64), Expect = 6.0, Method: Composition-based stats.
Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 5/67 (7%)
Query: 258 DLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERAYSKMDNALIDDRRIHVD 317
+L FS +G + + I R+ +AF+EFE+ + E A +D +I R+ V+
Sbjct: 16 ELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVE 70
Query: 318 FSQSVSK 324
S + +
Sbjct: 71 LSTGMPR 77
>pdb|2DNH|A Chain A, Solution Structure Of Rna Binding Domain In Bruno-Like 5
Rna Binding Protein
Length = 105
Score = 28.9 bits (63), Expect = 9.0, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 245 LFVCKLNPVTEDEDLHTIFSRFGTVVSAEIIRDFKTGDSLNYAFIEFENRQACERA 300
LFV LN +ED+ +F FG + ++R G S AF++F + + A
Sbjct: 18 LFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRG-PDGSSKGCAFVKFSSHTEAQAA 72
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
0.316 0.135 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,375,884
Number of Sequences: 62578
Number of extensions: 580297
Number of successful extensions: 1569
Number of sequences better than 100.0: 240
Number of HSP's better than 100.0 without gapping: 177
Number of HSP's successfully gapped in prelim test: 63
Number of HSP's that attempted gapping in prelim test: 1218
Number of HSP's gapped (non-prelim): 269
length of query: 589
length of database: 14,973,337
effective HSP length: 104
effective length of query: 485
effective length of database: 8,465,225
effective search space: 4105634125
effective search space used: 4105634125
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)