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= psy4179
(89 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RTR|A Chain A, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|C Chain C, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|E Chain E, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|G Chain G, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
Length = 368
Score = 145 bits (365), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 72/89 (80%), Positives = 77/89 (86%)
Query: 1 MKTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVH 60
MKTE K EQETTHK+IEEDRKLLIQAAIVRIMKMRK L+HQQL+ EVL Q+S RFKPRV
Sbjct: 280 MKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVP 339
Query: 61 VIKKCIDILIEKEYLERTETHKDMYHYLA 89
VIKKCIDILIEKEYLER + KD Y YLA
Sbjct: 340 VIKKCIDILIEKEYLERVDGEKDTYSYLA 368
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 144 bits (364), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 72/89 (80%), Positives = 77/89 (86%)
Query: 1 MKTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVH 60
MKTE K EQETTHK+IEEDRKLLIQAAIVRIMKMRK L+HQQL+ EVL Q+S RFKPRV
Sbjct: 278 MKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVP 337
Query: 61 VIKKCIDILIEKEYLERTETHKDMYHYLA 89
VIKKCIDILIEKEYLER + KD Y YLA
Sbjct: 338 VIKKCIDILIEKEYLERVDGEKDTYSYLA 366
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 144 bits (363), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 72/89 (80%), Positives = 77/89 (86%)
Query: 1 MKTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVH 60
MKTE K EQETTHK+IEEDRKLLIQAAIVRIMKMRK L+HQQL+ EVL Q+S RFKPRV
Sbjct: 672 MKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVP 731
Query: 61 VIKKCIDILIEKEYLERTETHKDMYHYLA 89
VIKKCIDILIEKEYLER + KD Y YLA
Sbjct: 732 VIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 144 bits (363), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 72/89 (80%), Positives = 77/89 (86%)
Query: 1 MKTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVH 60
MKTE K EQETTHK+IEEDRKLLIQAAIVRIMKMRK L+HQQL+ EVL Q+S RFKPRV
Sbjct: 688 MKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVP 747
Query: 61 VIKKCIDILIEKEYLERTETHKDMYHYLA 89
VIKKCIDILIEKEYLER + KD Y YLA
Sbjct: 748 VIKKCIDILIEKEYLERVDGEKDTYSYLA 776
>pdb|3TDU|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer
Within An Interconnected Multiprotein Complex:
Structure Of A Human Cul1whb- Dcn1p-Acetylated Ubc12n
Complex
pdb|3TDU|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer
Within An Interconnected Multiprotein Complex:
Structure Of A Human Cul1whb- Dcn1p-Acetylated Ubc12n
Complex
pdb|3TDZ|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer
Within An Interconnected Multiprotein Complex:
Structure Of A Human Cul1whb- Dcn1p-Stapled Acetylated
Ubc12n Complex
pdb|3TDZ|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer
Within An Interconnected Multiprotein Complex:
Structure Of A Human Cul1whb- Dcn1p-Stapled Acetylated
Ubc12n Complex
Length = 77
Score = 122 bits (307), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 60/77 (77%), Positives = 65/77 (84%)
Query: 13 HKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDILIEK 72
+IEEDRKLLIQAAIVRIMKMRK L+HQQL+ EVL Q+S RFKPRV VIKKCIDILIEK
Sbjct: 1 GSNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEK 60
Query: 73 EYLERTETHKDMYHYLA 89
EYLER + KD Y YLA
Sbjct: 61 EYLERVDGEKDTYSYLA 77
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 44/88 (50%), Positives = 59/88 (67%)
Query: 2 KTELKLEQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHV 61
+ E E++ T + +++DRK I+AAIVRIMK RK +QH LVAEV Q+ RF P V
Sbjct: 5 QGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVV 64
Query: 62 IKKCIDILIEKEYLERTETHKDMYHYLA 89
IKK I+ LIE+EYL RT + +Y Y+A
Sbjct: 65 IKKRIEGLIEREYLARTPEDRKVYTYVA 92
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif
Of Human Cul-4b
Length = 101
Score = 76.6 bits (187), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 57/82 (69%), Gaps = 2/82 (2%)
Query: 8 EQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCID 67
EQ +T + + +DR+ I AAIVRIMKMRKTL H LV+EV NQ+ KP +KK I+
Sbjct: 16 EQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIE 73
Query: 68 ILIEKEYLERTETHKDMYHYLA 89
LI+++Y+ER + + + Y+Y+A
Sbjct: 74 SLIDRDYMERDKENPNQYNYIA 95
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 57/82 (69%), Gaps = 2/82 (2%)
Query: 8 EQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCID 67
EQ +T + + +DR+ I AAIVRIMKMRKTL H LV+E+ NQ+ KP +KK I+
Sbjct: 680 EQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKP--GDLKKRIE 737
Query: 68 ILIEKEYLERTETHKDMYHYLA 89
LI+++Y+ER + + + YHY+A
Sbjct: 738 SLIDRDYMERDKDNPNQYHYVA 759
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 57/82 (69%), Gaps = 2/82 (2%)
