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= 028376
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 6/63 (9%)
Query: 23 DEETCPICQEKLGNQKMVFQCGHFTCCKCFFAMTEQRLIHDNKVKNEWVMCPTCRQRTDI 82
+E TCPIC E L Q + CGH C C A ++ ++ + CP CR
Sbjct: 18 EEVTCPICLELL-TQPLSLDCGHSFCQACLTANHKKSMLDKGESS-----CPVCRISYQP 71
Query: 83 GNI 85
NI
Sbjct: 72 ENI 74
>pdb|2BBT|A Chain A, Human Deltaf508 Nbd1 With Two Solublizing Mutations.
pdb|2BBT|B Chain B, Human Deltaf508 Nbd1 With Two Solublizing Mutations
Length = 290
Score = 30.8 bits (68), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 65/159 (40%), Gaps = 16/159 (10%)
Query: 56 TEQRLIHDNKV----KNEWVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCE 108
+E ++ H ++ +N W+M T ++ +I ++Y + R K+C + +D
Sbjct: 91 SEGKIKHSGRISFCSQNSWIMPGTIKE--NIIGVSYDEYRYRSVIKACQLE-----EDIS 143
Query: 109 K-GEESFTVQGSYGTKIEAVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNIT 166
K E+ V G G + R RI ++ A + + S LDVL I +
Sbjct: 144 KFAEKDNIVLGEGGITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCV 203
Query: 167 CIKMKGENHKLPSANLQHRNALQKELTRHMPSSQSQSLF 205
C M + L ++ ++H K L H SS F
Sbjct: 204 CKLMANKTRILVTSKMEHLKKADKILILHEGSSYFYGTF 242
>pdb|2BBS|A Chain A, Human Deltaf508 Nbd1 With Three Solubilizing Mutations
pdb|2BBS|B Chain B, Human Deltaf508 Nbd1 With Three Solubilizing Mutations
Length = 290
Score = 30.8 bits (68), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 65/159 (40%), Gaps = 16/159 (10%)
Query: 56 TEQRLIHDNKV----KNEWVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCE 108
+E ++ H ++ +N W+M T ++ +I ++Y + R K+C + +D
Sbjct: 91 SEGKIKHSGRISFCSQNSWIMPGTIKE--NIIGVSYDEYRYRSVIKACQLE-----EDIS 143
Query: 109 K-GEESFTVQGSYGTKIEAVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNIT 166
K E+ V G G + R RI ++ A + + S LDVL I +
Sbjct: 144 KFAEKDNIVLGEGGITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCV 203
Query: 167 CIKMKGENHKLPSANLQHRNALQKELTRHMPSSQSQSLF 205
C M + L ++ ++H K L H SS F
Sbjct: 204 CKLMANKTRILVTSKMEHLKKADKILILHEGSSYFYGTF 242
>pdb|1R0Z|A Chain A, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|B Chain B, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|C Chain C, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
pdb|1R0Z|D Chain D, Phosphorylated Cystic Fibrosis Transmembrane Conductance
Regulator (Cftr) Nucleotide-Binding Domain One (Nbd1)
With Atp
Length = 286
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 54/141 (38%), Gaps = 11/141 (7%)
Query: 70 WVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCEK-GEESFTVQGSYGTKIE 125
W+M T ++ G ++Y + R K+C QD K E+ TV G G +
Sbjct: 109 WIMPGTIKENIIFG-VSYDEYRYKSVVKACQLQ-----QDITKFAEQDNTVLGEGGVTLS 162
Query: 126 AVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNITCIKMKGENHKLPSANLQH 184
R RI ++ A + + S LDV + + C M + L ++ ++H
Sbjct: 163 GGQRARISLARAVYKDADLYLLDSPFGYLDVFTEEQVFESCVCKLMANKTRILVTSKMEH 222
Query: 185 RNALQKELTRHMPSSQSQSLF 205
K L H SS F
Sbjct: 223 LRKADKILILHQGSSYFYGTF 243
>pdb|1XF9|A Chain A, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|B Chain B, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|C Chain C, Structure Of Nbd1 From Murine Cftr- F508s Mutant
pdb|1XF9|D Chain D, Structure Of Nbd1 From Murine Cftr- F508s Mutant
Length = 283
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 54/141 (38%), Gaps = 11/141 (7%)
Query: 70 WVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCEK-GEESFTVQGSYGTKIE 125