Query: 8 EQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCID 67
EQ +T + + +DR+ I AAIVRIMKMRKTL H LV+E+ NQ+ KP +KK I+
Sbjct: 663 EQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKP--GDLKKRIE 720
Query: 68 ILIEKEYLERTETHKDMYHYLA 89
LI+++Y+ER + + + YHY+A
Sbjct: 721 SLIDRDYMERDKDNPNQYHYVA 742
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|E Chain E, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 741
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 57/82 (69%), Gaps = 2/82 (2%)
Query: 8 EQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCID 67
EQ +T + + +DR+ I AAIVRIMKMRKTL H LV+EV NQ+ KP +KK I+
Sbjct: 662 EQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIE 719
Query: 68 ILIEKEYLERTETHKDMYHYLA 89
LI+++Y+ER + + + Y+Y+A
Sbjct: 720 SLIDRDYMERDKENPNQYNYIA 741
>pdb|4A0L|E Chain E, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|H Chain H, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 726
Score = 74.7 bits (182), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 39/82 (47%), Positives = 57/82 (69%), Gaps = 2/82 (2%)
Query: 8 EQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCID 67
EQ +T + + +DR+ I AAIVRIMKMRKTL H LV+EV NQ+ KP +KK I+
Sbjct: 647 EQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP--ADLKKRIE 704
Query: 68 ILIEKEYLERTETHKDMYHYLA 89
LI+++Y+ER + + + Y+Y+A
Sbjct: 705 SLIDRDYMERDKENPNQYNYIA 726
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/82 (40%), Positives = 50/82 (60%), Gaps = 1/82 (1%)
Query: 8 EQETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCID 67
E E K + +R++ ++A IVRIMK ++ L H LV E + Q RF +V ++K+ ID
Sbjct: 8 EDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAID 67
Query: 68 ILIEKEYLERTETHKDMYHYLA 89
LI+K YL+R + + Y YLA
Sbjct: 68 SLIQKGYLQRGD-DGESYAYLA 88
>pdb|3O6B|B Chain B, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|D Chain D, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|F Chain F, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|H Chain H, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|J Chain J, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
Length = 76
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 47/74 (63%), Gaps = 1/74 (1%)
Query: 16 IEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDILIEKEYL 75
+ +R++ ++A IVRIMK ++ L H LV E + Q RF +V ++K+ ID LI+K YL
Sbjct: 4 LNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYL 63
Query: 76 ERTETHKDMYHYLA 89
+R + + Y YLA
Sbjct: 64 QRGD-DGESYAYLA 76
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 50/81 (61%)
Query: 9 QETTHKHIEEDRKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDI 68
+E ++ I + R L Q AI++IMKMRK + + QL E++ + F P+ +IK+ I+
Sbjct: 302 REEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEW 361
Query: 69 LIEKEYLERTETHKDMYHYLA 89
LIE +Y+ R E+ + + Y+A
Sbjct: 362 LIEHKYIRRDESDINTFIYMA 382
>pdb|3DQV|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|D Chain D, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 40.4 bits (93), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 40/70 (57%)
Query: 20 RKLLIQAAIVRIMKMRKTLQHQQLVAEVLNQISLRFKPRVHVIKKCIDILIEKEYLERTE 79
R L Q AI++I K RK + + QL E++ + F P+ IK+ I+ LIE +Y+ R E
Sbjct: 313 RILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEWLIEHKYIRRDE 372
Query: 80 THKDMYHYLA 89
+ + + Y A
Sbjct: 373 SDINTFIYXA 382
>pdb|3C5H|A Chain A, Crystal Structure Of The Ras Homolog Domain Of Human Grlf1
(P190rhogap)
Length = 255
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 4 ELKLEQETTHKHIEEDRKLLIQAAIVRI---MKMRKTLQHQ-QLVAEVLNQISLRFKPRV 59
+L LEQ+ K + D KLL+ ++ I M + Q + V+ + NQ++ KP V
Sbjct: 144 QLGLEQDFEQKQMP-DGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIV 202
Query: 60 HVIKKC 65
V+ KC
Sbjct: 203 VVLTKC 208
>pdb|1BVP|1 Chain 1, The Crystal Structure Of Bluetongue Virus Vp7
pdb|1BVP|2 Chain 2, The Crystal Structure Of Bluetongue Virus Vp7
pdb|1BVP|3 Chain 3, The Crystal Structure Of Bluetongue Virus Vp7
pdb|1BVP|4 Chain 4, The Crystal Structure Of Bluetongue Virus Vp7
pdb|1BVP|5 Chain 5, The Crystal Structure Of Bluetongue Virus Vp7
pdb|1BVP|6 Chain 6, The Crystal Structure Of Bluetongue Virus Vp7
Length = 349
Score = 29.3 bits (64), Expect = 0.59, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 9 QETTHKHIEEDRKLLIQAAIVRIMKMRKTL-QHQQLVAEVLNQISLR 54
Q H H + ++Q +V + M KTL Q+ L AE+ N S R
Sbjct: 228 QAALHVHNPTQQNAMVQIQVVFYISMDKTLNQYPALTAEIFNVYSFR 274
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
0.323 0.135 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,216,138
Number of Sequences: 62578
Number of extensions: 60102
Number of successful extensions: 190
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 164
Number of HSP's gapped (non-prelim): 24
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)