W+M T ++ I ++Y + R K+C QD K E+ TV G G +
Sbjct: 109 WIMPGTIKENI-ISGVSYDEYRYKSVVKACQLQ-----QDITKFAEQDNTVLGEGGVTLS 162
Query: 126 AVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNITCIKMKGENHKLPSANLQH 184
R RI ++ A + + S LDV + + C M + L ++ ++H
Sbjct: 163 GGQRARISLARAVYKDADLYLLDSPFGYLDVFTEEQVFESCVCKLMANKTRILVTSKMEH 222
Query: 185 RNALQKELTRHMPSSQSQSLF 205
K L H SS F
Sbjct: 223 LRKADKILILHQGSSYFYGTF 243
>pdb|1Q3H|A Chain A, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|B Chain B, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|C Chain C, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1Q3H|D Chain D, Mouse Cftr Nbd1 With Amp.Pnp
pdb|1R0W|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0W|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) Apo
pdb|1R0X|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0X|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp
pdb|1R0Y|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|C Chain C, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R0Y|D Chain D, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Adp
pdb|1R10|A Chain A, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp, I4122
Space Group
pdb|1R10|B Chain B, Cystic Fibrosis Transmembrane Conductance Regulator (Cftr)
Nucleotide- Binding Domain One (Nbd1) With Atp, I4122
Space Group
Length = 286
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 54/141 (38%), Gaps = 11/141 (7%)
Query: 70 WVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCEK-GEESFTVQGSYGTKIE 125
W+M T ++ G ++Y + R K+C QD K E+ TV G G +
Sbjct: 109 WIMPGTIKENIIFG-VSYDEYRYKSVVKACQLQ-----QDITKFAEQDNTVLGEGGVTLS 162
Query: 126 AVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNITCIKMKGENHKLPSANLQH 184
R RI ++ A + + S LDV + + C M + L ++ ++H
Sbjct: 163 GGQRARISLARAVYKDADLYLLDSPFGYLDVFTEEQVFESCVCKLMANKTRILVTSKMEH 222
Query: 185 RNALQKELTRHMPSSQSQSLF 205
K L H SS F
Sbjct: 223 LRKADKILILHQGSSYFYGTF 243
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 10/56 (17%)
Query: 24 EETCPICQEKLGNQKMVFQCGHFTCCKCFFAMTEQRLIHDNKVKNEWVMCPTCRQR 79
E CPIC + L N +C H C C L NK CPTCR++
Sbjct: 54 ELMCPICLDMLKNTMTTKECLHRFCADCIITA----LRSGNK------ECPTCRKK 99
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 10/72 (13%)
Query: 8 ISNSTKHRIESLSKADEETCPICQEKLGNQKMVFQCGHFTCCKCFFAMTEQRLIHDNKVK 67
I++ + + S E CPIC + L N +C H C C L NK
Sbjct: 37 ITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITA----LRSGNK-- 90
Query: 68 NEWVMCPTCRQR 79
CPTCR++
Sbjct: 91 ----ECPTCRKK 98
>pdb|3SI7|A Chain A, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|B Chain B, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|C Chain C, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
pdb|3SI7|D Chain D, The Crystal Structure Of The Nbd1 Domain Of The Mouse Cftr
Protein, Deltaf508 Mutant
Length = 285
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 55/141 (39%), Gaps = 12/141 (8%)
Query: 70 WVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCEK-GEESFTVQGSYGTKIE 125
W+M T ++ +I ++Y + R K+C QD K E+ TV G G +
Sbjct: 109 WIMPGTIKE--NIIGVSYDEYRYKSVVKACQLQ-----QDITKFAEQDNTVLGEGGVTLS 161
Query: 126 AVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNITCIKMKGENHKLPSANLQH 184
R RI ++ A + + S LDV + + C M + L ++ ++H
Sbjct: 162 GGQRARISLARAVYKDADLYLLDSPFGYLDVFTEEQVFESCVCKLMANKTRILVTSKMEH 221
Query: 185 RNALQKELTRHMPSSQSQSLF 205
K L H SS F
Sbjct: 222 LRKADKILILHQGSSYFYGTF 242
>pdb|1XFA|A Chain A, Structure Of Nbd1 From Murine Cftr- F508r Mutant
pdb|1XFA|B Chain B, Structure Of Nbd1 From Murine Cftr- F508r Mutant
Length = 283
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 54/141 (38%), Gaps = 11/141 (7%)
Query: 70 WVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCEK-GEESFTVQGSYGTKIE 125
W+M T ++ I ++Y + R K+C QD K E+ TV G G +
Sbjct: 109 WIMPGTIKENI-IRGVSYDEYRYKSVVKACQLQ-----QDITKFAEQDNTVLGEGGVTLS 162
Query: 126 AVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNITCIKMKGENHKLPSANLQH 184
R RI ++ A + + S LDV + + C M + L ++ ++H
Sbjct: 163 GGQRARISLARAVYKDADLYLLDSPFGYLDVFTEEQVFESCVCKLMANKTRILVTSKMEH 222
Query: 185 RNALQKELTRHMPSSQSQSLF 205
K L H SS F
Sbjct: 223 LRKADKILILHQGSSYFYGTF 243
>pdb|2PZE|A Chain A, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer
pdb|2PZE|B Chain B, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer
Length = 229
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 63/159 (39%), Gaps = 15/159 (9%)
Query: 56 TEQRLIHDNKV----KNEWVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCE 108
+E ++ H ++ + W+M T ++ G ++Y + R K+C + +D
Sbjct: 61 SEGKIKHSGRISFCSQFSWIMPGTIKENIIFG-VSYDEYRYRSVIKACQLE-----EDIS 114
Query: 109 K-GEESFTVQGSYGTKIEAVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNIT 166
K E+ V G G + R RI ++ A + + S LDVL I +
Sbjct: 115 KFAEKDNIVLGEGGITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCV 174
Query: 167 CIKMKGENHKLPSANLQHRNALQKELTRHMPSSQSQSLF 205
C M + L ++ ++H K L H SS F
Sbjct: 175 CKLMANKTRILVTSKMEHLKKADKILILHEGSSYFYGTF 213
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 10/72 (13%)
Query: 8 ISNSTKHRIESLSKADEETCPICQEKLGNQKMVFQCGHFTCCKCFFAMTEQRLIHDNKVK 67
I++ + + S E CPIC + L N +C H C C L NK
Sbjct: 18 ITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITA----LRSGNK-- 71
Query: 68 NEWVMCPTCRQR 79
CPTCR++
Sbjct: 72 ----ECPTCRKK 79
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 25/63 (39%), Gaps = 6/63 (9%)
Query: 23 DEETCPICQEKLGNQKMVFQCGHFTCCKCFFAMTEQRLIHDNKVKNEWVMCPTCRQRTDI 82
+E TCPIC E L + + C H C C E D K CP CR
Sbjct: 18 EEVTCPICLELL-KEPVSADCNHSFCRACITLNYESNRNTDGKGN-----CPVCRVPYPF 71
Query: 83 GNI 85
GN+
Sbjct: 72 GNL 74
>pdb|2PZG|A Chain A, Minimal Human Cftr First Nucleotide Binding Domain As A
Monomer
pdb|2PZG|B Chain B, Minimal Human Cftr First Nucleotide Binding Domain As A
Monomer
Length = 241
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 63/159 (39%), Gaps = 15/159 (9%)
Query: 56 TEQRLIHDNKV----KNEWVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCE 108
+E ++ H ++ + W+M T ++ G ++Y + R K+C + +D
Sbjct: 73 SEGKIKHSGRISFCSQFSWIMPGTIKENIIFG-VSYDEYRYRSVIKACQLE-----EDIS 126
Query: 109 K-GEESFTVQGSYGTKIEAVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNIT 166
K E+ V G G + R RI ++ A + + S LDVL I +
Sbjct: 127 KFAEKDNIVLGEGGITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCV 186
Query: 167 CIKMKGENHKLPSANLQHRNALQKELTRHMPSSQSQSLF 205
C M + L ++ ++H K L H SS F
Sbjct: 187 CKLMANKTRILVTSKMEHLKKADKILILHEGSSYFYGTF 225
>pdb|1XMI|A Chain A, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|B Chain B, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|C Chain C, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|D Chain D, Crystal Structure Of Human F508a Nbd1 Domain With Atp
pdb|1XMI|E Chain E, Crystal Structure Of Human F508a Nbd1 Domain With Atp
Length = 291
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 63/159 (39%), Gaps = 15/159 (9%)
Query: 56 TEQRLIHDNKV----KNEWVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCE 108
+E ++ H ++ + W+M T ++ I ++Y + R K+C + +D
Sbjct: 91 SEGKIKHSGRISFCSQFSWIMPGTIKENI-IAGVSYDEYRYRSVIKACQLE-----EDIS 144
Query: 109 K-GEESFTVQGSYGTKIEAVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNIT 166
K E+ V G G + R RI ++ A + + S LDVL I +
Sbjct: 145 KFAEKDNIVLGEGGITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCV 204
Query: 167 CIKMKGENHKLPSANLQHRNALQKELTRHMPSSQSQSLF 205
C M + L ++ ++H K L H SS F
Sbjct: 205 CKLMANKTRILVTSKMEHLKKADKILILHEGSSYFYGTF 243
>pdb|2PZF|A Chain A, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer With Delta F508
pdb|2PZF|B Chain B, Minimal Human Cftr First Nucleotide Binding Domain As A
Head-To-Tail Dimer With Delta F508
Length = 228
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 64/159 (40%), Gaps = 16/159 (10%)
Query: 56 TEQRLIHDNKV----KNEWVMCPTCRQRTDIGNIAYADDRQD---KSCNSDMPHGVQDCE 108
+E ++ H ++ + W+M T ++ +I ++Y + R K+C + +D
Sbjct: 61 SEGKIKHSGRISFCSQFSWIMPGTIKE--NIIGVSYDEYRYRSVIKACQLE-----EDIS 113
Query: 109 K-GEESFTVQGSYGTKIEAVTR-RILWIKSTDPKAKILVFSSWNDVLDVLEHAFIANNIT 166
K E+ V G G + R RI ++ A + + S LDVL I +
Sbjct: 114 KFAEKDNIVLGEGGITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVLTEKEIFESCV 173
Query: 167 CIKMKGENHKLPSANLQHRNALQKELTRHMPSSQSQSLF 205
C M + L ++ ++H K L H SS F
Sbjct: 174 CKLMANKTRILVTSKMEHLKKADKILILHEGSSYFYGTF 212
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 15/69 (21%)
Query: 9 SNSTKHRIESLSKADEETCPICQEKLGNQKMVFQCGHFTCCKCFFAMTEQRLIHDNKVKN 68
S+ + R++ L+ DEE C IC + G ++ C H C KC +++ H N
Sbjct: 2 SSGSSGRVKQLT--DEEECCICMD--GRADLILPCAHSFCQKCIDKWSDR---HRN---- 50
Query: 69 EWVMCPTCR 77
CP CR
Sbjct: 51 ----CPICR 55
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 23 DEETCPICQEKLGNQKMVFQCGHFTCCKCF 52
+E TCPIC E L + + CGH C C
Sbjct: 11 EEVTCPICLELL-TEPLSLDCGHSLCRACI 39
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 19/53 (35%), Gaps = 11/53 (20%)
Query: 25 ETCPICQEKLGNQKMVFQCGHFTCCKCFFAMTEQRLIHDNKVKNEWVMCPTCR 77
E CPIC E N M C H C C R I N CP C+
Sbjct: 6 ERCPICLEDPSNYSMALPCLHAFCYVCI-----TRWIRQNPT------CPLCK 47
>pdb|1VJV|A Chain A, Crystal Structure Of Ubiquitin Carboxyl-terminal Hydrolase
6 (yfr010w) From Saccharomyces Cerevisiae At 1.74 A
Resolution
Length = 415
Score = 26.9 bits (58), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 130 RILWIKSTDPKAKIL---VFSSWNDVLDVLEHAFIANNI 165
R W +ST+ K+KIL VF DV D L + A +
Sbjct: 232 RFFWKRSTNKKSKILRKVVFPFQLDVADXLTPEYAAEKV 270
>pdb|2A66|A Chain A, Human Liver Receptor Homologue Dna-Binding Domain
(Hlrh-1 Dbd) In Complex With Dsdna From The Hcyp7a1
Promoter
Length = 113
Score = 26.6 bits (57), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 22/68 (32%)
Query: 24 EETCPICQEKLGNQKMVFQCGHFTC--CKCFFAMTEQRLIHDNKV------------KNE 69
EE CP+C +K+ + G TC CK FF +R + +NK K +
Sbjct: 9 EELCPVCGDKVSG----YHYGLLTCESCKGFF----KRTVQNNKRYTCIENQNCQIDKTQ 60
Query: 70 WVMCPTCR 77
CP CR
Sbjct: 61 RKRCPYCR 68
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.130 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,039,027
Number of Sequences: 62578
Number of extensions: 224194
Number of successful extensions: 451
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 445
Number of HSP's gapped (non-prelim): 37
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)